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pyerrors/docs/pyerrors/input/openQCD.html
fjosw ea4d74e9cf Documentation updated
2023-05-26 12:02:52 +00:00

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<h2>API Documentation</h2>
<ul class="memberlist">
<li>
<a class="function" href="#read_rwms">read_rwms</a>
</li>
<li>
<a class="function" href="#extract_t0">extract_t0</a>
</li>
<li>
<a class="function" href="#extract_w0">extract_w0</a>
</li>
<li>
<a class="function" href="#read_qtop">read_qtop</a>
</li>
<li>
<a class="function" href="#read_gf_coupling">read_gf_coupling</a>
</li>
<li>
<a class="function" href="#qtop_projection">qtop_projection</a>
</li>
<li>
<a class="function" href="#read_qtop_sector">read_qtop_sector</a>
</li>
<li>
<a class="function" href="#read_ms5_xsf">read_ms5_xsf</a>
</li>
</ul>
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<h1 class="modulename">
<a href="./../../pyerrors.html">pyerrors</a><wbr>.<a href="./../input.html">input</a><wbr>.openQCD </h1>
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<div class="pdoc-code codehilite"><pre><span></span><span id="L-1"><a href="#L-1"><span class="linenos"> 1</span></a><span class="kn">import</span> <span class="nn">os</span>
</span><span id="L-2"><a href="#L-2"><span class="linenos"> 2</span></a><span class="kn">import</span> <span class="nn">fnmatch</span>
</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">import</span> <span class="nn">struct</span>
</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</span></a><span class="kn">import</span> <span class="nn">warnings</span>
</span><span id="L-5"><a href="#L-5"><span class="linenos"> 5</span></a><span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span> <span class="c1"># Thinly-wrapped numpy</span>
</span><span id="L-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">Obs</span>
</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="kn">from</span> <span class="nn">..obs</span> <span class="kn">import</span> <span class="n">CObs</span>
</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a><span class="kn">from</span> <span class="nn">..correlators</span> <span class="kn">import</span> <span class="n">Corr</span>
</span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="kn">from</span> <span class="nn">.misc</span> <span class="kn">import</span> <span class="n">fit_t0</span>
</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="kn">from</span> <span class="nn">.utils</span> <span class="kn">import</span> <span class="n">sort_names</span>
</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a>
</span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a>
</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="k">def</span> <span class="nf">read_rwms</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span><span class="p">,</span> <span class="n">names</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read rwms format from given folder structure. Returns a list of length nrw</span>
</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a>
</span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a><span class="sd"> Parameters</span>
</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd"> ----------</span>
</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a><span class="sd"> path : str</span>
</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd"> path that contains the data files</span>
</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd"> prefix : str</span>
</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd"> all files in path that start with prefix are considered as input files.</span>
</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd"> May be used together postfix to consider only special file endings.</span>
</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd"> Prefix is ignored, if the keyword &#39;files&#39; is used.</span>
</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a><span class="sd"> version : str</span>
</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a><span class="sd"> version of openQCD, default 2.0</span>
</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a><span class="sd"> names : list</span>
</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a><span class="sd"> list of names that is assigned to the data according according</span>
</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a><span class="sd"> to the order in the file list. Use careful, if you do not provide file names!</span>
</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a><span class="sd"> r_start : list</span>
</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a><span class="sd"> list which contains the first config to be read for each replicum</span>
</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a><span class="sd"> list which contains the last config to be read for each replicum</span>
</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a><span class="sd"> r_step : int</span>
</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a><span class="sd"> integer that defines a fixed step size between two measurements (in units of configs)</span>
</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a><span class="sd"> If not given, r_step=1 is assumed.</span>
</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a><span class="sd"> postfix : str</span>
</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a><span class="sd"> postfix of the file to read, e.g. &#39;.ms1&#39; for openQCD-files</span>
</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a><span class="sd"> files : list</span>
</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</span></a><span class="sd"> list which contains the filenames to be read. No automatic detection of</span>
</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a><span class="sd"> files performed if given.</span>
</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</span></a><span class="sd"> print_err : bool</span>
</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</span></a><span class="sd"> Print additional information that is useful for debugging.</span>
</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</span></a>
</span><span id="L-44"><a href="#L-44"><span class="linenos"> 44</span></a><span class="sd"> Returns</span>
</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a><span class="sd"> -------</span>
</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a><span class="sd"> rwms : Obs</span>
</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a><span class="sd"> Reweighting factors read</span>
</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a> <span class="n">known_oqcd_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;1.4&#39;</span><span class="p">,</span> <span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]</span>
</span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">version</span> <span class="ow">in</span> <span class="n">known_oqcd_versions</span><span class="p">):</span>
</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown openQCD version defined!&#39;</span><span class="p">)</span>
</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</span></a> <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Working with openQCD version &quot;</span> <span class="o">+</span> <span class="n">version</span><span class="p">)</span>
</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</span></a> <span class="k">if</span> <span class="s1">&#39;postfix&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;postfix&#39;</span><span class="p">)</span>
</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a>
</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a> <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a>
</span><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="n">_find_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="s1">&#39;dat&#39;</span><span class="p">,</span> <span class="n">known_files</span><span class="o">=</span><span class="n">known_files</span><span class="p">)</span>
</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a>
</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a> <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</span></a>
</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a> <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a>
</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a> <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="L-79"><a href="#L-79"><span class="linenos"> 79</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a>
</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a> <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a> <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</span></a> <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</span></a>
</span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read reweighting factors from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span>
</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a>
</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</span></a> <span class="k">if</span> <span class="n">names</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="L-91"><a href="#L-91"><span class="linenos"> 91</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</span></a> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</span></a> <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span>
</span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</span></a> <span class="n">suffixes</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;.dat&quot;</span><span class="p">,</span> <span class="s2">&quot;.rwms&quot;</span><span class="p">,</span> <span class="s2">&quot;.ms1&quot;</span><span class="p">]</span>
</span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</span></a> <span class="k">for</span> <span class="n">suffix</span> <span class="ow">in</span> <span class="n">suffixes</span><span class="p">:</span>
</span><span id="L-96"><a href="#L-96"><span class="linenos"> 96</span></a> <span class="k">if</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="n">suffix</span><span class="p">):</span>
</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</span></a> <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">suffix</span><span class="p">)]</span>
</span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a> <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a> <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
</span><span id="L-100"><a href="#L-100"><span class="linenos"> 100</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-101"><a href="#L-101"><span class="linenos"> 101</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
</span><span id="L-102"><a href="#L-102"><span class="linenos"> 102</span></a>
</span><span id="L-103"><a href="#L-103"><span class="linenos"> 103</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="n">sort_names</span><span class="p">(</span><span class="n">rep_names</span><span class="p">)</span>
</span><span id="L-104"><a href="#L-104"><span class="linenos"> 104</span></a>
</span><span id="L-105"><a href="#L-105"><span class="linenos"> 105</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
</span><span id="L-106"><a href="#L-106"><span class="linenos"> 106</span></a> <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-107"><a href="#L-107"><span class="linenos"> 107</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="L-108"><a href="#L-108"><span class="linenos"> 108</span></a> <span class="nb">print</span><span class="p">()</span>
</span><span id="L-109"><a href="#L-109"><span class="linenos"> 109</span></a>
</span><span id="L-110"><a href="#L-110"><span class="linenos"> 110</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-111"><a href="#L-111"><span class="linenos"> 111</span></a>
</span><span id="L-112"><a href="#L-112"><span class="linenos"> 112</span></a> <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-113"><a href="#L-113"><span class="linenos"> 113</span></a> <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-114"><a href="#L-114"><span class="linenos"> 114</span></a> <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-115"><a href="#L-115"><span class="linenos"> 115</span></a>
</span><span id="L-116"><a href="#L-116"><span class="linenos"> 116</span></a> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
</span><span id="L-117"><a href="#L-117"><span class="linenos"> 117</span></a> <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-118"><a href="#L-118"><span class="linenos"> 118</span></a> <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
</span><span id="L-119"><a href="#L-119"><span class="linenos"> 119</span></a>
</span><span id="L-120"><a href="#L-120"><span class="linenos"> 120</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span> <span class="c1"># number of reweighting factors</span>
</span><span id="L-121"><a href="#L-121"><span class="linenos"> 121</span></a> <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="L-122"><a href="#L-122"><span class="linenos"> 122</span></a> <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-123"><a href="#L-123"><span class="linenos"> 123</span></a> <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
</span><span id="L-124"><a href="#L-124"><span class="linenos"> 124</span></a> <span class="n">nrw</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">nrw</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)</span>
</span><span id="L-125"><a href="#L-125"><span class="linenos"> 125</span></a> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-126"><a href="#L-126"><span class="linenos"> 126</span></a> <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-127"><a href="#L-127"><span class="linenos"> 127</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-128"><a href="#L-128"><span class="linenos"> 128</span></a> <span class="k">if</span> <span class="p">((</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="p">(</span><span class="ow">not</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">))</span> <span class="ow">or</span> <span class="p">(</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">)):</span>
</span><span id="L-129"><a href="#L-129"><span class="linenos"> 129</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of reweighting factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
</span><span id="L-130"><a href="#L-130"><span class="linenos"> 130</span></a>
</span><span id="L-131"><a href="#L-131"><span class="linenos"> 131</span></a> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-132"><a href="#L-132"><span class="linenos"> 132</span></a> <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-133"><a href="#L-133"><span class="linenos"> 133</span></a>
</span><span id="L-134"><a href="#L-134"><span class="linenos"> 134</span></a> <span class="c1"># This block is necessary for openQCD1.6 and openQCD2.0 ms1 files</span>
</span><span id="L-135"><a href="#L-135"><span class="linenos"> 135</span></a> <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-136"><a href="#L-136"><span class="linenos"> 136</span></a> <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]:</span>
</span><span id="L-137"><a href="#L-137"><span class="linenos"> 137</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-138"><a href="#L-138"><span class="linenos"> 138</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-139"><a href="#L-139"><span class="linenos"> 139</span></a> <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="L-140"><a href="#L-140"><span class="linenos"> 140</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-141"><a href="#L-141"><span class="linenos"> 141</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-142"><a href="#L-142"><span class="linenos"> 142</span></a> <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
</span><span id="L-143"><a href="#L-143"><span class="linenos"> 143</span></a>
</span><span id="L-144"><a href="#L-144"><span class="linenos"> 144</span></a> <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-145"><a href="#L-145"><span class="linenos"> 145</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-146"><a href="#L-146"><span class="linenos"> 146</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-147"><a href="#L-147"><span class="linenos"> 147</span></a> <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="L-148"><a href="#L-148"><span class="linenos"> 148</span></a> <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
</span><span id="L-149"><a href="#L-149"><span class="linenos"> 149</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">))[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="L-150"><a href="#L-150"><span class="linenos"> 150</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;You are using the input for openQCD version 2.0, this is not correct.&quot;</span><span class="p">)</span>
</span><span id="L-151"><a href="#L-151"><span class="linenos"> 151</span></a>
</span><span id="L-152"><a href="#L-152"><span class="linenos"> 152</span></a> <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-153"><a href="#L-153"><span class="linenos"> 153</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-154"><a href="#L-154"><span class="linenos"> 154</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-155"><a href="#L-155"><span class="linenos"> 155</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
</span><span id="L-156"><a href="#L-156"><span class="linenos"> 156</span></a> <span class="k">break</span>
</span><span id="L-157"><a href="#L-157"><span class="linenos"> 157</span></a> <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-158"><a href="#L-158"><span class="linenos"> 158</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">config_no</span><span class="p">)</span>
</span><span id="L-159"><a href="#L-159"><span class="linenos"> 159</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-160"><a href="#L-160"><span class="linenos"> 160</span></a> <span class="k">if</span> <span class="p">(</span><span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">):</span>
</span><span id="L-161"><a href="#L-161"><span class="linenos"> 161</span></a> <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
</span><span id="L-162"><a href="#L-162"><span class="linenos"> 162</span></a> <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
</span><span id="L-163"><a href="#L-163"><span class="linenos"> 163</span></a> <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;arr&#39;</span><span class="p">]</span>
</span><span id="L-164"><a href="#L-164"><span class="linenos"> 164</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
</span><span id="L-165"><a href="#L-165"><span class="linenos"> 165</span></a> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;n&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]):</span>
</span><span id="L-166"><a href="#L-166"><span class="linenos"> 166</span></a> <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
</span><span id="L-167"><a href="#L-167"><span class="linenos"> 167</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="L-168"><a href="#L-168"><span class="linenos"> 168</span></a> <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
</span><span id="L-169"><a href="#L-169"><span class="linenos"> 169</span></a> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))),</span>
</span><span id="L-170"><a href="#L-170"><span class="linenos"> 170</span></a> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))))</span>
</span><span id="L-171"><a href="#L-171"><span class="linenos"> 171</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span>
</span><span id="L-172"><a href="#L-172"><span class="linenos"> 172</span></a> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
</span><span id="L-173"><a href="#L-173"><span class="linenos"> 173</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
</span><span id="L-174"><a href="#L-174"><span class="linenos"> 174</span></a> <span class="k">elif</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.6&#39;</span> <span class="ow">or</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.4&#39;</span><span class="p">:</span>
</span><span id="L-175"><a href="#L-175"><span class="linenos"> 175</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
</span><span id="L-176"><a href="#L-176"><span class="linenos"> 176</span></a> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
</span><span id="L-177"><a href="#L-177"><span class="linenos"> 177</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
</span><span id="L-178"><a href="#L-178"><span class="linenos"> 178</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
</span><span id="L-179"><a href="#L-179"><span class="linenos"> 179</span></a> <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-180"><a href="#L-180"><span class="linenos"> 180</span></a> <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
</span><span id="L-181"><a href="#L-181"><span class="linenos"> 181</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="L-182"><a href="#L-182"><span class="linenos"> 182</span></a> <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
</span><span id="L-183"><a href="#L-183"><span class="linenos"> 183</span></a> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))),</span>
</span><span id="L-184"><a href="#L-184"><span class="linenos"> 184</span></a> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))))</span>
</span><span id="L-185"><a href="#L-185"><span class="linenos"> 185</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
</span><span id="L-186"><a href="#L-186"><span class="linenos"> 186</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
</span><span id="L-187"><a href="#L-187"><span class="linenos"> 187</span></a> <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
</span><span id="L-188"><a href="#L-188"><span class="linenos"> 188</span></a>
</span><span id="L-189"><a href="#L-189"><span class="linenos"> 189</span></a> <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
</span><span id="L-190"><a href="#L-190"><span class="linenos"> 190</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="L-191"><a href="#L-191"><span class="linenos"> 191</span></a> <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">diffmeas</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="L-192"><a href="#L-192"><span class="linenos"> 192</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
</span><span id="L-193"><a href="#L-193"><span class="linenos"> 193</span></a> <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
</span><span id="L-194"><a href="#L-194"><span class="linenos"> 194</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="L-195"><a href="#L-195"><span class="linenos"> 195</span></a>
</span><span id="L-196"><a href="#L-196"><span class="linenos"> 196</span></a> <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="L-197"><a href="#L-197"><span class="linenos"> 197</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
</span><span id="L-198"><a href="#L-198"><span class="linenos"> 198</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-199"><a href="#L-199"><span class="linenos"> 199</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="L-200"><a href="#L-200"><span class="linenos"> 200</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="L-201"><a href="#L-201"><span class="linenos"> 201</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="L-202"><a href="#L-202"><span class="linenos"> 202</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="L-203"><a href="#L-203"><span class="linenos"> 203</span></a> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="L-204"><a href="#L-204"><span class="linenos"> 204</span></a>
</span><span id="L-205"><a href="#L-205"><span class="linenos"> 205</span></a> <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="L-206"><a href="#L-206"><span class="linenos"> 206</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
</span><span id="L-207"><a href="#L-207"><span class="linenos"> 207</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-208"><a href="#L-208"><span class="linenos"> 208</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="L-209"><a href="#L-209"><span class="linenos"> 209</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="L-210"><a href="#L-210"><span class="linenos"> 210</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="L-211"><a href="#L-211"><span class="linenos"> 211</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="L-212"><a href="#L-212"><span class="linenos"> 212</span></a> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="L-213"><a href="#L-213"><span class="linenos"> 213</span></a>
</span><span id="L-214"><a href="#L-214"><span class="linenos"> 214</span></a> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-215"><a href="#L-215"><span class="linenos"> 215</span></a> <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">])</span>
</span><span id="L-216"><a href="#L-216"><span class="linenos"> 216</span></a>
</span><span id="L-217"><a href="#L-217"><span class="linenos"> 217</span></a> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
</span><span id="L-218"><a href="#L-218"><span class="linenos"> 218</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
</span><span id="L-219"><a href="#L-219"><span class="linenos"> 219</span></a> <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
</span><span id="L-220"><a href="#L-220"><span class="linenos"> 220</span></a> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
</span><span id="L-221"><a href="#L-221"><span class="linenos"> 221</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
</span><span id="L-222"><a href="#L-222"><span class="linenos"> 222</span></a>
</span><span id="L-223"><a href="#L-223"><span class="linenos"> 223</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="s1">&#39;reweighting factors with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
</span><span id="L-224"><a href="#L-224"><span class="linenos"> 224</span></a> <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-225"><a href="#L-225"><span class="linenos"> 225</span></a> <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
</span><span id="L-226"><a href="#L-226"><span class="linenos"> 226</span></a>
</span><span id="L-227"><a href="#L-227"><span class="linenos"> 227</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="L-228"><a href="#L-228"><span class="linenos"> 228</span></a> <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
</span><span id="L-229"><a href="#L-229"><span class="linenos"> 229</span></a> <span class="k">return</span> <span class="n">result</span>
</span><span id="L-230"><a href="#L-230"><span class="linenos"> 230</span></a>
</span><span id="L-231"><a href="#L-231"><span class="linenos"> 231</span></a>
</span><span id="L-232"><a href="#L-232"><span class="linenos"> 232</span></a><span class="k">def</span> <span class="nf">_extract_flowed_energy_density</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">postfix</span><span class="o">=</span><span class="s1">&#39;ms&#39;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-233"><a href="#L-233"><span class="linenos"> 233</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Extract a dictionary with the flowed Yang-Mills action density from given .ms.dat files.</span>
</span><span id="L-234"><a href="#L-234"><span class="linenos"> 234</span></a><span class="sd"> Returns a dictionary with Obs as values and flow times as keys.</span>
</span><span id="L-235"><a href="#L-235"><span class="linenos"> 235</span></a>
</span><span id="L-236"><a href="#L-236"><span class="linenos"> 236</span></a><span class="sd"> It is assumed that all boundary effects have</span>
</span><span id="L-237"><a href="#L-237"><span class="linenos"> 237</span></a><span class="sd"> sufficiently decayed at x0=xmin.</span>
</span><span id="L-238"><a href="#L-238"><span class="linenos"> 238</span></a>
</span><span id="L-239"><a href="#L-239"><span class="linenos"> 239</span></a><span class="sd"> It is assumed that one measurement is performed for each config.</span>
</span><span id="L-240"><a href="#L-240"><span class="linenos"> 240</span></a><span class="sd"> If this is not the case, the resulting idl, as well as the handling</span>
</span><span id="L-241"><a href="#L-241"><span class="linenos"> 241</span></a><span class="sd"> of r_start, r_stop and r_step is wrong and the user has to correct</span>
</span><span id="L-242"><a href="#L-242"><span class="linenos"> 242</span></a><span class="sd"> this in the resulting observable.</span>
</span><span id="L-243"><a href="#L-243"><span class="linenos"> 243</span></a>
</span><span id="L-244"><a href="#L-244"><span class="linenos"> 244</span></a><span class="sd"> Parameters</span>
</span><span id="L-245"><a href="#L-245"><span class="linenos"> 245</span></a><span class="sd"> ----------</span>
</span><span id="L-246"><a href="#L-246"><span class="linenos"> 246</span></a><span class="sd"> path : str</span>
</span><span id="L-247"><a href="#L-247"><span class="linenos"> 247</span></a><span class="sd"> Path to .ms.dat files</span>
</span><span id="L-248"><a href="#L-248"><span class="linenos"> 248</span></a><span class="sd"> prefix : str</span>
</span><span id="L-249"><a href="#L-249"><span class="linenos"> 249</span></a><span class="sd"> Ensemble prefix</span>
</span><span id="L-250"><a href="#L-250"><span class="linenos"> 250</span></a><span class="sd"> dtr_read : int</span>
</span><span id="L-251"><a href="#L-251"><span class="linenos"> 251</span></a><span class="sd"> Determines how many trajectories should be skipped</span>
</span><span id="L-252"><a href="#L-252"><span class="linenos"> 252</span></a><span class="sd"> when reading the ms.dat files.</span>
</span><span id="L-253"><a href="#L-253"><span class="linenos"> 253</span></a><span class="sd"> Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
</span><span id="L-254"><a href="#L-254"><span class="linenos"> 254</span></a><span class="sd"> xmin : int</span>
</span><span id="L-255"><a href="#L-255"><span class="linenos"> 255</span></a><span class="sd"> First timeslice where the boundary</span>
</span><span id="L-256"><a href="#L-256"><span class="linenos"> 256</span></a><span class="sd"> effects have sufficiently decayed.</span>
</span><span id="L-257"><a href="#L-257"><span class="linenos"> 257</span></a><span class="sd"> spatial_extent : int</span>
</span><span id="L-258"><a href="#L-258"><span class="linenos"> 258</span></a><span class="sd"> spatial extent of the lattice, required for normalization.</span>
</span><span id="L-259"><a href="#L-259"><span class="linenos"> 259</span></a><span class="sd"> postfix : str</span>
</span><span id="L-260"><a href="#L-260"><span class="linenos"> 260</span></a><span class="sd"> Postfix of measurement file (Default: ms)</span>
</span><span id="L-261"><a href="#L-261"><span class="linenos"> 261</span></a><span class="sd"> r_start : list</span>
</span><span id="L-262"><a href="#L-262"><span class="linenos"> 262</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="L-263"><a href="#L-263"><span class="linenos"> 263</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-264"><a href="#L-264"><span class="linenos"> 264</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="L-265"><a href="#L-265"><span class="linenos"> 265</span></a><span class="sd"> r_step : int</span>
</span><span id="L-266"><a href="#L-266"><span class="linenos"> 266</span></a><span class="sd"> integer that defines a fixed step size between two measurements (in units of configs)</span>
</span><span id="L-267"><a href="#L-267"><span class="linenos"> 267</span></a><span class="sd"> If not given, r_step=1 is assumed.</span>
</span><span id="L-268"><a href="#L-268"><span class="linenos"> 268</span></a><span class="sd"> plaquette : bool</span>
</span><span id="L-269"><a href="#L-269"><span class="linenos"> 269</span></a><span class="sd"> If true extract the plaquette estimate of t0 instead.</span>
</span><span id="L-270"><a href="#L-270"><span class="linenos"> 270</span></a><span class="sd"> names : list</span>
</span><span id="L-271"><a href="#L-271"><span class="linenos"> 271</span></a><span class="sd"> list of names that is assigned to the data according according</span>
</span><span id="L-272"><a href="#L-272"><span class="linenos"> 272</span></a><span class="sd"> to the order in the file list. Use careful, if you do not provide file names!</span>
</span><span id="L-273"><a href="#L-273"><span class="linenos"> 273</span></a><span class="sd"> files : list</span>
</span><span id="L-274"><a href="#L-274"><span class="linenos"> 274</span></a><span class="sd"> list which contains the filenames to be read. No automatic detection of</span>
</span><span id="L-275"><a href="#L-275"><span class="linenos"> 275</span></a><span class="sd"> files performed if given.</span>
</span><span id="L-276"><a href="#L-276"><span class="linenos"> 276</span></a><span class="sd"> assume_thermalization : bool</span>
</span><span id="L-277"><a href="#L-277"><span class="linenos"> 277</span></a><span class="sd"> If True: If the first record divided by the distance between two measurements is larger than</span>
</span><span id="L-278"><a href="#L-278"><span class="linenos"> 278</span></a><span class="sd"> 1, it is assumed that this is due to thermalization and the first measurement belongs</span>
</span><span id="L-279"><a href="#L-279"><span class="linenos"> 279</span></a><span class="sd"> to the first config (default).</span>
</span><span id="L-280"><a href="#L-280"><span class="linenos"> 280</span></a><span class="sd"> If False: The config numbers are assumed to be traj_number // difference</span>
</span><span id="L-281"><a href="#L-281"><span class="linenos"> 281</span></a>
</span><span id="L-282"><a href="#L-282"><span class="linenos"> 282</span></a><span class="sd"> Returns</span>
</span><span id="L-283"><a href="#L-283"><span class="linenos"> 283</span></a><span class="sd"> -------</span>
</span><span id="L-284"><a href="#L-284"><span class="linenos"> 284</span></a><span class="sd"> E_dict : dictionary</span>
</span><span id="L-285"><a href="#L-285"><span class="linenos"> 285</span></a><span class="sd"> Dictionary with the flowed action density at flow times t</span>
</span><span id="L-286"><a href="#L-286"><span class="linenos"> 286</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-287"><a href="#L-287"><span class="linenos"> 287</span></a>
</span><span id="L-288"><a href="#L-288"><span class="linenos"> 288</span></a> <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-289"><a href="#L-289"><span class="linenos"> 289</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
</span><span id="L-290"><a href="#L-290"><span class="linenos"> 290</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-291"><a href="#L-291"><span class="linenos"> 291</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-292"><a href="#L-292"><span class="linenos"> 292</span></a>
</span><span id="L-293"><a href="#L-293"><span class="linenos"> 293</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="n">_find_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="s1">&#39;dat&#39;</span><span class="p">,</span> <span class="n">known_files</span><span class="o">=</span><span class="n">known_files</span><span class="p">)</span>
</span><span id="L-294"><a href="#L-294"><span class="linenos"> 294</span></a>
</span><span id="L-295"><a href="#L-295"><span class="linenos"> 295</span></a> <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
</span><span id="L-296"><a href="#L-296"><span class="linenos"> 296</span></a>
</span><span id="L-297"><a href="#L-297"><span class="linenos"> 297</span></a> <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-298"><a href="#L-298"><span class="linenos"> 298</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
</span><span id="L-299"><a href="#L-299"><span class="linenos"> 299</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
</span><span id="L-300"><a href="#L-300"><span class="linenos"> 300</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="L-301"><a href="#L-301"><span class="linenos"> 301</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
</span><span id="L-302"><a href="#L-302"><span class="linenos"> 302</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-303"><a href="#L-303"><span class="linenos"> 303</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
</span><span id="L-304"><a href="#L-304"><span class="linenos"> 304</span></a>
</span><span id="L-305"><a href="#L-305"><span class="linenos"> 305</span></a> <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-306"><a href="#L-306"><span class="linenos"> 306</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
</span><span id="L-307"><a href="#L-307"><span class="linenos"> 307</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
</span><span id="L-308"><a href="#L-308"><span class="linenos"> 308</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="L-309"><a href="#L-309"><span class="linenos"> 309</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-310"><a href="#L-310"><span class="linenos"> 310</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
</span><span id="L-311"><a href="#L-311"><span class="linenos"> 311</span></a>
</span><span id="L-312"><a href="#L-312"><span class="linenos"> 312</span></a> <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-313"><a href="#L-313"><span class="linenos"> 313</span></a> <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
</span><span id="L-314"><a href="#L-314"><span class="linenos"> 314</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-315"><a href="#L-315"><span class="linenos"> 315</span></a> <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="L-316"><a href="#L-316"><span class="linenos"> 316</span></a>
</span><span id="L-317"><a href="#L-317"><span class="linenos"> 317</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Extract flowed Yang-Mills action density from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">)</span>
</span><span id="L-318"><a href="#L-318"><span class="linenos"> 318</span></a>
</span><span id="L-319"><a href="#L-319"><span class="linenos"> 319</span></a> <span class="k">if</span> <span class="s1">&#39;names&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-320"><a href="#L-320"><span class="linenos"> 320</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;names&#39;</span><span class="p">)</span>
</span><span id="L-321"><a href="#L-321"><span class="linenos"> 321</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-322"><a href="#L-322"><span class="linenos"> 322</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-323"><a href="#L-323"><span class="linenos"> 323</span></a> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="L-324"><a href="#L-324"><span class="linenos"> 324</span></a> <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;.&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-325"><a href="#L-325"><span class="linenos"> 325</span></a> <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
</span><span id="L-326"><a href="#L-326"><span class="linenos"> 326</span></a> <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
</span><span id="L-327"><a href="#L-327"><span class="linenos"> 327</span></a>
</span><span id="L-328"><a href="#L-328"><span class="linenos"> 328</span></a> <span class="n">Ysum</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-329"><a href="#L-329"><span class="linenos"> 329</span></a>
</span><span id="L-330"><a href="#L-330"><span class="linenos"> 330</span></a> <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-331"><a href="#L-331"><span class="linenos"> 331</span></a> <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-332"><a href="#L-332"><span class="linenos"> 332</span></a> <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-333"><a href="#L-333"><span class="linenos"> 333</span></a>
</span><span id="L-334"><a href="#L-334"><span class="linenos"> 334</span></a> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
</span><span id="L-335"><a href="#L-335"><span class="linenos"> 335</span></a>
</span><span id="L-336"><a href="#L-336"><span class="linenos"> 336</span></a> <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
</span><span id="L-337"><a href="#L-337"><span class="linenos"> 337</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
</span><span id="L-338"><a href="#L-338"><span class="linenos"> 338</span></a> <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-339"><a href="#L-339"><span class="linenos"> 339</span></a> <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="L-340"><a href="#L-340"><span class="linenos"> 340</span></a> <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-341"><a href="#L-341"><span class="linenos"> 341</span></a> <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
</span><span id="L-342"><a href="#L-342"><span class="linenos"> 342</span></a> <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
</span><span id="L-343"><a href="#L-343"><span class="linenos"> 343</span></a> <span class="k">elif</span> <span class="n">dn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">or</span> <span class="n">nn</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">or</span> <span class="n">tmax</span> <span class="o">!=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]:</span>
</span><span id="L-344"><a href="#L-344"><span class="linenos"> 344</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Replica parameters do not match.&#39;</span><span class="p">)</span>
</span><span id="L-345"><a href="#L-345"><span class="linenos"> 345</span></a>
</span><span id="L-346"><a href="#L-346"><span class="linenos"> 346</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="L-347"><a href="#L-347"><span class="linenos"> 347</span></a> <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="L-348"><a href="#L-348"><span class="linenos"> 348</span></a> <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-349"><a href="#L-349"><span class="linenos"> 349</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Step size:&#39;</span><span class="p">,</span> <span class="n">eps</span><span class="p">,</span> <span class="s1">&#39;, Maximal t value:&#39;</span><span class="p">,</span> <span class="n">dn</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span><span class="p">)</span> <span class="o">*</span> <span class="n">eps</span><span class="p">)</span>
</span><span id="L-350"><a href="#L-350"><span class="linenos"> 350</span></a> <span class="k">elif</span> <span class="n">eps</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]:</span>
</span><span id="L-351"><a href="#L-351"><span class="linenos"> 351</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Values for eps do not match among replica.&#39;</span><span class="p">)</span>
</span><span id="L-352"><a href="#L-352"><span class="linenos"> 352</span></a>
</span><span id="L-353"><a href="#L-353"><span class="linenos"> 353</span></a> <span class="n">Ysl</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-354"><a href="#L-354"><span class="linenos"> 354</span></a>
</span><span id="L-355"><a href="#L-355"><span class="linenos"> 355</span></a> <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-356"><a href="#L-356"><span class="linenos"> 356</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-357"><a href="#L-357"><span class="linenos"> 357</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-358"><a href="#L-358"><span class="linenos"> 358</span></a> <span class="k">if</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
</span><span id="L-359"><a href="#L-359"><span class="linenos"> 359</span></a> <span class="k">break</span>
</span><span id="L-360"><a href="#L-360"><span class="linenos"> 360</span></a> <span class="n">nc</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-361"><a href="#L-361"><span class="linenos"> 361</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">nc</span><span class="p">)</span>
</span><span id="L-362"><a href="#L-362"><span class="linenos"> 362</span></a>
</span><span id="L-363"><a href="#L-363"><span class="linenos"> 363</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
</span><span id="L-364"><a href="#L-364"><span class="linenos"> 364</span></a> <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
</span><span id="L-365"><a href="#L-365"><span class="linenos"> 365</span></a> <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="L-366"><a href="#L-366"><span class="linenos"> 366</span></a> <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
</span><span id="L-367"><a href="#L-367"><span class="linenos"> 367</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
</span><span id="L-368"><a href="#L-368"><span class="linenos"> 368</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plaquette&#39;</span><span class="p">):</span>
</span><span id="L-369"><a href="#L-369"><span class="linenos"> 369</span></a> <span class="k">if</span> <span class="n">nc</span> <span class="o">%</span> <span class="n">dtr_read</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="L-370"><a href="#L-370"><span class="linenos"> 370</span></a> <span class="n">Ysl</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">))</span>
</span><span id="L-371"><a href="#L-371"><span class="linenos"> 371</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
</span><span id="L-372"><a href="#L-372"><span class="linenos"> 372</span></a>
</span><span id="L-373"><a href="#L-373"><span class="linenos"> 373</span></a> <span class="n">Ysum</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-374"><a href="#L-374"><span class="linenos"> 374</span></a> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysl</span><span class="p">):</span>
</span><span id="L-375"><a href="#L-375"><span class="linenos"> 375</span></a> <span class="n">Ysum</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span> <span class="o">+</span> <span class="n">xmin</span><span class="p">:</span>
</span><span id="L-376"><a href="#L-376"><span class="linenos"> 376</span></a> <span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span> <span class="o">-</span> <span class="n">xmin</span><span class="p">])</span>
</span><span id="L-377"><a href="#L-377"><span class="linenos"> 377</span></a> <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
</span><span id="L-378"><a href="#L-378"><span class="linenos"> 378</span></a>
</span><span id="L-379"><a href="#L-379"><span class="linenos"> 379</span></a> <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
</span><span id="L-380"><a href="#L-380"><span class="linenos"> 380</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="L-381"><a href="#L-381"><span class="linenos"> 381</span></a> <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;assume_thermalization&#39;</span><span class="p">,</span> <span class="kc">True</span><span class="p">)</span> <span class="ow">and</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="L-382"><a href="#L-382"><span class="linenos"> 382</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
</span><span id="L-383"><a href="#L-383"><span class="linenos"> 383</span></a> <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
</span><span id="L-384"><a href="#L-384"><span class="linenos"> 384</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="L-385"><a href="#L-385"><span class="linenos"> 385</span></a>
</span><span id="L-386"><a href="#L-386"><span class="linenos"> 386</span></a> <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="L-387"><a href="#L-387"><span class="linenos"> 387</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
</span><span id="L-388"><a href="#L-388"><span class="linenos"> 388</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-389"><a href="#L-389"><span class="linenos"> 389</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="L-390"><a href="#L-390"><span class="linenos"> 390</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="L-391"><a href="#L-391"><span class="linenos"> 391</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="L-392"><a href="#L-392"><span class="linenos"> 392</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="L-393"><a href="#L-393"><span class="linenos"> 393</span></a> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="L-394"><a href="#L-394"><span class="linenos"> 394</span></a>
</span><span id="L-395"><a href="#L-395"><span class="linenos"> 395</span></a> <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="L-396"><a href="#L-396"><span class="linenos"> 396</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
</span><span id="L-397"><a href="#L-397"><span class="linenos"> 397</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-398"><a href="#L-398"><span class="linenos"> 398</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="L-399"><a href="#L-399"><span class="linenos"> 399</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="L-400"><a href="#L-400"><span class="linenos"> 400</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="L-401"><a href="#L-401"><span class="linenos"> 401</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="L-402"><a href="#L-402"><span class="linenos"> 402</span></a> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="L-403"><a href="#L-403"><span class="linenos"> 403</span></a>
</span><span id="L-404"><a href="#L-404"><span class="linenos"> 404</span></a> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
</span><span id="L-405"><a href="#L-405"><span class="linenos"> 405</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
</span><span id="L-406"><a href="#L-406"><span class="linenos"> 406</span></a> <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
</span><span id="L-407"><a href="#L-407"><span class="linenos"> 407</span></a> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
</span><span id="L-408"><a href="#L-408"><span class="linenos"> 408</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
</span><span id="L-409"><a href="#L-409"><span class="linenos"> 409</span></a>
</span><span id="L-410"><a href="#L-410"><span class="linenos"> 410</span></a> <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
</span><span id="L-411"><a href="#L-411"><span class="linenos"> 411</span></a> <span class="n">E_dict</span> <span class="o">=</span> <span class="p">{}</span>
</span><span id="L-412"><a href="#L-412"><span class="linenos"> 412</span></a> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
</span><span id="L-413"><a href="#L-413"><span class="linenos"> 413</span></a> <span class="n">samples</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-414"><a href="#L-414"><span class="linenos"> 414</span></a> <span class="k">for</span> <span class="n">nrep</span><span class="p">,</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Ysum</span><span class="p">):</span>
</span><span id="L-415"><a href="#L-415"><span class="linenos"> 415</span></a> <span class="n">samples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-416"><a href="#L-416"><span class="linenos"> 416</span></a> <span class="k">for</span> <span class="n">cnfg</span> <span class="ow">in</span> <span class="n">rep</span><span class="p">:</span>
</span><span id="L-417"><a href="#L-417"><span class="linenos"> 417</span></a> <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg</span><span class="p">[</span><span class="n">n</span><span class="p">])</span>
</span><span id="L-418"><a href="#L-418"><span class="linenos"> 418</span></a> <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="n">samples</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">]</span>
</span><span id="L-419"><a href="#L-419"><span class="linenos"> 419</span></a> <span class="n">new_obs</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">samples</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
</span><span id="L-420"><a href="#L-420"><span class="linenos"> 420</span></a> <span class="n">E_dict</span><span class="p">[</span><span class="n">n</span> <span class="o">*</span> <span class="n">dn</span> <span class="o">*</span> <span class="n">eps</span><span class="p">]</span> <span class="o">=</span> <span class="n">new_obs</span> <span class="o">/</span> <span class="p">(</span><span class="n">spatial_extent</span> <span class="o">**</span> <span class="mi">3</span><span class="p">)</span>
</span><span id="L-421"><a href="#L-421"><span class="linenos"> 421</span></a>
</span><span id="L-422"><a href="#L-422"><span class="linenos"> 422</span></a> <span class="k">return</span> <span class="n">E_dict</span>
</span><span id="L-423"><a href="#L-423"><span class="linenos"> 423</span></a>
</span><span id="L-424"><a href="#L-424"><span class="linenos"> 424</span></a>
</span><span id="L-425"><a href="#L-425"><span class="linenos"> 425</span></a><span class="k">def</span> <span class="nf">extract_t0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">postfix</span><span class="o">=</span><span class="s1">&#39;ms&#39;</span><span class="p">,</span> <span class="n">c</span><span class="o">=</span><span class="mf">0.3</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-426"><a href="#L-426"><span class="linenos"> 426</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Extract t0/a^2 from given .ms.dat files. Returns t0 as Obs.</span>
</span><span id="L-427"><a href="#L-427"><span class="linenos"> 427</span></a>
</span><span id="L-428"><a href="#L-428"><span class="linenos"> 428</span></a><span class="sd"> It is assumed that all boundary effects have</span>
</span><span id="L-429"><a href="#L-429"><span class="linenos"> 429</span></a><span class="sd"> sufficiently decayed at x0=xmin.</span>
</span><span id="L-430"><a href="#L-430"><span class="linenos"> 430</span></a><span class="sd"> The data around the zero crossing of t^2&lt;E&gt; - c (where c=0.3 by default)</span>
</span><span id="L-431"><a href="#L-431"><span class="linenos"> 431</span></a><span class="sd"> is fitted with a linear function</span>
</span><span id="L-432"><a href="#L-432"><span class="linenos"> 432</span></a><span class="sd"> from which the exact root is extracted.</span>
</span><span id="L-433"><a href="#L-433"><span class="linenos"> 433</span></a>
</span><span id="L-434"><a href="#L-434"><span class="linenos"> 434</span></a><span class="sd"> It is assumed that one measurement is performed for each config.</span>
</span><span id="L-435"><a href="#L-435"><span class="linenos"> 435</span></a><span class="sd"> If this is not the case, the resulting idl, as well as the handling</span>
</span><span id="L-436"><a href="#L-436"><span class="linenos"> 436</span></a><span class="sd"> of r_start, r_stop and r_step is wrong and the user has to correct</span>
</span><span id="L-437"><a href="#L-437"><span class="linenos"> 437</span></a><span class="sd"> this in the resulting observable.</span>
</span><span id="L-438"><a href="#L-438"><span class="linenos"> 438</span></a>
</span><span id="L-439"><a href="#L-439"><span class="linenos"> 439</span></a><span class="sd"> Parameters</span>
</span><span id="L-440"><a href="#L-440"><span class="linenos"> 440</span></a><span class="sd"> ----------</span>
</span><span id="L-441"><a href="#L-441"><span class="linenos"> 441</span></a><span class="sd"> path : str</span>
</span><span id="L-442"><a href="#L-442"><span class="linenos"> 442</span></a><span class="sd"> Path to .ms.dat files</span>
</span><span id="L-443"><a href="#L-443"><span class="linenos"> 443</span></a><span class="sd"> prefix : str</span>
</span><span id="L-444"><a href="#L-444"><span class="linenos"> 444</span></a><span class="sd"> Ensemble prefix</span>
</span><span id="L-445"><a href="#L-445"><span class="linenos"> 445</span></a><span class="sd"> dtr_read : int</span>
</span><span id="L-446"><a href="#L-446"><span class="linenos"> 446</span></a><span class="sd"> Determines how many trajectories should be skipped</span>
</span><span id="L-447"><a href="#L-447"><span class="linenos"> 447</span></a><span class="sd"> when reading the ms.dat files.</span>
</span><span id="L-448"><a href="#L-448"><span class="linenos"> 448</span></a><span class="sd"> Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
</span><span id="L-449"><a href="#L-449"><span class="linenos"> 449</span></a><span class="sd"> xmin : int</span>
</span><span id="L-450"><a href="#L-450"><span class="linenos"> 450</span></a><span class="sd"> First timeslice where the boundary</span>
</span><span id="L-451"><a href="#L-451"><span class="linenos"> 451</span></a><span class="sd"> effects have sufficiently decayed.</span>
</span><span id="L-452"><a href="#L-452"><span class="linenos"> 452</span></a><span class="sd"> spatial_extent : int</span>
</span><span id="L-453"><a href="#L-453"><span class="linenos"> 453</span></a><span class="sd"> spatial extent of the lattice, required for normalization.</span>
</span><span id="L-454"><a href="#L-454"><span class="linenos"> 454</span></a><span class="sd"> fit_range : int</span>
</span><span id="L-455"><a href="#L-455"><span class="linenos"> 455</span></a><span class="sd"> Number of data points left and right of the zero</span>
</span><span id="L-456"><a href="#L-456"><span class="linenos"> 456</span></a><span class="sd"> crossing to be included in the linear fit. (Default: 5)</span>
</span><span id="L-457"><a href="#L-457"><span class="linenos"> 457</span></a><span class="sd"> postfix : str</span>
</span><span id="L-458"><a href="#L-458"><span class="linenos"> 458</span></a><span class="sd"> Postfix of measurement file (Default: ms)</span>
</span><span id="L-459"><a href="#L-459"><span class="linenos"> 459</span></a><span class="sd"> c: float</span>
</span><span id="L-460"><a href="#L-460"><span class="linenos"> 460</span></a><span class="sd"> Constant that defines the flow scale. Default 0.3 for t_0, choose 2./3 for t_1.</span>
</span><span id="L-461"><a href="#L-461"><span class="linenos"> 461</span></a><span class="sd"> r_start : list</span>
</span><span id="L-462"><a href="#L-462"><span class="linenos"> 462</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="L-463"><a href="#L-463"><span class="linenos"> 463</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-464"><a href="#L-464"><span class="linenos"> 464</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="L-465"><a href="#L-465"><span class="linenos"> 465</span></a><span class="sd"> r_step : int</span>
</span><span id="L-466"><a href="#L-466"><span class="linenos"> 466</span></a><span class="sd"> integer that defines a fixed step size between two measurements (in units of configs)</span>
</span><span id="L-467"><a href="#L-467"><span class="linenos"> 467</span></a><span class="sd"> If not given, r_step=1 is assumed.</span>
</span><span id="L-468"><a href="#L-468"><span class="linenos"> 468</span></a><span class="sd"> plaquette : bool</span>
</span><span id="L-469"><a href="#L-469"><span class="linenos"> 469</span></a><span class="sd"> If true extract the plaquette estimate of t0 instead.</span>
</span><span id="L-470"><a href="#L-470"><span class="linenos"> 470</span></a><span class="sd"> names : list</span>
</span><span id="L-471"><a href="#L-471"><span class="linenos"> 471</span></a><span class="sd"> list of names that is assigned to the data according according</span>
</span><span id="L-472"><a href="#L-472"><span class="linenos"> 472</span></a><span class="sd"> to the order in the file list. Use careful, if you do not provide file names!</span>
</span><span id="L-473"><a href="#L-473"><span class="linenos"> 473</span></a><span class="sd"> files : list</span>
</span><span id="L-474"><a href="#L-474"><span class="linenos"> 474</span></a><span class="sd"> list which contains the filenames to be read. No automatic detection of</span>
</span><span id="L-475"><a href="#L-475"><span class="linenos"> 475</span></a><span class="sd"> files performed if given.</span>
</span><span id="L-476"><a href="#L-476"><span class="linenos"> 476</span></a><span class="sd"> plot_fit : bool</span>
</span><span id="L-477"><a href="#L-477"><span class="linenos"> 477</span></a><span class="sd"> If true, the fit for the extraction of t0 is shown together with the data.</span>
</span><span id="L-478"><a href="#L-478"><span class="linenos"> 478</span></a><span class="sd"> assume_thermalization : bool</span>
</span><span id="L-479"><a href="#L-479"><span class="linenos"> 479</span></a><span class="sd"> If True: If the first record divided by the distance between two measurements is larger than</span>
</span><span id="L-480"><a href="#L-480"><span class="linenos"> 480</span></a><span class="sd"> 1, it is assumed that this is due to thermalization and the first measurement belongs</span>
</span><span id="L-481"><a href="#L-481"><span class="linenos"> 481</span></a><span class="sd"> to the first config (default).</span>
</span><span id="L-482"><a href="#L-482"><span class="linenos"> 482</span></a><span class="sd"> If False: The config numbers are assumed to be traj_number // difference</span>
</span><span id="L-483"><a href="#L-483"><span class="linenos"> 483</span></a>
</span><span id="L-484"><a href="#L-484"><span class="linenos"> 484</span></a><span class="sd"> Returns</span>
</span><span id="L-485"><a href="#L-485"><span class="linenos"> 485</span></a><span class="sd"> -------</span>
</span><span id="L-486"><a href="#L-486"><span class="linenos"> 486</span></a><span class="sd"> t0 : Obs</span>
</span><span id="L-487"><a href="#L-487"><span class="linenos"> 487</span></a><span class="sd"> Extracted t0</span>
</span><span id="L-488"><a href="#L-488"><span class="linenos"> 488</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-489"><a href="#L-489"><span class="linenos"> 489</span></a>
</span><span id="L-490"><a href="#L-490"><span class="linenos"> 490</span></a> <span class="n">E_dict</span> <span class="o">=</span> <span class="n">_extract_flowed_energy_density</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="L-491"><a href="#L-491"><span class="linenos"> 491</span></a> <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
</span><span id="L-492"><a href="#L-492"><span class="linenos"> 492</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">()):</span>
</span><span id="L-493"><a href="#L-493"><span class="linenos"> 493</span></a> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">t</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="L-494"><a href="#L-494"><span class="linenos"> 494</span></a>
</span><span id="L-495"><a href="#L-495"><span class="linenos"> 495</span></a> <span class="k">return</span> <span class="n">fit_t0</span><span class="p">(</span><span class="n">t2E_dict</span><span class="p">,</span> <span class="n">fit_range</span><span class="p">,</span> <span class="n">plot_fit</span><span class="o">=</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">))</span>
</span><span id="L-496"><a href="#L-496"><span class="linenos"> 496</span></a>
</span><span id="L-497"><a href="#L-497"><span class="linenos"> 497</span></a>
</span><span id="L-498"><a href="#L-498"><span class="linenos"> 498</span></a><span class="k">def</span> <span class="nf">extract_w0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">postfix</span><span class="o">=</span><span class="s1">&#39;ms&#39;</span><span class="p">,</span> <span class="n">c</span><span class="o">=</span><span class="mf">0.3</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-499"><a href="#L-499"><span class="linenos"> 499</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Extract w0/a from given .ms.dat files. Returns w0 as Obs.</span>
</span><span id="L-500"><a href="#L-500"><span class="linenos"> 500</span></a>
</span><span id="L-501"><a href="#L-501"><span class="linenos"> 501</span></a><span class="sd"> It is assumed that all boundary effects have</span>
</span><span id="L-502"><a href="#L-502"><span class="linenos"> 502</span></a><span class="sd"> sufficiently decayed at x0=xmin.</span>
</span><span id="L-503"><a href="#L-503"><span class="linenos"> 503</span></a><span class="sd"> The data around the zero crossing of t d(t^2&lt;E&gt;)/dt - (where c=0.3 by default)</span>
</span><span id="L-504"><a href="#L-504"><span class="linenos"> 504</span></a><span class="sd"> is fitted with a linear function</span>
</span><span id="L-505"><a href="#L-505"><span class="linenos"> 505</span></a><span class="sd"> from which the exact root is extracted.</span>
</span><span id="L-506"><a href="#L-506"><span class="linenos"> 506</span></a>
</span><span id="L-507"><a href="#L-507"><span class="linenos"> 507</span></a><span class="sd"> It is assumed that one measurement is performed for each config.</span>
</span><span id="L-508"><a href="#L-508"><span class="linenos"> 508</span></a><span class="sd"> If this is not the case, the resulting idl, as well as the handling</span>
</span><span id="L-509"><a href="#L-509"><span class="linenos"> 509</span></a><span class="sd"> of r_start, r_stop and r_step is wrong and the user has to correct</span>
</span><span id="L-510"><a href="#L-510"><span class="linenos"> 510</span></a><span class="sd"> this in the resulting observable.</span>
</span><span id="L-511"><a href="#L-511"><span class="linenos"> 511</span></a>
</span><span id="L-512"><a href="#L-512"><span class="linenos"> 512</span></a><span class="sd"> Parameters</span>
</span><span id="L-513"><a href="#L-513"><span class="linenos"> 513</span></a><span class="sd"> ----------</span>
</span><span id="L-514"><a href="#L-514"><span class="linenos"> 514</span></a><span class="sd"> path : str</span>
</span><span id="L-515"><a href="#L-515"><span class="linenos"> 515</span></a><span class="sd"> Path to .ms.dat files</span>
</span><span id="L-516"><a href="#L-516"><span class="linenos"> 516</span></a><span class="sd"> prefix : str</span>
</span><span id="L-517"><a href="#L-517"><span class="linenos"> 517</span></a><span class="sd"> Ensemble prefix</span>
</span><span id="L-518"><a href="#L-518"><span class="linenos"> 518</span></a><span class="sd"> dtr_read : int</span>
</span><span id="L-519"><a href="#L-519"><span class="linenos"> 519</span></a><span class="sd"> Determines how many trajectories should be skipped</span>
</span><span id="L-520"><a href="#L-520"><span class="linenos"> 520</span></a><span class="sd"> when reading the ms.dat files.</span>
</span><span id="L-521"><a href="#L-521"><span class="linenos"> 521</span></a><span class="sd"> Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
</span><span id="L-522"><a href="#L-522"><span class="linenos"> 522</span></a><span class="sd"> xmin : int</span>
</span><span id="L-523"><a href="#L-523"><span class="linenos"> 523</span></a><span class="sd"> First timeslice where the boundary</span>
</span><span id="L-524"><a href="#L-524"><span class="linenos"> 524</span></a><span class="sd"> effects have sufficiently decayed.</span>
</span><span id="L-525"><a href="#L-525"><span class="linenos"> 525</span></a><span class="sd"> spatial_extent : int</span>
</span><span id="L-526"><a href="#L-526"><span class="linenos"> 526</span></a><span class="sd"> spatial extent of the lattice, required for normalization.</span>
</span><span id="L-527"><a href="#L-527"><span class="linenos"> 527</span></a><span class="sd"> fit_range : int</span>
</span><span id="L-528"><a href="#L-528"><span class="linenos"> 528</span></a><span class="sd"> Number of data points left and right of the zero</span>
</span><span id="L-529"><a href="#L-529"><span class="linenos"> 529</span></a><span class="sd"> crossing to be included in the linear fit. (Default: 5)</span>
</span><span id="L-530"><a href="#L-530"><span class="linenos"> 530</span></a><span class="sd"> postfix : str</span>
</span><span id="L-531"><a href="#L-531"><span class="linenos"> 531</span></a><span class="sd"> Postfix of measurement file (Default: ms)</span>
</span><span id="L-532"><a href="#L-532"><span class="linenos"> 532</span></a><span class="sd"> c: float</span>
</span><span id="L-533"><a href="#L-533"><span class="linenos"> 533</span></a><span class="sd"> Constant that defines the flow scale. Default 0.3 for w_0, choose 2./3 for w_1.</span>
</span><span id="L-534"><a href="#L-534"><span class="linenos"> 534</span></a><span class="sd"> r_start : list</span>
</span><span id="L-535"><a href="#L-535"><span class="linenos"> 535</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="L-536"><a href="#L-536"><span class="linenos"> 536</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-537"><a href="#L-537"><span class="linenos"> 537</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="L-538"><a href="#L-538"><span class="linenos"> 538</span></a><span class="sd"> r_step : int</span>
</span><span id="L-539"><a href="#L-539"><span class="linenos"> 539</span></a><span class="sd"> integer that defines a fixed step size between two measurements (in units of configs)</span>
</span><span id="L-540"><a href="#L-540"><span class="linenos"> 540</span></a><span class="sd"> If not given, r_step=1 is assumed.</span>
</span><span id="L-541"><a href="#L-541"><span class="linenos"> 541</span></a><span class="sd"> plaquette : bool</span>
</span><span id="L-542"><a href="#L-542"><span class="linenos"> 542</span></a><span class="sd"> If true extract the plaquette estimate of w0 instead.</span>
</span><span id="L-543"><a href="#L-543"><span class="linenos"> 543</span></a><span class="sd"> names : list</span>
</span><span id="L-544"><a href="#L-544"><span class="linenos"> 544</span></a><span class="sd"> list of names that is assigned to the data according according</span>
</span><span id="L-545"><a href="#L-545"><span class="linenos"> 545</span></a><span class="sd"> to the order in the file list. Use careful, if you do not provide file names!</span>
</span><span id="L-546"><a href="#L-546"><span class="linenos"> 546</span></a><span class="sd"> files : list</span>
</span><span id="L-547"><a href="#L-547"><span class="linenos"> 547</span></a><span class="sd"> list which contains the filenames to be read. No automatic detection of</span>
</span><span id="L-548"><a href="#L-548"><span class="linenos"> 548</span></a><span class="sd"> files performed if given.</span>
</span><span id="L-549"><a href="#L-549"><span class="linenos"> 549</span></a><span class="sd"> plot_fit : bool</span>
</span><span id="L-550"><a href="#L-550"><span class="linenos"> 550</span></a><span class="sd"> If true, the fit for the extraction of w0 is shown together with the data.</span>
</span><span id="L-551"><a href="#L-551"><span class="linenos"> 551</span></a><span class="sd"> assume_thermalization : bool</span>
</span><span id="L-552"><a href="#L-552"><span class="linenos"> 552</span></a><span class="sd"> If True: If the first record divided by the distance between two measurements is larger than</span>
</span><span id="L-553"><a href="#L-553"><span class="linenos"> 553</span></a><span class="sd"> 1, it is assumed that this is due to thermalization and the first measurement belongs</span>
</span><span id="L-554"><a href="#L-554"><span class="linenos"> 554</span></a><span class="sd"> to the first config (default).</span>
</span><span id="L-555"><a href="#L-555"><span class="linenos"> 555</span></a><span class="sd"> If False: The config numbers are assumed to be traj_number // difference</span>
</span><span id="L-556"><a href="#L-556"><span class="linenos"> 556</span></a>
</span><span id="L-557"><a href="#L-557"><span class="linenos"> 557</span></a><span class="sd"> Returns</span>
</span><span id="L-558"><a href="#L-558"><span class="linenos"> 558</span></a><span class="sd"> -------</span>
</span><span id="L-559"><a href="#L-559"><span class="linenos"> 559</span></a><span class="sd"> w0 : Obs</span>
</span><span id="L-560"><a href="#L-560"><span class="linenos"> 560</span></a><span class="sd"> Extracted w0</span>
</span><span id="L-561"><a href="#L-561"><span class="linenos"> 561</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-562"><a href="#L-562"><span class="linenos"> 562</span></a>
</span><span id="L-563"><a href="#L-563"><span class="linenos"> 563</span></a> <span class="n">E_dict</span> <span class="o">=</span> <span class="n">_extract_flowed_energy_density</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="L-564"><a href="#L-564"><span class="linenos"> 564</span></a>
</span><span id="L-565"><a href="#L-565"><span class="linenos"> 565</span></a> <span class="n">ftimes</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
</span><span id="L-566"><a href="#L-566"><span class="linenos"> 566</span></a>
</span><span id="L-567"><a href="#L-567"><span class="linenos"> 567</span></a> <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
</span><span id="L-568"><a href="#L-568"><span class="linenos"> 568</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="n">ftimes</span><span class="p">:</span>
</span><span id="L-569"><a href="#L-569"><span class="linenos"> 569</span></a> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">t</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span>
</span><span id="L-570"><a href="#L-570"><span class="linenos"> 570</span></a>
</span><span id="L-571"><a href="#L-571"><span class="linenos"> 571</span></a> <span class="n">tdtt2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
</span><span id="L-572"><a href="#L-572"><span class="linenos"> 572</span></a> <span class="n">tdtt2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="o">=</span> <span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span> <span class="o">-</span> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">]])</span> <span class="o">/</span> <span class="p">(</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="L-573"><a href="#L-573"><span class="linenos"> 573</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">ftimes</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
</span><span id="L-574"><a href="#L-574"><span class="linenos"> 574</span></a> <span class="n">tdtt2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span><span class="p">]]</span> <span class="o">=</span> <span class="n">ftimes</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]]</span> <span class="o">-</span> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]])</span> <span class="o">/</span> <span class="p">(</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="L-575"><a href="#L-575"><span class="linenos"> 575</span></a> <span class="n">tdtt2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">=</span> <span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">-</span> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">]])</span> <span class="o">/</span> <span class="p">(</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">])</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="L-576"><a href="#L-576"><span class="linenos"> 576</span></a>
</span><span id="L-577"><a href="#L-577"><span class="linenos"> 577</span></a> <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">fit_t0</span><span class="p">(</span><span class="n">tdtt2E_dict</span><span class="p">,</span> <span class="n">fit_range</span><span class="p">,</span> <span class="n">plot_fit</span><span class="o">=</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">),</span> <span class="n">observable</span><span class="o">=</span><span class="s1">&#39;w0&#39;</span><span class="p">))</span>
</span><span id="L-578"><a href="#L-578"><span class="linenos"> 578</span></a>
</span><span id="L-579"><a href="#L-579"><span class="linenos"> 579</span></a>
</span><span id="L-580"><a href="#L-580"><span class="linenos"> 580</span></a><span class="k">def</span> <span class="nf">_parse_array_openQCD2</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">n</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">wa</span><span class="p">,</span> <span class="n">quadrupel</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
</span><span id="L-581"><a href="#L-581"><span class="linenos"> 581</span></a> <span class="n">arr</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-582"><a href="#L-582"><span class="linenos"> 582</span></a> <span class="k">if</span> <span class="n">d</span> <span class="o">==</span> <span class="mi">2</span><span class="p">:</span>
</span><span id="L-583"><a href="#L-583"><span class="linenos"> 583</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">n</span><span class="p">[</span><span class="mi">0</span><span class="p">]):</span>
</span><span id="L-584"><a href="#L-584"><span class="linenos"> 584</span></a> <span class="n">tmp</span> <span class="o">=</span> <span class="n">wa</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="n">n</span><span class="p">[</span><span class="mi">1</span><span class="p">]:(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">n</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="L-585"><a href="#L-585"><span class="linenos"> 585</span></a> <span class="k">if</span> <span class="n">quadrupel</span><span class="p">:</span>
</span><span id="L-586"><a href="#L-586"><span class="linenos"> 586</span></a> <span class="n">tmp2</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-587"><a href="#L-587"><span class="linenos"> 587</span></a> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">tmp</span><span class="p">),</span> <span class="mi">2</span><span class="p">):</span>
</span><span id="L-588"><a href="#L-588"><span class="linenos"> 588</span></a> <span class="n">tmp2</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp</span><span class="p">[</span><span class="n">j</span><span class="p">])</span>
</span><span id="L-589"><a href="#L-589"><span class="linenos"> 589</span></a> <span class="n">arr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp2</span><span class="p">)</span>
</span><span id="L-590"><a href="#L-590"><span class="linenos"> 590</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-591"><a href="#L-591"><span class="linenos"> 591</span></a> <span class="n">arr</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp</span><span class="p">))</span>
</span><span id="L-592"><a href="#L-592"><span class="linenos"> 592</span></a>
</span><span id="L-593"><a href="#L-593"><span class="linenos"> 593</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-594"><a href="#L-594"><span class="linenos"> 594</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Only two-dimensional arrays supported!&#39;</span><span class="p">)</span>
</span><span id="L-595"><a href="#L-595"><span class="linenos"> 595</span></a>
</span><span id="L-596"><a href="#L-596"><span class="linenos"> 596</span></a> <span class="k">return</span> <span class="n">arr</span>
</span><span id="L-597"><a href="#L-597"><span class="linenos"> 597</span></a>
</span><span id="L-598"><a href="#L-598"><span class="linenos"> 598</span></a>
</span><span id="L-599"><a href="#L-599"><span class="linenos"> 599</span></a><span class="k">def</span> <span class="nf">_find_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="n">ext</span><span class="p">,</span> <span class="n">known_files</span><span class="o">=</span><span class="p">[]):</span>
</span><span id="L-600"><a href="#L-600"><span class="linenos"> 600</span></a> <span class="n">found</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-601"><a href="#L-601"><span class="linenos"> 601</span></a> <span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-602"><a href="#L-602"><span class="linenos"> 602</span></a>
</span><span id="L-603"><a href="#L-603"><span class="linenos"> 603</span></a> <span class="k">if</span> <span class="n">postfix</span> <span class="o">!=</span> <span class="s2">&quot;&quot;</span><span class="p">:</span>
</span><span id="L-604"><a href="#L-604"><span class="linenos"> 604</span></a> <span class="k">if</span> <span class="n">postfix</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">!=</span> <span class="s2">&quot;.&quot;</span><span class="p">:</span>
</span><span id="L-605"><a href="#L-605"><span class="linenos"> 605</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="n">postfix</span> <span class="o">+</span> <span class="s2">&quot;.&quot;</span>
</span><span id="L-606"><a href="#L-606"><span class="linenos"> 606</span></a> <span class="k">if</span> <span class="n">postfix</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">!=</span> <span class="s2">&quot;.&quot;</span><span class="p">:</span>
</span><span id="L-607"><a href="#L-607"><span class="linenos"> 607</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;.&quot;</span> <span class="o">+</span> <span class="n">postfix</span>
</span><span id="L-608"><a href="#L-608"><span class="linenos"> 608</span></a>
</span><span id="L-609"><a href="#L-609"><span class="linenos"> 609</span></a> <span class="k">if</span> <span class="n">ext</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="s2">&quot;.&quot;</span><span class="p">:</span>
</span><span id="L-610"><a href="#L-610"><span class="linenos"> 610</span></a> <span class="n">ext</span> <span class="o">=</span> <span class="n">ext</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span>
</span><span id="L-611"><a href="#L-611"><span class="linenos"> 611</span></a>
</span><span id="L-612"><a href="#L-612"><span class="linenos"> 612</span></a> <span class="n">pattern</span> <span class="o">=</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s2">&quot;*&quot;</span> <span class="o">+</span> <span class="n">postfix</span> <span class="o">+</span> <span class="n">ext</span>
</span><span id="L-613"><a href="#L-613"><span class="linenos"> 613</span></a>
</span><span id="L-614"><a href="#L-614"><span class="linenos"> 614</span></a> <span class="k">for</span> <span class="p">(</span><span class="n">dirpath</span><span class="p">,</span> <span class="n">dirnames</span><span class="p">,</span> <span class="n">filenames</span><span class="p">)</span> <span class="ow">in</span> <span class="n">os</span><span class="o">.</span><span class="n">walk</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span><span class="p">):</span>
</span><span id="L-615"><a href="#L-615"><span class="linenos"> 615</span></a> <span class="n">found</span><span class="o">.</span><span class="n">extend</span><span class="p">(</span><span class="n">filenames</span><span class="p">)</span>
</span><span id="L-616"><a href="#L-616"><span class="linenos"> 616</span></a> <span class="k">break</span>
</span><span id="L-617"><a href="#L-617"><span class="linenos"> 617</span></a>
</span><span id="L-618"><a href="#L-618"><span class="linenos"> 618</span></a> <span class="k">if</span> <span class="n">known_files</span> <span class="o">!=</span> <span class="p">[]:</span>
</span><span id="L-619"><a href="#L-619"><span class="linenos"> 619</span></a> <span class="k">for</span> <span class="n">kf</span> <span class="ow">in</span> <span class="n">known_files</span><span class="p">:</span>
</span><span id="L-620"><a href="#L-620"><span class="linenos"> 620</span></a> <span class="k">if</span> <span class="n">kf</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">found</span><span class="p">:</span>
</span><span id="L-621"><a href="#L-621"><span class="linenos"> 621</span></a> <span class="k">raise</span> <span class="ne">FileNotFoundError</span><span class="p">(</span><span class="s2">&quot;Given file &quot;</span> <span class="o">+</span> <span class="n">kf</span> <span class="o">+</span> <span class="s2">&quot; does not exist!&quot;</span><span class="p">)</span>
</span><span id="L-622"><a href="#L-622"><span class="linenos"> 622</span></a>
</span><span id="L-623"><a href="#L-623"><span class="linenos"> 623</span></a> <span class="k">return</span> <span class="n">known_files</span>
</span><span id="L-624"><a href="#L-624"><span class="linenos"> 624</span></a>
</span><span id="L-625"><a href="#L-625"><span class="linenos"> 625</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">found</span><span class="p">:</span>
</span><span id="L-626"><a href="#L-626"><span class="linenos"> 626</span></a> <span class="k">raise</span> <span class="ne">FileNotFoundError</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;Error, directory &#39;</span><span class="si">{</span><span class="n">path</span><span class="si">}</span><span class="s2">&#39; not found&quot;</span><span class="p">)</span>
</span><span id="L-627"><a href="#L-627"><span class="linenos"> 627</span></a>
</span><span id="L-628"><a href="#L-628"><span class="linenos"> 628</span></a> <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">found</span><span class="p">:</span>
</span><span id="L-629"><a href="#L-629"><span class="linenos"> 629</span></a> <span class="k">if</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">f</span><span class="p">,</span> <span class="n">pattern</span><span class="p">):</span>
</span><span id="L-630"><a href="#L-630"><span class="linenos"> 630</span></a> <span class="n">files</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">f</span><span class="p">)</span>
</span><span id="L-631"><a href="#L-631"><span class="linenos"> 631</span></a>
</span><span id="L-632"><a href="#L-632"><span class="linenos"> 632</span></a> <span class="k">if</span> <span class="n">files</span> <span class="o">==</span> <span class="p">[]:</span>
</span><span id="L-633"><a href="#L-633"><span class="linenos"> 633</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;No files found after pattern filter!&quot;</span><span class="p">)</span>
</span><span id="L-634"><a href="#L-634"><span class="linenos"> 634</span></a>
</span><span id="L-635"><a href="#L-635"><span class="linenos"> 635</span></a> <span class="n">files</span> <span class="o">=</span> <span class="n">sort_names</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
</span><span id="L-636"><a href="#L-636"><span class="linenos"> 636</span></a> <span class="k">return</span> <span class="n">files</span>
</span><span id="L-637"><a href="#L-637"><span class="linenos"> 637</span></a>
</span><span id="L-638"><a href="#L-638"><span class="linenos"> 638</span></a>
</span><span id="L-639"><a href="#L-639"><span class="linenos"> 639</span></a><span class="k">def</span> <span class="nf">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">):</span>
</span><span id="L-640"><a href="#L-640"><span class="linenos"> 640</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-641"><a href="#L-641"><span class="linenos"> 641</span></a> <span class="n">d</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-642"><a href="#L-642"><span class="linenos"> 642</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span> <span class="o">*</span> <span class="n">d</span><span class="p">)</span>
</span><span id="L-643"><a href="#L-643"><span class="linenos"> 643</span></a> <span class="n">n</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;</span><span class="si">%d</span><span class="s1">i&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">d</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-644"><a href="#L-644"><span class="linenos"> 644</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-645"><a href="#L-645"><span class="linenos"> 645</span></a> <span class="n">size</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-646"><a href="#L-646"><span class="linenos"> 646</span></a> <span class="k">if</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">4</span><span class="p">:</span>
</span><span id="L-647"><a href="#L-647"><span class="linenos"> 647</span></a> <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;i&#39;</span>
</span><span id="L-648"><a href="#L-648"><span class="linenos"> 648</span></a> <span class="k">elif</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">8</span><span class="p">:</span>
</span><span id="L-649"><a href="#L-649"><span class="linenos"> 649</span></a> <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;d&#39;</span>
</span><span id="L-650"><a href="#L-650"><span class="linenos"> 650</span></a> <span class="k">elif</span> <span class="n">size</span> <span class="o">==</span> <span class="mi">16</span><span class="p">:</span>
</span><span id="L-651"><a href="#L-651"><span class="linenos"> 651</span></a> <span class="n">types</span> <span class="o">=</span> <span class="s1">&#39;dd&#39;</span>
</span><span id="L-652"><a href="#L-652"><span class="linenos"> 652</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-653"><a href="#L-653"><span class="linenos"> 653</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Type for size &#39;&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">size</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot;&#39; not known.&quot;</span><span class="p">)</span>
</span><span id="L-654"><a href="#L-654"><span class="linenos"> 654</span></a> <span class="n">m</span> <span class="o">=</span> <span class="n">n</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-655"><a href="#L-655"><span class="linenos"> 655</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">d</span><span class="p">):</span>
</span><span id="L-656"><a href="#L-656"><span class="linenos"> 656</span></a> <span class="n">m</span> <span class="o">*=</span> <span class="n">n</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
</span><span id="L-657"><a href="#L-657"><span class="linenos"> 657</span></a>
</span><span id="L-658"><a href="#L-658"><span class="linenos"> 658</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">m</span> <span class="o">*</span> <span class="n">size</span><span class="p">)</span>
</span><span id="L-659"><a href="#L-659"><span class="linenos"> 659</span></a> <span class="n">tmp</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;</span><span class="si">%d%s</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">m</span><span class="p">,</span> <span class="n">types</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-660"><a href="#L-660"><span class="linenos"> 660</span></a>
</span><span id="L-661"><a href="#L-661"><span class="linenos"> 661</span></a> <span class="n">arr</span> <span class="o">=</span> <span class="n">_parse_array_openQCD2</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">n</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">tmp</span><span class="p">,</span> <span class="n">quadrupel</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
</span><span id="L-662"><a href="#L-662"><span class="linenos"> 662</span></a> <span class="k">return</span> <span class="p">{</span><span class="s1">&#39;d&#39;</span><span class="p">:</span> <span class="n">d</span><span class="p">,</span> <span class="s1">&#39;n&#39;</span><span class="p">:</span> <span class="n">n</span><span class="p">,</span> <span class="s1">&#39;size&#39;</span><span class="p">:</span> <span class="n">size</span><span class="p">,</span> <span class="s1">&#39;arr&#39;</span><span class="p">:</span> <span class="n">arr</span><span class="p">}</span>
</span><span id="L-663"><a href="#L-663"><span class="linenos"> 663</span></a>
</span><span id="L-664"><a href="#L-664"><span class="linenos"> 664</span></a>
</span><span id="L-665"><a href="#L-665"><span class="linenos"> 665</span></a><span class="k">def</span> <span class="nf">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-666"><a href="#L-666"><span class="linenos"> 666</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read the topologial charge based on openQCD gradient flow measurements.</span>
</span><span id="L-667"><a href="#L-667"><span class="linenos"> 667</span></a>
</span><span id="L-668"><a href="#L-668"><span class="linenos"> 668</span></a><span class="sd"> Parameters</span>
</span><span id="L-669"><a href="#L-669"><span class="linenos"> 669</span></a><span class="sd"> ----------</span>
</span><span id="L-670"><a href="#L-670"><span class="linenos"> 670</span></a><span class="sd"> path : str</span>
</span><span id="L-671"><a href="#L-671"><span class="linenos"> 671</span></a><span class="sd"> path of the measurement files</span>
</span><span id="L-672"><a href="#L-672"><span class="linenos"> 672</span></a><span class="sd"> prefix : str</span>
</span><span id="L-673"><a href="#L-673"><span class="linenos"> 673</span></a><span class="sd"> prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
</span><span id="L-674"><a href="#L-674"><span class="linenos"> 674</span></a><span class="sd"> Ignored if file names are passed explicitly via keyword files.</span>
</span><span id="L-675"><a href="#L-675"><span class="linenos"> 675</span></a><span class="sd"> c : double</span>
</span><span id="L-676"><a href="#L-676"><span class="linenos"> 676</span></a><span class="sd"> Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
</span><span id="L-677"><a href="#L-677"><span class="linenos"> 677</span></a><span class="sd"> dtr_cnfg : int</span>
</span><span id="L-678"><a href="#L-678"><span class="linenos"> 678</span></a><span class="sd"> (optional) parameter that specifies the number of measurements</span>
</span><span id="L-679"><a href="#L-679"><span class="linenos"> 679</span></a><span class="sd"> between two configs.</span>
</span><span id="L-680"><a href="#L-680"><span class="linenos"> 680</span></a><span class="sd"> If it is not set, the distance between two measurements</span>
</span><span id="L-681"><a href="#L-681"><span class="linenos"> 681</span></a><span class="sd"> in the file is assumed to be the distance between two configurations.</span>
</span><span id="L-682"><a href="#L-682"><span class="linenos"> 682</span></a><span class="sd"> steps : int</span>
</span><span id="L-683"><a href="#L-683"><span class="linenos"> 683</span></a><span class="sd"> (optional) Distance between two configurations in units of trajectories /</span>
</span><span id="L-684"><a href="#L-684"><span class="linenos"> 684</span></a><span class="sd"> cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
</span><span id="L-685"><a href="#L-685"><span class="linenos"> 685</span></a><span class="sd"> version : str</span>
</span><span id="L-686"><a href="#L-686"><span class="linenos"> 686</span></a><span class="sd"> Either openQCD or sfqcd, depending on the data.</span>
</span><span id="L-687"><a href="#L-687"><span class="linenos"> 687</span></a><span class="sd"> L : int</span>
</span><span id="L-688"><a href="#L-688"><span class="linenos"> 688</span></a><span class="sd"> spatial length of the lattice in L/a.</span>
</span><span id="L-689"><a href="#L-689"><span class="linenos"> 689</span></a><span class="sd"> HAS to be set if version != sfqcd, since openQCD does not provide</span>
</span><span id="L-690"><a href="#L-690"><span class="linenos"> 690</span></a><span class="sd"> this in the header</span>
</span><span id="L-691"><a href="#L-691"><span class="linenos"> 691</span></a><span class="sd"> r_start : list</span>
</span><span id="L-692"><a href="#L-692"><span class="linenos"> 692</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="L-693"><a href="#L-693"><span class="linenos"> 693</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-694"><a href="#L-694"><span class="linenos"> 694</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="L-695"><a href="#L-695"><span class="linenos"> 695</span></a><span class="sd"> files : list</span>
</span><span id="L-696"><a href="#L-696"><span class="linenos"> 696</span></a><span class="sd"> specify the exact files that need to be read</span>
</span><span id="L-697"><a href="#L-697"><span class="linenos"> 697</span></a><span class="sd"> from path, practical if e.g. only one replicum is needed</span>
</span><span id="L-698"><a href="#L-698"><span class="linenos"> 698</span></a><span class="sd"> postfix : str</span>
</span><span id="L-699"><a href="#L-699"><span class="linenos"> 699</span></a><span class="sd"> postfix of the file to read, e.g. &#39;.gfms.dat&#39; for openQCD-files</span>
</span><span id="L-700"><a href="#L-700"><span class="linenos"> 700</span></a><span class="sd"> names : list</span>
</span><span id="L-701"><a href="#L-701"><span class="linenos"> 701</span></a><span class="sd"> Alternative labeling for replicas/ensembles.</span>
</span><span id="L-702"><a href="#L-702"><span class="linenos"> 702</span></a><span class="sd"> Has to have the appropriate length.</span>
</span><span id="L-703"><a href="#L-703"><span class="linenos"> 703</span></a><span class="sd"> Zeuthen_flow : bool</span>
</span><span id="L-704"><a href="#L-704"><span class="linenos"> 704</span></a><span class="sd"> (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
</span><span id="L-705"><a href="#L-705"><span class="linenos"> 705</span></a><span class="sd"> for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
</span><span id="L-706"><a href="#L-706"><span class="linenos"> 706</span></a><span class="sd"> integer_charge : bool</span>
</span><span id="L-707"><a href="#L-707"><span class="linenos"> 707</span></a><span class="sd"> If True, the charge is rounded towards the nearest integer on each config.</span>
</span><span id="L-708"><a href="#L-708"><span class="linenos"> 708</span></a>
</span><span id="L-709"><a href="#L-709"><span class="linenos"> 709</span></a><span class="sd"> Returns</span>
</span><span id="L-710"><a href="#L-710"><span class="linenos"> 710</span></a><span class="sd"> -------</span>
</span><span id="L-711"><a href="#L-711"><span class="linenos"> 711</span></a><span class="sd"> result : Obs</span>
</span><span id="L-712"><a href="#L-712"><span class="linenos"> 712</span></a><span class="sd"> Read topological charge</span>
</span><span id="L-713"><a href="#L-713"><span class="linenos"> 713</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-714"><a href="#L-714"><span class="linenos"> 714</span></a>
</span><span id="L-715"><a href="#L-715"><span class="linenos"> 715</span></a> <span class="k">return</span> <span class="n">_read_flow_obs</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="n">dtr_cnfg</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="n">version</span><span class="p">,</span> <span class="n">obspos</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="L-716"><a href="#L-716"><span class="linenos"> 716</span></a>
</span><span id="L-717"><a href="#L-717"><span class="linenos"> 717</span></a>
</span><span id="L-718"><a href="#L-718"><span class="linenos"> 718</span></a><span class="k">def</span> <span class="nf">read_gf_coupling</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">Zeuthen_flow</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-719"><a href="#L-719"><span class="linenos"> 719</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read the gradient flow coupling based on sfqcd gradient flow measurements. See 1607.06423 for details.</span>
</span><span id="L-720"><a href="#L-720"><span class="linenos"> 720</span></a>
</span><span id="L-721"><a href="#L-721"><span class="linenos"> 721</span></a><span class="sd"> Note: The current implementation only works for c=0.3 and T=L. The definition of the coupling in 1607.06423 requires projection to topological charge zero which is not done within this function but has to be performed in a separate step.</span>
</span><span id="L-722"><a href="#L-722"><span class="linenos"> 722</span></a>
</span><span id="L-723"><a href="#L-723"><span class="linenos"> 723</span></a><span class="sd"> Parameters</span>
</span><span id="L-724"><a href="#L-724"><span class="linenos"> 724</span></a><span class="sd"> ----------</span>
</span><span id="L-725"><a href="#L-725"><span class="linenos"> 725</span></a><span class="sd"> path : str</span>
</span><span id="L-726"><a href="#L-726"><span class="linenos"> 726</span></a><span class="sd"> path of the measurement files</span>
</span><span id="L-727"><a href="#L-727"><span class="linenos"> 727</span></a><span class="sd"> prefix : str</span>
</span><span id="L-728"><a href="#L-728"><span class="linenos"> 728</span></a><span class="sd"> prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
</span><span id="L-729"><a href="#L-729"><span class="linenos"> 729</span></a><span class="sd"> Ignored if file names are passed explicitly via keyword files.</span>
</span><span id="L-730"><a href="#L-730"><span class="linenos"> 730</span></a><span class="sd"> c : double</span>
</span><span id="L-731"><a href="#L-731"><span class="linenos"> 731</span></a><span class="sd"> Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
</span><span id="L-732"><a href="#L-732"><span class="linenos"> 732</span></a><span class="sd"> dtr_cnfg : int</span>
</span><span id="L-733"><a href="#L-733"><span class="linenos"> 733</span></a><span class="sd"> (optional) parameter that specifies the number of measurements</span>
</span><span id="L-734"><a href="#L-734"><span class="linenos"> 734</span></a><span class="sd"> between two configs.</span>
</span><span id="L-735"><a href="#L-735"><span class="linenos"> 735</span></a><span class="sd"> If it is not set, the distance between two measurements</span>
</span><span id="L-736"><a href="#L-736"><span class="linenos"> 736</span></a><span class="sd"> in the file is assumed to be the distance between two configurations.</span>
</span><span id="L-737"><a href="#L-737"><span class="linenos"> 737</span></a><span class="sd"> steps : int</span>
</span><span id="L-738"><a href="#L-738"><span class="linenos"> 738</span></a><span class="sd"> (optional) Distance between two configurations in units of trajectories /</span>
</span><span id="L-739"><a href="#L-739"><span class="linenos"> 739</span></a><span class="sd"> cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
</span><span id="L-740"><a href="#L-740"><span class="linenos"> 740</span></a><span class="sd"> r_start : list</span>
</span><span id="L-741"><a href="#L-741"><span class="linenos"> 741</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="L-742"><a href="#L-742"><span class="linenos"> 742</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-743"><a href="#L-743"><span class="linenos"> 743</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="L-744"><a href="#L-744"><span class="linenos"> 744</span></a><span class="sd"> files : list</span>
</span><span id="L-745"><a href="#L-745"><span class="linenos"> 745</span></a><span class="sd"> specify the exact files that need to be read</span>
</span><span id="L-746"><a href="#L-746"><span class="linenos"> 746</span></a><span class="sd"> from path, practical if e.g. only one replicum is needed</span>
</span><span id="L-747"><a href="#L-747"><span class="linenos"> 747</span></a><span class="sd"> names : list</span>
</span><span id="L-748"><a href="#L-748"><span class="linenos"> 748</span></a><span class="sd"> Alternative labeling for replicas/ensembles.</span>
</span><span id="L-749"><a href="#L-749"><span class="linenos"> 749</span></a><span class="sd"> Has to have the appropriate length.</span>
</span><span id="L-750"><a href="#L-750"><span class="linenos"> 750</span></a><span class="sd"> postfix : str</span>
</span><span id="L-751"><a href="#L-751"><span class="linenos"> 751</span></a><span class="sd"> postfix of the file to read, e.g. &#39;.gfms.dat&#39; for openQCD-files</span>
</span><span id="L-752"><a href="#L-752"><span class="linenos"> 752</span></a><span class="sd"> Zeuthen_flow : bool</span>
</span><span id="L-753"><a href="#L-753"><span class="linenos"> 753</span></a><span class="sd"> (optional) If True, the Zeuthen flow is used for the coupling. If False, the Wilson flow is used.</span>
</span><span id="L-754"><a href="#L-754"><span class="linenos"> 754</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-755"><a href="#L-755"><span class="linenos"> 755</span></a>
</span><span id="L-756"><a href="#L-756"><span class="linenos"> 756</span></a> <span class="k">if</span> <span class="n">c</span> <span class="o">!=</span> <span class="mf">0.3</span><span class="p">:</span>
</span><span id="L-757"><a href="#L-757"><span class="linenos"> 757</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The required lattice norm is only implemented for c=0.3 at the moment.&quot;</span><span class="p">)</span>
</span><span id="L-758"><a href="#L-758"><span class="linenos"> 758</span></a>
</span><span id="L-759"><a href="#L-759"><span class="linenos"> 759</span></a> <span class="n">plaq</span> <span class="o">=</span> <span class="n">_read_flow_obs</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="n">dtr_cnfg</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;sfqcd&quot;</span><span class="p">,</span> <span class="n">obspos</span><span class="o">=</span><span class="mi">6</span><span class="p">,</span> <span class="n">sum_t</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">Zeuthen_flow</span><span class="o">=</span><span class="n">Zeuthen_flow</span><span class="p">,</span> <span class="n">integer_charge</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="L-760"><a href="#L-760"><span class="linenos"> 760</span></a> <span class="n">C2x1</span> <span class="o">=</span> <span class="n">_read_flow_obs</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="n">dtr_cnfg</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;sfqcd&quot;</span><span class="p">,</span> <span class="n">obspos</span><span class="o">=</span><span class="mi">7</span><span class="p">,</span> <span class="n">sum_t</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">Zeuthen_flow</span><span class="o">=</span><span class="n">Zeuthen_flow</span><span class="p">,</span> <span class="n">integer_charge</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="L-761"><a href="#L-761"><span class="linenos"> 761</span></a> <span class="n">L</span> <span class="o">=</span> <span class="n">plaq</span><span class="o">.</span><span class="n">tag</span><span class="p">[</span><span class="s2">&quot;L&quot;</span><span class="p">]</span>
</span><span id="L-762"><a href="#L-762"><span class="linenos"> 762</span></a> <span class="n">T</span> <span class="o">=</span> <span class="n">plaq</span><span class="o">.</span><span class="n">tag</span><span class="p">[</span><span class="s2">&quot;T&quot;</span><span class="p">]</span>
</span><span id="L-763"><a href="#L-763"><span class="linenos"> 763</span></a>
</span><span id="L-764"><a href="#L-764"><span class="linenos"> 764</span></a> <span class="k">if</span> <span class="n">T</span> <span class="o">!=</span> <span class="n">L</span><span class="p">:</span>
</span><span id="L-765"><a href="#L-765"><span class="linenos"> 765</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The required lattice norm is only implemented for T=L at the moment.&quot;</span><span class="p">)</span>
</span><span id="L-766"><a href="#L-766"><span class="linenos"> 766</span></a>
</span><span id="L-767"><a href="#L-767"><span class="linenos"> 767</span></a> <span class="k">if</span> <span class="n">Zeuthen_flow</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-768"><a href="#L-768"><span class="linenos"> 768</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The required lattice norm is only implemented for the Zeuthen flow at the moment.&quot;</span><span class="p">)</span>
</span><span id="L-769"><a href="#L-769"><span class="linenos"> 769</span></a>
</span><span id="L-770"><a href="#L-770"><span class="linenos"> 770</span></a> <span class="n">t</span> <span class="o">=</span> <span class="p">(</span><span class="n">c</span> <span class="o">*</span> <span class="n">L</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="mi">8</span>
</span><span id="L-771"><a href="#L-771"><span class="linenos"> 771</span></a>
</span><span id="L-772"><a href="#L-772"><span class="linenos"> 772</span></a> <span class="n">normdict</span> <span class="o">=</span> <span class="p">{</span><span class="mi">4</span><span class="p">:</span> <span class="mf">0.012341170468270</span><span class="p">,</span>
</span><span id="L-773"><a href="#L-773"><span class="linenos"> 773</span></a> <span class="mi">6</span><span class="p">:</span> <span class="mf">0.010162691462430</span><span class="p">,</span>
</span><span id="L-774"><a href="#L-774"><span class="linenos"> 774</span></a> <span class="mi">8</span><span class="p">:</span> <span class="mf">0.009031614807931</span><span class="p">,</span>
</span><span id="L-775"><a href="#L-775"><span class="linenos"> 775</span></a> <span class="mi">10</span><span class="p">:</span> <span class="mf">0.008744966371393</span><span class="p">,</span>
</span><span id="L-776"><a href="#L-776"><span class="linenos"> 776</span></a> <span class="mi">12</span><span class="p">:</span> <span class="mf">0.008650917856809</span><span class="p">,</span>
</span><span id="L-777"><a href="#L-777"><span class="linenos"> 777</span></a> <span class="mi">14</span><span class="p">:</span> <span class="mf">8.611154391267955E-03</span><span class="p">,</span>
</span><span id="L-778"><a href="#L-778"><span class="linenos"> 778</span></a> <span class="mi">16</span><span class="p">:</span> <span class="mf">0.008591758449508</span><span class="p">,</span>
</span><span id="L-779"><a href="#L-779"><span class="linenos"> 779</span></a> <span class="mi">20</span><span class="p">:</span> <span class="mf">0.008575359627103</span><span class="p">,</span>
</span><span id="L-780"><a href="#L-780"><span class="linenos"> 780</span></a> <span class="mi">24</span><span class="p">:</span> <span class="mf">0.008569387847540</span><span class="p">,</span>
</span><span id="L-781"><a href="#L-781"><span class="linenos"> 781</span></a> <span class="mi">28</span><span class="p">:</span> <span class="mf">8.566803713382559E-03</span><span class="p">,</span>
</span><span id="L-782"><a href="#L-782"><span class="linenos"> 782</span></a> <span class="mi">32</span><span class="p">:</span> <span class="mf">0.008565541650006</span><span class="p">,</span>
</span><span id="L-783"><a href="#L-783"><span class="linenos"> 783</span></a> <span class="mi">40</span><span class="p">:</span> <span class="mf">8.564480684962046E-03</span><span class="p">,</span>
</span><span id="L-784"><a href="#L-784"><span class="linenos"> 784</span></a> <span class="mi">48</span><span class="p">:</span> <span class="mf">8.564098025073460E-03</span><span class="p">,</span>
</span><span id="L-785"><a href="#L-785"><span class="linenos"> 785</span></a> <span class="mi">64</span><span class="p">:</span> <span class="mf">8.563853943383087E-03</span><span class="p">}</span>
</span><span id="L-786"><a href="#L-786"><span class="linenos"> 786</span></a>
</span><span id="L-787"><a href="#L-787"><span class="linenos"> 787</span></a> <span class="k">return</span> <span class="n">t</span> <span class="o">*</span> <span class="n">t</span> <span class="o">*</span> <span class="p">(</span><span class="mi">5</span> <span class="o">/</span> <span class="mi">3</span> <span class="o">*</span> <span class="n">plaq</span> <span class="o">-</span> <span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span> <span class="o">*</span> <span class="n">C2x1</span><span class="p">)</span> <span class="o">/</span> <span class="n">normdict</span><span class="p">[</span><span class="n">L</span><span class="p">]</span>
</span><span id="L-788"><a href="#L-788"><span class="linenos"> 788</span></a>
</span><span id="L-789"><a href="#L-789"><span class="linenos"> 789</span></a>
</span><span id="L-790"><a href="#L-790"><span class="linenos"> 790</span></a><span class="k">def</span> <span class="nf">_read_flow_obs</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="n">obspos</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">sum_t</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-791"><a href="#L-791"><span class="linenos"> 791</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read a flow observable based on openQCD gradient flow measurements.</span>
</span><span id="L-792"><a href="#L-792"><span class="linenos"> 792</span></a>
</span><span id="L-793"><a href="#L-793"><span class="linenos"> 793</span></a><span class="sd"> Parameters</span>
</span><span id="L-794"><a href="#L-794"><span class="linenos"> 794</span></a><span class="sd"> ----------</span>
</span><span id="L-795"><a href="#L-795"><span class="linenos"> 795</span></a><span class="sd"> path : str</span>
</span><span id="L-796"><a href="#L-796"><span class="linenos"> 796</span></a><span class="sd"> path of the measurement files</span>
</span><span id="L-797"><a href="#L-797"><span class="linenos"> 797</span></a><span class="sd"> prefix : str</span>
</span><span id="L-798"><a href="#L-798"><span class="linenos"> 798</span></a><span class="sd"> prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
</span><span id="L-799"><a href="#L-799"><span class="linenos"> 799</span></a><span class="sd"> Ignored if file names are passed explicitly via keyword files.</span>
</span><span id="L-800"><a href="#L-800"><span class="linenos"> 800</span></a><span class="sd"> c : double</span>
</span><span id="L-801"><a href="#L-801"><span class="linenos"> 801</span></a><span class="sd"> Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
</span><span id="L-802"><a href="#L-802"><span class="linenos"> 802</span></a><span class="sd"> dtr_cnfg : int</span>
</span><span id="L-803"><a href="#L-803"><span class="linenos"> 803</span></a><span class="sd"> (optional) parameter that specifies the number of measurements</span>
</span><span id="L-804"><a href="#L-804"><span class="linenos"> 804</span></a><span class="sd"> between two configs.</span>
</span><span id="L-805"><a href="#L-805"><span class="linenos"> 805</span></a><span class="sd"> If it is not set, the distance between two measurements</span>
</span><span id="L-806"><a href="#L-806"><span class="linenos"> 806</span></a><span class="sd"> in the file is assumed to be the distance between two configurations.</span>
</span><span id="L-807"><a href="#L-807"><span class="linenos"> 807</span></a><span class="sd"> steps : int</span>
</span><span id="L-808"><a href="#L-808"><span class="linenos"> 808</span></a><span class="sd"> (optional) Distance between two configurations in units of trajectories /</span>
</span><span id="L-809"><a href="#L-809"><span class="linenos"> 809</span></a><span class="sd"> cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
</span><span id="L-810"><a href="#L-810"><span class="linenos"> 810</span></a><span class="sd"> version : str</span>
</span><span id="L-811"><a href="#L-811"><span class="linenos"> 811</span></a><span class="sd"> Either openQCD or sfqcd, depending on the data.</span>
</span><span id="L-812"><a href="#L-812"><span class="linenos"> 812</span></a><span class="sd"> obspos : int</span>
</span><span id="L-813"><a href="#L-813"><span class="linenos"> 813</span></a><span class="sd"> position of the obeservable in the measurement file. Only relevant for sfqcd files.</span>
</span><span id="L-814"><a href="#L-814"><span class="linenos"> 814</span></a><span class="sd"> sum_t : bool</span>
</span><span id="L-815"><a href="#L-815"><span class="linenos"> 815</span></a><span class="sd"> If true sum over all timeslices, if false only take the value at T/2.</span>
</span><span id="L-816"><a href="#L-816"><span class="linenos"> 816</span></a><span class="sd"> L : int</span>
</span><span id="L-817"><a href="#L-817"><span class="linenos"> 817</span></a><span class="sd"> spatial length of the lattice in L/a.</span>
</span><span id="L-818"><a href="#L-818"><span class="linenos"> 818</span></a><span class="sd"> HAS to be set if version != sfqcd, since openQCD does not provide</span>
</span><span id="L-819"><a href="#L-819"><span class="linenos"> 819</span></a><span class="sd"> this in the header</span>
</span><span id="L-820"><a href="#L-820"><span class="linenos"> 820</span></a><span class="sd"> r_start : list</span>
</span><span id="L-821"><a href="#L-821"><span class="linenos"> 821</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="L-822"><a href="#L-822"><span class="linenos"> 822</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-823"><a href="#L-823"><span class="linenos"> 823</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="L-824"><a href="#L-824"><span class="linenos"> 824</span></a><span class="sd"> files : list</span>
</span><span id="L-825"><a href="#L-825"><span class="linenos"> 825</span></a><span class="sd"> specify the exact files that need to be read</span>
</span><span id="L-826"><a href="#L-826"><span class="linenos"> 826</span></a><span class="sd"> from path, practical if e.g. only one replicum is needed</span>
</span><span id="L-827"><a href="#L-827"><span class="linenos"> 827</span></a><span class="sd"> names : list</span>
</span><span id="L-828"><a href="#L-828"><span class="linenos"> 828</span></a><span class="sd"> Alternative labeling for replicas/ensembles.</span>
</span><span id="L-829"><a href="#L-829"><span class="linenos"> 829</span></a><span class="sd"> Has to have the appropriate length.</span>
</span><span id="L-830"><a href="#L-830"><span class="linenos"> 830</span></a><span class="sd"> postfix : str</span>
</span><span id="L-831"><a href="#L-831"><span class="linenos"> 831</span></a><span class="sd"> postfix of the file to read, e.g. &#39;.gfms.dat&#39; for openQCD-files</span>
</span><span id="L-832"><a href="#L-832"><span class="linenos"> 832</span></a><span class="sd"> Zeuthen_flow : bool</span>
</span><span id="L-833"><a href="#L-833"><span class="linenos"> 833</span></a><span class="sd"> (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
</span><span id="L-834"><a href="#L-834"><span class="linenos"> 834</span></a><span class="sd"> for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
</span><span id="L-835"><a href="#L-835"><span class="linenos"> 835</span></a><span class="sd"> integer_charge : bool</span>
</span><span id="L-836"><a href="#L-836"><span class="linenos"> 836</span></a><span class="sd"> If True, the charge is rounded towards the nearest integer on each config.</span>
</span><span id="L-837"><a href="#L-837"><span class="linenos"> 837</span></a>
</span><span id="L-838"><a href="#L-838"><span class="linenos"> 838</span></a><span class="sd"> Returns</span>
</span><span id="L-839"><a href="#L-839"><span class="linenos"> 839</span></a><span class="sd"> -------</span>
</span><span id="L-840"><a href="#L-840"><span class="linenos"> 840</span></a><span class="sd"> result : Obs</span>
</span><span id="L-841"><a href="#L-841"><span class="linenos"> 841</span></a><span class="sd"> flow observable specified</span>
</span><span id="L-842"><a href="#L-842"><span class="linenos"> 842</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-843"><a href="#L-843"><span class="linenos"> 843</span></a> <span class="n">known_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">]</span>
</span><span id="L-844"><a href="#L-844"><span class="linenos"> 844</span></a>
</span><span id="L-845"><a href="#L-845"><span class="linenos"> 845</span></a> <span class="k">if</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">known_versions</span><span class="p">:</span>
</span><span id="L-846"><a href="#L-846"><span class="linenos"> 846</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown openQCD version.&quot;</span><span class="p">)</span>
</span><span id="L-847"><a href="#L-847"><span class="linenos"> 847</span></a> <span class="k">if</span> <span class="s2">&quot;steps&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-848"><a href="#L-848"><span class="linenos"> 848</span></a> <span class="n">steps</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;steps&quot;</span><span class="p">)</span>
</span><span id="L-849"><a href="#L-849"><span class="linenos"> 849</span></a> <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s2">&quot;sfqcd&quot;</span><span class="p">:</span>
</span><span id="L-850"><a href="#L-850"><span class="linenos"> 850</span></a> <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-851"><a href="#L-851"><span class="linenos"> 851</span></a> <span class="n">supposed_L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
</span><span id="L-852"><a href="#L-852"><span class="linenos"> 852</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-853"><a href="#L-853"><span class="linenos"> 853</span></a> <span class="n">supposed_L</span> <span class="o">=</span> <span class="kc">None</span>
</span><span id="L-854"><a href="#L-854"><span class="linenos"> 854</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;gfms&quot;</span>
</span><span id="L-855"><a href="#L-855"><span class="linenos"> 855</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-856"><a href="#L-856"><span class="linenos"> 856</span></a> <span class="k">if</span> <span class="s2">&quot;L&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-857"><a href="#L-857"><span class="linenos"> 857</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;This version of openQCD needs you to provide the spatial length of the lattice as parameter &#39;L&#39;.&quot;</span><span class="p">)</span>
</span><span id="L-858"><a href="#L-858"><span class="linenos"> 858</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-859"><a href="#L-859"><span class="linenos"> 859</span></a> <span class="n">L</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;L&quot;</span><span class="p">)</span>
</span><span id="L-860"><a href="#L-860"><span class="linenos"> 860</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="s2">&quot;ms&quot;</span>
</span><span id="L-861"><a href="#L-861"><span class="linenos"> 861</span></a>
</span><span id="L-862"><a href="#L-862"><span class="linenos"> 862</span></a> <span class="k">if</span> <span class="s2">&quot;postfix&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-863"><a href="#L-863"><span class="linenos"> 863</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;postfix&quot;</span><span class="p">)</span>
</span><span id="L-864"><a href="#L-864"><span class="linenos"> 864</span></a>
</span><span id="L-865"><a href="#L-865"><span class="linenos"> 865</span></a> <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-866"><a href="#L-866"><span class="linenos"> 866</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
</span><span id="L-867"><a href="#L-867"><span class="linenos"> 867</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-868"><a href="#L-868"><span class="linenos"> 868</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-869"><a href="#L-869"><span class="linenos"> 869</span></a>
</span><span id="L-870"><a href="#L-870"><span class="linenos"> 870</span></a> <span class="n">files</span> <span class="o">=</span> <span class="n">_find_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="s2">&quot;dat&quot;</span><span class="p">,</span> <span class="n">known_files</span><span class="o">=</span><span class="n">known_files</span><span class="p">)</span>
</span><span id="L-871"><a href="#L-871"><span class="linenos"> 871</span></a>
</span><span id="L-872"><a href="#L-872"><span class="linenos"> 872</span></a> <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-873"><a href="#L-873"><span class="linenos"> 873</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
</span><span id="L-874"><a href="#L-874"><span class="linenos"> 874</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
</span><span id="L-875"><a href="#L-875"><span class="linenos"> 875</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="L-876"><a href="#L-876"><span class="linenos"> 876</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
</span><span id="L-877"><a href="#L-877"><span class="linenos"> 877</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-878"><a href="#L-878"><span class="linenos"> 878</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
</span><span id="L-879"><a href="#L-879"><span class="linenos"> 879</span></a>
</span><span id="L-880"><a href="#L-880"><span class="linenos"> 880</span></a> <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-881"><a href="#L-881"><span class="linenos"> 881</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
</span><span id="L-882"><a href="#L-882"><span class="linenos"> 882</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
</span><span id="L-883"><a href="#L-883"><span class="linenos"> 883</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="L-884"><a href="#L-884"><span class="linenos"> 884</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-885"><a href="#L-885"><span class="linenos"> 885</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
</span><span id="L-886"><a href="#L-886"><span class="linenos"> 886</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-887"><a href="#L-887"><span class="linenos"> 887</span></a>
</span><span id="L-888"><a href="#L-888"><span class="linenos"> 888</span></a> <span class="n">zeuthen</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;Zeuthen_flow&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">)</span>
</span><span id="L-889"><a href="#L-889"><span class="linenos"> 889</span></a> <span class="k">if</span> <span class="n">zeuthen</span> <span class="ow">and</span> <span class="n">version</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
</span><span id="L-890"><a href="#L-890"><span class="linenos"> 890</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Zeuthen flow can only be used for version==sfqcd&#39;</span><span class="p">)</span>
</span><span id="L-891"><a href="#L-891"><span class="linenos"> 891</span></a>
</span><span id="L-892"><a href="#L-892"><span class="linenos"> 892</span></a> <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-893"><a href="#L-893"><span class="linenos"> 893</span></a> <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-894"><a href="#L-894"><span class="linenos"> 894</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-895"><a href="#L-895"><span class="linenos"> 895</span></a> <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-896"><a href="#L-896"><span class="linenos"> 896</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">zeuthen</span><span class="p">:</span>
</span><span id="L-897"><a href="#L-897"><span class="linenos"> 897</span></a> <span class="n">obspos</span> <span class="o">+=</span> <span class="mi">8</span>
</span><span id="L-898"><a href="#L-898"><span class="linenos"> 898</span></a> <span class="k">for</span> <span class="n">rep</span><span class="p">,</span> <span class="n">file</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
</span><span id="L-899"><a href="#L-899"><span class="linenos"> 899</span></a> <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s2">&quot;rb&quot;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
</span><span id="L-900"><a href="#L-900"><span class="linenos"> 900</span></a>
</span><span id="L-901"><a href="#L-901"><span class="linenos"> 901</span></a> <span class="n">Q</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-902"><a href="#L-902"><span class="linenos"> 902</span></a> <span class="n">traj_list</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-903"><a href="#L-903"><span class="linenos"> 903</span></a> <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
</span><span id="L-904"><a href="#L-904"><span class="linenos"> 904</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
</span><span id="L-905"><a href="#L-905"><span class="linenos"> 905</span></a> <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-906"><a href="#L-906"><span class="linenos"> 906</span></a> <span class="n">zthfl</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="c1"># Zeuthen flow -&gt; if it&#39;s equal to 2 it means that the Zeuthen flow is also &#39;measured&#39; (apart from the Wilson flow)</span>
</span><span id="L-907"><a href="#L-907"><span class="linenos"> 907</span></a> <span class="n">ncs</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="c1"># number of different values for c in t_flow=1/8 c² L² -&gt; measurements done for ncs c&#39;s</span>
</span><span id="L-908"><a href="#L-908"><span class="linenos"> 908</span></a> <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span> <span class="c1"># lattice T/a</span>
</span><span id="L-909"><a href="#L-909"><span class="linenos"> 909</span></a>
</span><span id="L-910"><a href="#L-910"><span class="linenos"> 910</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
</span><span id="L-911"><a href="#L-911"><span class="linenos"> 911</span></a> <span class="n">Ls</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-912"><a href="#L-912"><span class="linenos"> 912</span></a> <span class="k">if</span> <span class="p">(</span><span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="ow">and</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">==</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">2</span><span class="p">]):</span>
</span><span id="L-913"><a href="#L-913"><span class="linenos"> 913</span></a> <span class="n">L</span> <span class="o">=</span> <span class="n">Ls</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-914"><a href="#L-914"><span class="linenos"> 914</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">supposed_L</span> <span class="o">==</span> <span class="n">L</span><span class="p">)</span> <span class="ow">and</span> <span class="n">supposed_L</span><span class="p">:</span>
</span><span id="L-915"><a href="#L-915"><span class="linenos"> 915</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;It seems the length given in the header and by you contradict each other&quot;</span><span class="p">)</span>
</span><span id="L-916"><a href="#L-916"><span class="linenos"> 916</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-917"><a href="#L-917"><span class="linenos"> 917</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Found more than one spatial length in header!&quot;</span><span class="p">)</span>
</span><span id="L-918"><a href="#L-918"><span class="linenos"> 918</span></a>
</span><span id="L-919"><a href="#L-919"><span class="linenos"> 919</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">16</span><span class="p">)</span>
</span><span id="L-920"><a href="#L-920"><span class="linenos"> 920</span></a> <span class="n">header2</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;dd&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-921"><a href="#L-921"><span class="linenos"> 921</span></a> <span class="n">tol</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-922"><a href="#L-922"><span class="linenos"> 922</span></a> <span class="n">cmax</span> <span class="o">=</span> <span class="n">header2</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="c1"># highest value of c used</span>
</span><span id="L-923"><a href="#L-923"><span class="linenos"> 923</span></a>
</span><span id="L-924"><a href="#L-924"><span class="linenos"> 924</span></a> <span class="k">if</span> <span class="n">c</span> <span class="o">&gt;</span> <span class="n">cmax</span><span class="p">:</span>
</span><span id="L-925"><a href="#L-925"><span class="linenos"> 925</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Flow has been determined between c=0 and c=</span><span class="si">%lf</span><span class="s1"> with tolerance </span><span class="si">%lf</span><span class="s1">&#39;</span> <span class="o">%</span> <span class="p">(</span><span class="n">cmax</span><span class="p">,</span> <span class="n">tol</span><span class="p">))</span>
</span><span id="L-926"><a href="#L-926"><span class="linenos"> 926</span></a>
</span><span id="L-927"><a href="#L-927"><span class="linenos"> 927</span></a> <span class="k">if</span> <span class="p">(</span><span class="n">zthfl</span> <span class="o">==</span> <span class="mi">2</span><span class="p">):</span>
</span><span id="L-928"><a href="#L-928"><span class="linenos"> 928</span></a> <span class="n">nfl</span> <span class="o">=</span> <span class="mi">2</span> <span class="c1"># number of flows</span>
</span><span id="L-929"><a href="#L-929"><span class="linenos"> 929</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-930"><a href="#L-930"><span class="linenos"> 930</span></a> <span class="n">nfl</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="L-931"><a href="#L-931"><span class="linenos"> 931</span></a> <span class="n">iobs</span> <span class="o">=</span> <span class="mi">8</span> <span class="o">*</span> <span class="n">nfl</span> <span class="c1"># number of flow observables calculated</span>
</span><span id="L-932"><a href="#L-932"><span class="linenos"> 932</span></a>
</span><span id="L-933"><a href="#L-933"><span class="linenos"> 933</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-934"><a href="#L-934"><span class="linenos"> 934</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-935"><a href="#L-935"><span class="linenos"> 935</span></a> <span class="k">if</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
</span><span id="L-936"><a href="#L-936"><span class="linenos"> 936</span></a> <span class="k">break</span>
</span><span id="L-937"><a href="#L-937"><span class="linenos"> 937</span></a> <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span> <span class="c1"># trajectory number when measurement was done</span>
</span><span id="L-938"><a href="#L-938"><span class="linenos"> 938</span></a>
</span><span id="L-939"><a href="#L-939"><span class="linenos"> 939</span></a> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
</span><span id="L-940"><a href="#L-940"><span class="linenos"> 940</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">iobs</span><span class="p">):</span>
</span><span id="L-941"><a href="#L-941"><span class="linenos"> 941</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">)</span>
</span><span id="L-942"><a href="#L-942"><span class="linenos"> 942</span></a> <span class="k">if</span> <span class="p">(</span><span class="n">i</span> <span class="o">==</span> <span class="n">obspos</span><span class="p">):</span> <span class="c1"># determines the flow observable -&gt; i=0 &lt;-&gt; Zeuthen flow</span>
</span><span id="L-943"><a href="#L-943"><span class="linenos"> 943</span></a> <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">,</span> <span class="n">t</span><span class="p">))</span>
</span><span id="L-944"><a href="#L-944"><span class="linenos"> 944</span></a>
</span><span id="L-945"><a href="#L-945"><span class="linenos"> 945</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-946"><a href="#L-946"><span class="linenos"> 946</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">12</span><span class="p">)</span>
</span><span id="L-947"><a href="#L-947"><span class="linenos"> 947</span></a> <span class="n">header</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;&lt;iii&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-948"><a href="#L-948"><span class="linenos"> 948</span></a> <span class="c1"># step size in integration steps &quot;dnms&quot;</span>
</span><span id="L-949"><a href="#L-949"><span class="linenos"> 949</span></a> <span class="n">dn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-950"><a href="#L-950"><span class="linenos"> 950</span></a> <span class="c1"># number of measurements, so &quot;ntot&quot;/dn</span>
</span><span id="L-951"><a href="#L-951"><span class="linenos"> 951</span></a> <span class="n">nn</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
</span><span id="L-952"><a href="#L-952"><span class="linenos"> 952</span></a> <span class="c1"># lattice T/a</span>
</span><span id="L-953"><a href="#L-953"><span class="linenos"> 953</span></a> <span class="n">tmax</span> <span class="o">=</span> <span class="n">header</span><span class="p">[</span><span class="mi">2</span><span class="p">]</span>
</span><span id="L-954"><a href="#L-954"><span class="linenos"> 954</span></a>
</span><span id="L-955"><a href="#L-955"><span class="linenos"> 955</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="L-956"><a href="#L-956"><span class="linenos"> 956</span></a> <span class="n">eps</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-957"><a href="#L-957"><span class="linenos"> 957</span></a>
</span><span id="L-958"><a href="#L-958"><span class="linenos"> 958</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-959"><a href="#L-959"><span class="linenos"> 959</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-960"><a href="#L-960"><span class="linenos"> 960</span></a> <span class="k">if</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">):</span>
</span><span id="L-961"><a href="#L-961"><span class="linenos"> 961</span></a> <span class="k">break</span>
</span><span id="L-962"><a href="#L-962"><span class="linenos"> 962</span></a> <span class="n">traj_list</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="L-963"><a href="#L-963"><span class="linenos"> 963</span></a> <span class="c1"># Wsl</span>
</span><span id="L-964"><a href="#L-964"><span class="linenos"> 964</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
</span><span id="L-965"><a href="#L-965"><span class="linenos"> 965</span></a> <span class="c1"># Ysl</span>
</span><span id="L-966"><a href="#L-966"><span class="linenos"> 966</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
</span><span id="L-967"><a href="#L-967"><span class="linenos"> 967</span></a> <span class="c1"># Qsl, which is asked for in this method</span>
</span><span id="L-968"><a href="#L-968"><span class="linenos"> 968</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">))</span>
</span><span id="L-969"><a href="#L-969"><span class="linenos"> 969</span></a> <span class="c1"># unpack the array of Qtops,</span>
</span><span id="L-970"><a href="#L-970"><span class="linenos"> 970</span></a> <span class="c1"># on each timeslice t=0,...,tmax-1 and the</span>
</span><span id="L-971"><a href="#L-971"><span class="linenos"> 971</span></a> <span class="c1"># measurement number in = 0...nn (see README.qcd1)</span>
</span><span id="L-972"><a href="#L-972"><span class="linenos"> 972</span></a> <span class="n">tmpd</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="p">(</span><span class="n">nn</span> <span class="o">+</span> <span class="mi">1</span><span class="p">),</span> <span class="n">t</span><span class="p">)</span>
</span><span id="L-973"><a href="#L-973"><span class="linenos"> 973</span></a> <span class="n">Q</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmpd</span><span class="p">)</span>
</span><span id="L-974"><a href="#L-974"><span class="linenos"> 974</span></a>
</span><span id="L-975"><a href="#L-975"><span class="linenos"> 975</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="L-976"><a href="#L-976"><span class="linenos"> 976</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Irregularities in stepsize found&quot;</span><span class="p">)</span>
</span><span id="L-977"><a href="#L-977"><span class="linenos"> 977</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-978"><a href="#L-978"><span class="linenos"> 978</span></a> <span class="k">if</span> <span class="s1">&#39;steps&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-979"><a href="#L-979"><span class="linenos"> 979</span></a> <span class="k">if</span> <span class="n">steps</span> <span class="o">!=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]:</span>
</span><span id="L-980"><a href="#L-980"><span class="linenos"> 980</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;steps and the found stepsize are not the same&quot;</span><span class="p">)</span>
</span><span id="L-981"><a href="#L-981"><span class="linenos"> 981</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-982"><a href="#L-982"><span class="linenos"> 982</span></a> <span class="n">steps</span> <span class="o">=</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">traj_list</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-983"><a href="#L-983"><span class="linenos"> 983</span></a>
</span><span id="L-984"><a href="#L-984"><span class="linenos"> 984</span></a> <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">tr</span> <span class="o">//</span> <span class="n">steps</span> <span class="o">//</span> <span class="n">dtr_cnfg</span> <span class="k">for</span> <span class="n">tr</span> <span class="ow">in</span> <span class="n">traj_list</span><span class="p">])</span>
</span><span id="L-985"><a href="#L-985"><span class="linenos"> 985</span></a> <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="L-986"><a href="#L-986"><span class="linenos"> 986</span></a> <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
</span><span id="L-987"><a href="#L-987"><span class="linenos"> 987</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config. Offset = </span><span class="si">%d</span><span class="s1"> configs (</span><span class="si">%d</span><span class="s1"> trajectories / cycles)&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="L-988"><a href="#L-988"><span class="linenos"> 988</span></a> <span class="n">offset</span><span class="p">,</span> <span class="n">offset</span> <span class="o">*</span> <span class="n">steps</span><span class="p">))</span>
</span><span id="L-989"><a href="#L-989"><span class="linenos"> 989</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="L-990"><a href="#L-990"><span class="linenos"> 990</span></a>
</span><span id="L-991"><a href="#L-991"><span class="linenos"> 991</span></a> <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="L-992"><a href="#L-992"><span class="linenos"> 992</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
</span><span id="L-993"><a href="#L-993"><span class="linenos"> 993</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-994"><a href="#L-994"><span class="linenos"> 994</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="L-995"><a href="#L-995"><span class="linenos"> 995</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="L-996"><a href="#L-996"><span class="linenos"> 996</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="L-997"><a href="#L-997"><span class="linenos"> 997</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="L-998"><a href="#L-998"><span class="linenos"> 998</span></a> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="L-999"><a href="#L-999"><span class="linenos"> 999</span></a>
</span><span id="L-1000"><a href="#L-1000"><span class="linenos">1000</span></a> <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="L-1001"><a href="#L-1001"><span class="linenos">1001</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
</span><span id="L-1002"><a href="#L-1002"><span class="linenos">1002</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1003"><a href="#L-1003"><span class="linenos">1003</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="L-1004"><a href="#L-1004"><span class="linenos">1004</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="L-1005"><a href="#L-1005"><span class="linenos">1005</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="L-1006"><a href="#L-1006"><span class="linenos">1006</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="L-1007"><a href="#L-1007"><span class="linenos">1007</span></a> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="L-1008"><a href="#L-1008"><span class="linenos">1008</span></a>
</span><span id="L-1009"><a href="#L-1009"><span class="linenos">1009</span></a> <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
</span><span id="L-1010"><a href="#L-1010"><span class="linenos">1010</span></a> <span class="n">cstepsize</span> <span class="o">=</span> <span class="n">cmax</span> <span class="o">/</span> <span class="n">ncs</span>
</span><span id="L-1011"><a href="#L-1011"><span class="linenos">1011</span></a> <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">c</span> <span class="o">/</span> <span class="n">cstepsize</span><span class="p">)</span>
</span><span id="L-1012"><a href="#L-1012"><span class="linenos">1012</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1013"><a href="#L-1013"><span class="linenos">1013</span></a> <span class="n">t_aim</span> <span class="o">=</span> <span class="p">(</span><span class="n">c</span> <span class="o">*</span> <span class="n">L</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="mi">8</span>
</span><span id="L-1014"><a href="#L-1014"><span class="linenos">1014</span></a> <span class="n">index_aim</span> <span class="o">=</span> <span class="nb">round</span><span class="p">(</span><span class="n">t_aim</span> <span class="o">/</span> <span class="n">eps</span> <span class="o">/</span> <span class="n">dn</span><span class="p">)</span>
</span><span id="L-1015"><a href="#L-1015"><span class="linenos">1015</span></a>
</span><span id="L-1016"><a href="#L-1016"><span class="linenos">1016</span></a> <span class="n">Q_sum</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1017"><a href="#L-1017"><span class="linenos">1017</span></a> <span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">item</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">Q</span><span class="p">):</span>
</span><span id="L-1018"><a href="#L-1018"><span class="linenos">1018</span></a> <span class="k">if</span> <span class="n">sum_t</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-1019"><a href="#L-1019"><span class="linenos">1019</span></a> <span class="n">Q_sum</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="nb">sum</span><span class="p">(</span><span class="n">item</span><span class="p">[</span><span class="n">current</span><span class="p">:</span><span class="n">current</span> <span class="o">+</span> <span class="n">tmax</span><span class="p">])</span>
</span><span id="L-1020"><a href="#L-1020"><span class="linenos">1020</span></a> <span class="k">for</span> <span class="n">current</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">item</span><span class="p">),</span> <span class="n">tmax</span><span class="p">)])</span>
</span><span id="L-1021"><a href="#L-1021"><span class="linenos">1021</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1022"><a href="#L-1022"><span class="linenos">1022</span></a> <span class="n">Q_sum</span><span class="o">.</span><span class="n">append</span><span class="p">([</span><span class="n">item</span><span class="p">[</span><span class="nb">int</span><span class="p">(</span><span class="n">tmax</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)]])</span>
</span><span id="L-1023"><a href="#L-1023"><span class="linenos">1023</span></a> <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1024"><a href="#L-1024"><span class="linenos">1024</span></a> <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;sfqcd&#39;</span><span class="p">]:</span>
</span><span id="L-1025"><a href="#L-1025"><span class="linenos">1025</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">)</span> <span class="o">//</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)):</span>
</span><span id="L-1026"><a href="#L-1026"><span class="linenos">1026</span></a> <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="p">(</span><span class="n">ncs</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">+</span> <span class="n">index_aim</span><span class="p">][</span><span class="mi">0</span><span class="p">])</span>
</span><span id="L-1027"><a href="#L-1027"><span class="linenos">1027</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1028"><a href="#L-1028"><span class="linenos">1028</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">Q</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">):</span>
</span><span id="L-1029"><a href="#L-1029"><span class="linenos">1029</span></a> <span class="n">Q_top</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_sum</span><span class="p">[</span><span class="n">dtr_cnfg</span> <span class="o">*</span> <span class="n">i</span><span class="p">][</span><span class="n">index_aim</span><span class="p">])</span>
</span><span id="L-1030"><a href="#L-1030"><span class="linenos">1030</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">traj_list</span><span class="p">)</span> <span class="o">//</span> <span class="n">dtr_cnfg</span><span class="p">:</span>
</span><span id="L-1031"><a href="#L-1031"><span class="linenos">1031</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;qtops and traj_list dont have the same length&quot;</span><span class="p">)</span>
</span><span id="L-1032"><a href="#L-1032"><span class="linenos">1032</span></a>
</span><span id="L-1033"><a href="#L-1033"><span class="linenos">1033</span></a> <span class="k">if</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">,</span> <span class="kc">False</span><span class="p">):</span>
</span><span id="L-1034"><a href="#L-1034"><span class="linenos">1034</span></a> <span class="n">Q_top</span> <span class="o">=</span> <span class="p">[</span><span class="nb">round</span><span class="p">(</span><span class="n">q</span><span class="p">)</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">Q_top</span><span class="p">]</span>
</span><span id="L-1035"><a href="#L-1035"><span class="linenos">1035</span></a>
</span><span id="L-1036"><a href="#L-1036"><span class="linenos">1036</span></a> <span class="n">truncated_file</span> <span class="o">=</span> <span class="n">file</span><span class="p">[:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">postfix</span><span class="p">)]</span>
</span><span id="L-1037"><a href="#L-1037"><span class="linenos">1037</span></a>
</span><span id="L-1038"><a href="#L-1038"><span class="linenos">1038</span></a> <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1039"><a href="#L-1039"><span class="linenos">1039</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="L-1040"><a href="#L-1040"><span class="linenos">1040</span></a> <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
</span><span id="L-1041"><a href="#L-1041"><span class="linenos">1041</span></a> <span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
</span><span id="L-1042"><a href="#L-1042"><span class="linenos">1042</span></a> <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1043"><a href="#L-1043"><span class="linenos">1043</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Automatic recognition of replicum failed, please enter the key word &#39;names&#39;.&quot;</span><span class="p">)</span>
</span><span id="L-1044"><a href="#L-1044"><span class="linenos">1044</span></a> <span class="n">ens_name</span> <span class="o">=</span> <span class="n">truncated_file</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span>
</span><span id="L-1045"><a href="#L-1045"><span class="linenos">1045</span></a> <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">ens_name</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_file</span><span class="p">[</span><span class="n">idx</span><span class="p">:]</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="L-1046"><a href="#L-1046"><span class="linenos">1046</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1047"><a href="#L-1047"><span class="linenos">1047</span></a> <span class="n">names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;names&quot;</span><span class="p">)</span>
</span><span id="L-1048"><a href="#L-1048"><span class="linenos">1048</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
</span><span id="L-1049"><a href="#L-1049"><span class="linenos">1049</span></a>
</span><span id="L-1050"><a href="#L-1050"><span class="linenos">1050</span></a> <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Q_top</span><span class="p">)</span>
</span><span id="L-1051"><a href="#L-1051"><span class="linenos">1051</span></a>
</span><span id="L-1052"><a href="#L-1052"><span class="linenos">1052</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="n">sort_names</span><span class="p">(</span><span class="n">rep_names</span><span class="p">)</span>
</span><span id="L-1053"><a href="#L-1053"><span class="linenos">1053</span></a>
</span><span id="L-1054"><a href="#L-1054"><span class="linenos">1054</span></a> <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]),</span> <span class="nb">int</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]])</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">1</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
</span><span id="L-1055"><a href="#L-1055"><span class="linenos">1055</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[</span><span class="n">deltas</span><span class="p">[</span><span class="n">nrep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">nrep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="k">for</span> <span class="n">nrep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">deltas</span><span class="p">))]</span>
</span><span id="L-1056"><a href="#L-1056"><span class="linenos">1056</span></a> <span class="n">result</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">,</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">)</span>
</span><span id="L-1057"><a href="#L-1057"><span class="linenos">1057</span></a> <span class="n">result</span><span class="o">.</span><span class="n">tag</span> <span class="o">=</span> <span class="p">{</span><span class="s2">&quot;T&quot;</span><span class="p">:</span> <span class="n">tmax</span> <span class="o">-</span> <span class="mi">1</span><span class="p">,</span>
</span><span id="L-1058"><a href="#L-1058"><span class="linenos">1058</span></a> <span class="s2">&quot;L&quot;</span><span class="p">:</span> <span class="n">L</span><span class="p">}</span>
</span><span id="L-1059"><a href="#L-1059"><span class="linenos">1059</span></a> <span class="k">return</span> <span class="n">result</span>
</span><span id="L-1060"><a href="#L-1060"><span class="linenos">1060</span></a>
</span><span id="L-1061"><a href="#L-1061"><span class="linenos">1061</span></a>
</span><span id="L-1062"><a href="#L-1062"><span class="linenos">1062</span></a><span class="k">def</span> <span class="nf">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
</span><span id="L-1063"><a href="#L-1063"><span class="linenos">1063</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Returns the projection to the topological charge sector defined by target.</span>
</span><span id="L-1064"><a href="#L-1064"><span class="linenos">1064</span></a>
</span><span id="L-1065"><a href="#L-1065"><span class="linenos">1065</span></a><span class="sd"> Parameters</span>
</span><span id="L-1066"><a href="#L-1066"><span class="linenos">1066</span></a><span class="sd"> ----------</span>
</span><span id="L-1067"><a href="#L-1067"><span class="linenos">1067</span></a><span class="sd"> path : Obs</span>
</span><span id="L-1068"><a href="#L-1068"><span class="linenos">1068</span></a><span class="sd"> Topological charge.</span>
</span><span id="L-1069"><a href="#L-1069"><span class="linenos">1069</span></a><span class="sd"> target : int</span>
</span><span id="L-1070"><a href="#L-1070"><span class="linenos">1070</span></a><span class="sd"> Specifies the topological sector to be reweighted to (default 0)</span>
</span><span id="L-1071"><a href="#L-1071"><span class="linenos">1071</span></a>
</span><span id="L-1072"><a href="#L-1072"><span class="linenos">1072</span></a><span class="sd"> Returns</span>
</span><span id="L-1073"><a href="#L-1073"><span class="linenos">1073</span></a><span class="sd"> -------</span>
</span><span id="L-1074"><a href="#L-1074"><span class="linenos">1074</span></a><span class="sd"> reto : Obs</span>
</span><span id="L-1075"><a href="#L-1075"><span class="linenos">1075</span></a><span class="sd"> projection to the topological charge sector defined by target</span>
</span><span id="L-1076"><a href="#L-1076"><span class="linenos">1076</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-1077"><a href="#L-1077"><span class="linenos">1077</span></a> <span class="k">if</span> <span class="n">qtop</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
</span><span id="L-1078"><a href="#L-1078"><span class="linenos">1078</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You can not use a reweighted observable for reweighting!&#39;</span><span class="p">)</span>
</span><span id="L-1079"><a href="#L-1079"><span class="linenos">1079</span></a>
</span><span id="L-1080"><a href="#L-1080"><span class="linenos">1080</span></a> <span class="n">proj_qtop</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1081"><a href="#L-1081"><span class="linenos">1081</span></a> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">:</span>
</span><span id="L-1082"><a href="#L-1082"><span class="linenos">1082</span></a> <span class="n">proj_qtop</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="mi">1</span> <span class="k">if</span> <span class="nb">round</span><span class="p">(</span><span class="n">qtop</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">n</span><span class="p">]</span> <span class="o">+</span> <span class="n">q</span><span class="p">)</span> <span class="o">==</span> <span class="n">target</span> <span class="k">else</span> <span class="mi">0</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">]]))</span>
</span><span id="L-1083"><a href="#L-1083"><span class="linenos">1083</span></a>
</span><span id="L-1084"><a href="#L-1084"><span class="linenos">1084</span></a> <span class="n">reto</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">proj_qtop</span><span class="p">,</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">qtop</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">])</span>
</span><span id="L-1085"><a href="#L-1085"><span class="linenos">1085</span></a> <span class="k">return</span> <span class="n">reto</span>
</span><span id="L-1086"><a href="#L-1086"><span class="linenos">1086</span></a>
</span><span id="L-1087"><a href="#L-1087"><span class="linenos">1087</span></a>
</span><span id="L-1088"><a href="#L-1088"><span class="linenos">1088</span></a><span class="k">def</span> <span class="nf">read_qtop_sector</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-1089"><a href="#L-1089"><span class="linenos">1089</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Constructs reweighting factors to a specified topological sector.</span>
</span><span id="L-1090"><a href="#L-1090"><span class="linenos">1090</span></a>
</span><span id="L-1091"><a href="#L-1091"><span class="linenos">1091</span></a><span class="sd"> Parameters</span>
</span><span id="L-1092"><a href="#L-1092"><span class="linenos">1092</span></a><span class="sd"> ----------</span>
</span><span id="L-1093"><a href="#L-1093"><span class="linenos">1093</span></a><span class="sd"> path : str</span>
</span><span id="L-1094"><a href="#L-1094"><span class="linenos">1094</span></a><span class="sd"> path of the measurement files</span>
</span><span id="L-1095"><a href="#L-1095"><span class="linenos">1095</span></a><span class="sd"> prefix : str</span>
</span><span id="L-1096"><a href="#L-1096"><span class="linenos">1096</span></a><span class="sd"> prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat</span>
</span><span id="L-1097"><a href="#L-1097"><span class="linenos">1097</span></a><span class="sd"> c : double</span>
</span><span id="L-1098"><a href="#L-1098"><span class="linenos">1098</span></a><span class="sd"> Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L</span>
</span><span id="L-1099"><a href="#L-1099"><span class="linenos">1099</span></a><span class="sd"> target : int</span>
</span><span id="L-1100"><a href="#L-1100"><span class="linenos">1100</span></a><span class="sd"> Specifies the topological sector to be reweighted to (default 0)</span>
</span><span id="L-1101"><a href="#L-1101"><span class="linenos">1101</span></a><span class="sd"> dtr_cnfg : int</span>
</span><span id="L-1102"><a href="#L-1102"><span class="linenos">1102</span></a><span class="sd"> (optional) parameter that specifies the number of trajectories</span>
</span><span id="L-1103"><a href="#L-1103"><span class="linenos">1103</span></a><span class="sd"> between two configs.</span>
</span><span id="L-1104"><a href="#L-1104"><span class="linenos">1104</span></a><span class="sd"> if it is not set, the distance between two measurements</span>
</span><span id="L-1105"><a href="#L-1105"><span class="linenos">1105</span></a><span class="sd"> in the file is assumed to be the distance between two configurations.</span>
</span><span id="L-1106"><a href="#L-1106"><span class="linenos">1106</span></a><span class="sd"> steps : int</span>
</span><span id="L-1107"><a href="#L-1107"><span class="linenos">1107</span></a><span class="sd"> (optional) Distance between two configurations in units of trajectories /</span>
</span><span id="L-1108"><a href="#L-1108"><span class="linenos">1108</span></a><span class="sd"> cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
</span><span id="L-1109"><a href="#L-1109"><span class="linenos">1109</span></a><span class="sd"> version : str</span>
</span><span id="L-1110"><a href="#L-1110"><span class="linenos">1110</span></a><span class="sd"> version string of the openQCD (sfqcd) version used to create</span>
</span><span id="L-1111"><a href="#L-1111"><span class="linenos">1111</span></a><span class="sd"> the ensemble. Default is 2.0. May also be set to sfqcd.</span>
</span><span id="L-1112"><a href="#L-1112"><span class="linenos">1112</span></a><span class="sd"> L : int</span>
</span><span id="L-1113"><a href="#L-1113"><span class="linenos">1113</span></a><span class="sd"> spatial length of the lattice in L/a.</span>
</span><span id="L-1114"><a href="#L-1114"><span class="linenos">1114</span></a><span class="sd"> HAS to be set if version != sfqcd, since openQCD does not provide</span>
</span><span id="L-1115"><a href="#L-1115"><span class="linenos">1115</span></a><span class="sd"> this in the header</span>
</span><span id="L-1116"><a href="#L-1116"><span class="linenos">1116</span></a><span class="sd"> r_start : list</span>
</span><span id="L-1117"><a href="#L-1117"><span class="linenos">1117</span></a><span class="sd"> offset of the first ensemble, making it easier to match</span>
</span><span id="L-1118"><a href="#L-1118"><span class="linenos">1118</span></a><span class="sd"> later on with other Obs</span>
</span><span id="L-1119"><a href="#L-1119"><span class="linenos">1119</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-1120"><a href="#L-1120"><span class="linenos">1120</span></a><span class="sd"> last configurations that need to be read (per replicum)</span>
</span><span id="L-1121"><a href="#L-1121"><span class="linenos">1121</span></a><span class="sd"> files : list</span>
</span><span id="L-1122"><a href="#L-1122"><span class="linenos">1122</span></a><span class="sd"> specify the exact files that need to be read</span>
</span><span id="L-1123"><a href="#L-1123"><span class="linenos">1123</span></a><span class="sd"> from path, practical if e.g. only one replicum is needed</span>
</span><span id="L-1124"><a href="#L-1124"><span class="linenos">1124</span></a><span class="sd"> names : list</span>
</span><span id="L-1125"><a href="#L-1125"><span class="linenos">1125</span></a><span class="sd"> Alternative labeling for replicas/ensembles.</span>
</span><span id="L-1126"><a href="#L-1126"><span class="linenos">1126</span></a><span class="sd"> Has to have the appropriate length</span>
</span><span id="L-1127"><a href="#L-1127"><span class="linenos">1127</span></a><span class="sd"> Zeuthen_flow : bool</span>
</span><span id="L-1128"><a href="#L-1128"><span class="linenos">1128</span></a><span class="sd"> (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
</span><span id="L-1129"><a href="#L-1129"><span class="linenos">1129</span></a><span class="sd"> for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
</span><span id="L-1130"><a href="#L-1130"><span class="linenos">1130</span></a>
</span><span id="L-1131"><a href="#L-1131"><span class="linenos">1131</span></a><span class="sd"> Returns</span>
</span><span id="L-1132"><a href="#L-1132"><span class="linenos">1132</span></a><span class="sd"> -------</span>
</span><span id="L-1133"><a href="#L-1133"><span class="linenos">1133</span></a><span class="sd"> reto : Obs</span>
</span><span id="L-1134"><a href="#L-1134"><span class="linenos">1134</span></a><span class="sd"> projection to the topological charge sector defined by target</span>
</span><span id="L-1135"><a href="#L-1135"><span class="linenos">1135</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-1136"><a href="#L-1136"><span class="linenos">1136</span></a>
</span><span id="L-1137"><a href="#L-1137"><span class="linenos">1137</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">target</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
</span><span id="L-1138"><a href="#L-1138"><span class="linenos">1138</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;target&#39; has to be an integer.&quot;</span><span class="p">)</span>
</span><span id="L-1139"><a href="#L-1139"><span class="linenos">1139</span></a>
</span><span id="L-1140"><a href="#L-1140"><span class="linenos">1140</span></a> <span class="n">kwargs</span><span class="p">[</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
</span><span id="L-1141"><a href="#L-1141"><span class="linenos">1141</span></a> <span class="n">qtop</span> <span class="o">=</span> <span class="n">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="L-1142"><a href="#L-1142"><span class="linenos">1142</span></a>
</span><span id="L-1143"><a href="#L-1143"><span class="linenos">1143</span></a> <span class="k">return</span> <span class="n">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="n">target</span><span class="p">)</span>
</span><span id="L-1144"><a href="#L-1144"><span class="linenos">1144</span></a>
</span><span id="L-1145"><a href="#L-1145"><span class="linenos">1145</span></a>
</span><span id="L-1146"><a href="#L-1146"><span class="linenos">1146</span></a><span class="k">def</span> <span class="nf">read_ms5_xsf</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">qc</span><span class="p">,</span> <span class="n">corr</span><span class="p">,</span> <span class="n">sep</span><span class="o">=</span><span class="s2">&quot;r&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-1147"><a href="#L-1147"><span class="linenos">1147</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;</span>
</span><span id="L-1148"><a href="#L-1148"><span class="linenos">1148</span></a><span class="sd"> Read data from files in the specified directory with the specified prefix and quark combination extension, and return a `Corr` object containing the data.</span>
</span><span id="L-1149"><a href="#L-1149"><span class="linenos">1149</span></a>
</span><span id="L-1150"><a href="#L-1150"><span class="linenos">1150</span></a><span class="sd"> Parameters</span>
</span><span id="L-1151"><a href="#L-1151"><span class="linenos">1151</span></a><span class="sd"> ----------</span>
</span><span id="L-1152"><a href="#L-1152"><span class="linenos">1152</span></a><span class="sd"> path : str</span>
</span><span id="L-1153"><a href="#L-1153"><span class="linenos">1153</span></a><span class="sd"> The directory to search for the files in.</span>
</span><span id="L-1154"><a href="#L-1154"><span class="linenos">1154</span></a><span class="sd"> prefix : str</span>
</span><span id="L-1155"><a href="#L-1155"><span class="linenos">1155</span></a><span class="sd"> The prefix to match the files against.</span>
</span><span id="L-1156"><a href="#L-1156"><span class="linenos">1156</span></a><span class="sd"> qc : str</span>
</span><span id="L-1157"><a href="#L-1157"><span class="linenos">1157</span></a><span class="sd"> The quark combination extension to match the files against.</span>
</span><span id="L-1158"><a href="#L-1158"><span class="linenos">1158</span></a><span class="sd"> corr : str</span>
</span><span id="L-1159"><a href="#L-1159"><span class="linenos">1159</span></a><span class="sd"> The correlator to extract data for.</span>
</span><span id="L-1160"><a href="#L-1160"><span class="linenos">1160</span></a><span class="sd"> sep : str, optional</span>
</span><span id="L-1161"><a href="#L-1161"><span class="linenos">1161</span></a><span class="sd"> The separator to use when parsing the replika names.</span>
</span><span id="L-1162"><a href="#L-1162"><span class="linenos">1162</span></a><span class="sd"> **kwargs</span>
</span><span id="L-1163"><a href="#L-1163"><span class="linenos">1163</span></a><span class="sd"> Additional keyword arguments. The following keyword arguments are recognized:</span>
</span><span id="L-1164"><a href="#L-1164"><span class="linenos">1164</span></a>
</span><span id="L-1165"><a href="#L-1165"><span class="linenos">1165</span></a><span class="sd"> - names (List[str]): A list of names to use for the replicas.</span>
</span><span id="L-1166"><a href="#L-1166"><span class="linenos">1166</span></a><span class="sd"> - files (List[str]): A list of files to read data from.</span>
</span><span id="L-1167"><a href="#L-1167"><span class="linenos">1167</span></a><span class="sd"> - idl (List[List[int]]): A list of idls per replicum, resticting data to the idls given.</span>
</span><span id="L-1168"><a href="#L-1168"><span class="linenos">1168</span></a>
</span><span id="L-1169"><a href="#L-1169"><span class="linenos">1169</span></a><span class="sd"> Returns</span>
</span><span id="L-1170"><a href="#L-1170"><span class="linenos">1170</span></a><span class="sd"> -------</span>
</span><span id="L-1171"><a href="#L-1171"><span class="linenos">1171</span></a><span class="sd"> Corr</span>
</span><span id="L-1172"><a href="#L-1172"><span class="linenos">1172</span></a><span class="sd"> A complex valued `Corr` object containing the data read from the files. In case of boudary to bulk correlators.</span>
</span><span id="L-1173"><a href="#L-1173"><span class="linenos">1173</span></a><span class="sd"> or</span>
</span><span id="L-1174"><a href="#L-1174"><span class="linenos">1174</span></a><span class="sd"> CObs</span>
</span><span id="L-1175"><a href="#L-1175"><span class="linenos">1175</span></a><span class="sd"> A complex valued `CObs` object containing the data read from the files. In case of boudary to boundary correlators.</span>
</span><span id="L-1176"><a href="#L-1176"><span class="linenos">1176</span></a>
</span><span id="L-1177"><a href="#L-1177"><span class="linenos">1177</span></a>
</span><span id="L-1178"><a href="#L-1178"><span class="linenos">1178</span></a><span class="sd"> Raises</span>
</span><span id="L-1179"><a href="#L-1179"><span class="linenos">1179</span></a><span class="sd"> ------</span>
</span><span id="L-1180"><a href="#L-1180"><span class="linenos">1180</span></a><span class="sd"> FileNotFoundError</span>
</span><span id="L-1181"><a href="#L-1181"><span class="linenos">1181</span></a><span class="sd"> If no files matching the specified prefix and quark combination extension are found in the specified directory.</span>
</span><span id="L-1182"><a href="#L-1182"><span class="linenos">1182</span></a><span class="sd"> IOError</span>
</span><span id="L-1183"><a href="#L-1183"><span class="linenos">1183</span></a><span class="sd"> If there is an error reading a file.</span>
</span><span id="L-1184"><a href="#L-1184"><span class="linenos">1184</span></a><span class="sd"> struct.error</span>
</span><span id="L-1185"><a href="#L-1185"><span class="linenos">1185</span></a><span class="sd"> If there is an error unpacking binary data.</span>
</span><span id="L-1186"><a href="#L-1186"><span class="linenos">1186</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-1187"><a href="#L-1187"><span class="linenos">1187</span></a>
</span><span id="L-1188"><a href="#L-1188"><span class="linenos">1188</span></a> <span class="c1"># found = []</span>
</span><span id="L-1189"><a href="#L-1189"><span class="linenos">1189</span></a> <span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1190"><a href="#L-1190"><span class="linenos">1190</span></a> <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1191"><a href="#L-1191"><span class="linenos">1191</span></a>
</span><span id="L-1192"><a href="#L-1192"><span class="linenos">1192</span></a> <span class="c1"># test if the input is correct</span>
</span><span id="L-1193"><a href="#L-1193"><span class="linenos">1193</span></a> <span class="k">if</span> <span class="n">qc</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;dd&#39;</span><span class="p">,</span> <span class="s1">&#39;ud&#39;</span><span class="p">,</span> <span class="s1">&#39;du&#39;</span><span class="p">,</span> <span class="s1">&#39;uu&#39;</span><span class="p">]:</span>
</span><span id="L-1194"><a href="#L-1194"><span class="linenos">1194</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown quark conbination!&quot;</span><span class="p">)</span>
</span><span id="L-1195"><a href="#L-1195"><span class="linenos">1195</span></a>
</span><span id="L-1196"><a href="#L-1196"><span class="linenos">1196</span></a> <span class="k">if</span> <span class="n">corr</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;gS&quot;</span><span class="p">,</span> <span class="s2">&quot;gP&quot;</span><span class="p">,</span> <span class="s2">&quot;gA&quot;</span><span class="p">,</span> <span class="s2">&quot;gV&quot;</span><span class="p">,</span> <span class="s2">&quot;gVt&quot;</span><span class="p">,</span> <span class="s2">&quot;lA&quot;</span><span class="p">,</span> <span class="s2">&quot;lV&quot;</span><span class="p">,</span> <span class="s2">&quot;lVt&quot;</span><span class="p">,</span> <span class="s2">&quot;lT&quot;</span><span class="p">,</span> <span class="s2">&quot;lTt&quot;</span><span class="p">,</span> <span class="s2">&quot;g1&quot;</span><span class="p">,</span> <span class="s2">&quot;l1&quot;</span><span class="p">]:</span>
</span><span id="L-1197"><a href="#L-1197"><span class="linenos">1197</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown correlator!&quot;</span><span class="p">)</span>
</span><span id="L-1198"><a href="#L-1198"><span class="linenos">1198</span></a>
</span><span id="L-1199"><a href="#L-1199"><span class="linenos">1199</span></a> <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1200"><a href="#L-1200"><span class="linenos">1200</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
</span><span id="L-1201"><a href="#L-1201"><span class="linenos">1201</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1202"><a href="#L-1202"><span class="linenos">1202</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1203"><a href="#L-1203"><span class="linenos">1203</span></a> <span class="n">files</span> <span class="o">=</span> <span class="n">_find_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="s2">&quot;ms5_xsf_&quot;</span> <span class="o">+</span> <span class="n">qc</span><span class="p">,</span> <span class="s2">&quot;dat&quot;</span><span class="p">,</span> <span class="n">known_files</span><span class="o">=</span><span class="n">known_files</span><span class="p">)</span>
</span><span id="L-1204"><a href="#L-1204"><span class="linenos">1204</span></a>
</span><span id="L-1205"><a href="#L-1205"><span class="linenos">1205</span></a> <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1206"><a href="#L-1206"><span class="linenos">1206</span></a> <span class="n">names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;names&quot;</span><span class="p">)</span>
</span><span id="L-1207"><a href="#L-1207"><span class="linenos">1207</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1208"><a href="#L-1208"><span class="linenos">1208</span></a> <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
</span><span id="L-1209"><a href="#L-1209"><span class="linenos">1209</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">sep</span> <span class="o">==</span> <span class="s2">&quot;&quot;</span><span class="p">:</span>
</span><span id="L-1210"><a href="#L-1210"><span class="linenos">1210</span></a> <span class="n">se</span> <span class="o">=</span> <span class="n">f</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1211"><a href="#L-1211"><span class="linenos">1211</span></a> <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">f</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="mi">1</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]:</span>
</span><span id="L-1212"><a href="#L-1212"><span class="linenos">1212</span></a> <span class="n">se</span> <span class="o">+=</span> <span class="s2">&quot;.&quot;</span> <span class="o">+</span> <span class="n">s</span>
</span><span id="L-1213"><a href="#L-1213"><span class="linenos">1213</span></a> <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">se</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">sep</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot;|r&quot;</span> <span class="o">+</span> <span class="n">se</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">sep</span><span class="p">)[</span><span class="mi">1</span><span class="p">])</span>
</span><span id="L-1214"><a href="#L-1214"><span class="linenos">1214</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1215"><a href="#L-1215"><span class="linenos">1215</span></a> <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">prefix</span><span class="p">)</span>
</span><span id="L-1216"><a href="#L-1216"><span class="linenos">1216</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1217"><a href="#L-1217"><span class="linenos">1217</span></a> <span class="n">expected_idl</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;idl&#39;</span><span class="p">)</span>
</span><span id="L-1218"><a href="#L-1218"><span class="linenos">1218</span></a> <span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
</span><span id="L-1219"><a href="#L-1219"><span class="linenos">1219</span></a> <span class="n">files</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
</span><span id="L-1220"><a href="#L-1220"><span class="linenos">1220</span></a>
</span><span id="L-1221"><a href="#L-1221"><span class="linenos">1221</span></a> <span class="n">cnfgs</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1222"><a href="#L-1222"><span class="linenos">1222</span></a> <span class="n">realsamples</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1223"><a href="#L-1223"><span class="linenos">1223</span></a> <span class="n">imagsamples</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1224"><a href="#L-1224"><span class="linenos">1224</span></a> <span class="n">repnum</span> <span class="o">=</span> <span class="mi">0</span>
</span><span id="L-1225"><a href="#L-1225"><span class="linenos">1225</span></a> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
</span><span id="L-1226"><a href="#L-1226"><span class="linenos">1226</span></a> <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s2">&quot;rb&quot;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
</span><span id="L-1227"><a href="#L-1227"><span class="linenos">1227</span></a>
</span><span id="L-1228"><a href="#L-1228"><span class="linenos">1228</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="L-1229"><a href="#L-1229"><span class="linenos">1229</span></a> <span class="n">kappa</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1230"><a href="#L-1230"><span class="linenos">1230</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="L-1231"><a href="#L-1231"><span class="linenos">1231</span></a> <span class="n">csw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1232"><a href="#L-1232"><span class="linenos">1232</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="L-1233"><a href="#L-1233"><span class="linenos">1233</span></a> <span class="n">dF</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1234"><a href="#L-1234"><span class="linenos">1234</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="L-1235"><a href="#L-1235"><span class="linenos">1235</span></a> <span class="n">zF</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1236"><a href="#L-1236"><span class="linenos">1236</span></a>
</span><span id="L-1237"><a href="#L-1237"><span class="linenos">1237</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-1238"><a href="#L-1238"><span class="linenos">1238</span></a> <span class="n">tmax</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1239"><a href="#L-1239"><span class="linenos">1239</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="L-1240"><a href="#L-1240"><span class="linenos">1240</span></a> <span class="n">bnd</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1241"><a href="#L-1241"><span class="linenos">1241</span></a>
</span><span id="L-1242"><a href="#L-1242"><span class="linenos">1242</span></a> <span class="n">placesBI</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;gS&quot;</span><span class="p">,</span> <span class="s2">&quot;gP&quot;</span><span class="p">,</span>
</span><span id="L-1243"><a href="#L-1243"><span class="linenos">1243</span></a> <span class="s2">&quot;gA&quot;</span><span class="p">,</span> <span class="s2">&quot;gV&quot;</span><span class="p">,</span>
</span><span id="L-1244"><a href="#L-1244"><span class="linenos">1244</span></a> <span class="s2">&quot;gVt&quot;</span><span class="p">,</span> <span class="s2">&quot;lA&quot;</span><span class="p">,</span>
</span><span id="L-1245"><a href="#L-1245"><span class="linenos">1245</span></a> <span class="s2">&quot;lV&quot;</span><span class="p">,</span> <span class="s2">&quot;lVt&quot;</span><span class="p">,</span>
</span><span id="L-1246"><a href="#L-1246"><span class="linenos">1246</span></a> <span class="s2">&quot;lT&quot;</span><span class="p">,</span> <span class="s2">&quot;lTt&quot;</span><span class="p">]</span>
</span><span id="L-1247"><a href="#L-1247"><span class="linenos">1247</span></a> <span class="n">placesBB</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;g1&quot;</span><span class="p">,</span> <span class="s2">&quot;l1&quot;</span><span class="p">]</span>
</span><span id="L-1248"><a href="#L-1248"><span class="linenos">1248</span></a>
</span><span id="L-1249"><a href="#L-1249"><span class="linenos">1249</span></a> <span class="c1"># the chunks have the following structure:</span>
</span><span id="L-1250"><a href="#L-1250"><span class="linenos">1250</span></a> <span class="c1"># confignumber, 10x timedependent complex correlators as doubles, 2x timeindependent complex correlators as doubles</span>
</span><span id="L-1251"><a href="#L-1251"><span class="linenos">1251</span></a>
</span><span id="L-1252"><a href="#L-1252"><span class="linenos">1252</span></a> <span class="n">chunksize</span> <span class="o">=</span> <span class="mi">4</span> <span class="o">+</span> <span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="mi">10</span><span class="p">)</span> <span class="o">+</span> <span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
</span><span id="L-1253"><a href="#L-1253"><span class="linenos">1253</span></a> <span class="n">packstr</span> <span class="o">=</span> <span class="s1">&#39;=i&#39;</span> <span class="o">+</span> <span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="mi">10</span><span class="p">)</span> <span class="o">+</span> <span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
</span><span id="L-1254"><a href="#L-1254"><span class="linenos">1254</span></a> <span class="n">cnfgs</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-1255"><a href="#L-1255"><span class="linenos">1255</span></a> <span class="n">realsamples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-1256"><a href="#L-1256"><span class="linenos">1256</span></a> <span class="n">imagsamples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-1257"><a href="#L-1257"><span class="linenos">1257</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmax</span><span class="p">):</span>
</span><span id="L-1258"><a href="#L-1258"><span class="linenos">1258</span></a> <span class="n">realsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-1259"><a href="#L-1259"><span class="linenos">1259</span></a> <span class="n">imagsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-1260"><a href="#L-1260"><span class="linenos">1260</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1261"><a href="#L-1261"><span class="linenos">1261</span></a> <span class="n">left_idl</span> <span class="o">=</span> <span class="nb">set</span><span class="p">(</span><span class="n">expected_idl</span><span class="p">[</span><span class="n">repnum</span><span class="p">])</span>
</span><span id="L-1262"><a href="#L-1262"><span class="linenos">1262</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-1263"><a href="#L-1263"><span class="linenos">1263</span></a> <span class="n">cnfgt</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">chunksize</span><span class="p">)</span>
</span><span id="L-1264"><a href="#L-1264"><span class="linenos">1264</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">cnfgt</span><span class="p">:</span>
</span><span id="L-1265"><a href="#L-1265"><span class="linenos">1265</span></a> <span class="k">break</span>
</span><span id="L-1266"><a href="#L-1266"><span class="linenos">1266</span></a> <span class="n">asascii</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="n">packstr</span><span class="p">,</span> <span class="n">cnfgt</span><span class="p">)</span>
</span><span id="L-1267"><a href="#L-1267"><span class="linenos">1267</span></a> <span class="n">cnfg</span> <span class="o">=</span> <span class="n">asascii</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1268"><a href="#L-1268"><span class="linenos">1268</span></a> <span class="n">idl_wanted</span> <span class="o">=</span> <span class="kc">True</span>
</span><span id="L-1269"><a href="#L-1269"><span class="linenos">1269</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1270"><a href="#L-1270"><span class="linenos">1270</span></a> <span class="n">idl_wanted</span> <span class="o">=</span> <span class="p">(</span><span class="n">cnfg</span> <span class="ow">in</span> <span class="n">expected_idl</span><span class="p">[</span><span class="n">repnum</span><span class="p">])</span>
</span><span id="L-1271"><a href="#L-1271"><span class="linenos">1271</span></a> <span class="n">left_idl</span> <span class="o">=</span> <span class="n">left_idl</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">cnfg</span><span class="p">])</span>
</span><span id="L-1272"><a href="#L-1272"><span class="linenos">1272</span></a> <span class="k">if</span> <span class="n">idl_wanted</span><span class="p">:</span>
</span><span id="L-1273"><a href="#L-1273"><span class="linenos">1273</span></a> <span class="n">cnfgs</span><span class="p">[</span><span class="n">repnum</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg</span><span class="p">)</span>
</span><span id="L-1274"><a href="#L-1274"><span class="linenos">1274</span></a>
</span><span id="L-1275"><a href="#L-1275"><span class="linenos">1275</span></a> <span class="k">if</span> <span class="n">corr</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">placesBB</span><span class="p">:</span>
</span><span id="L-1276"><a href="#L-1276"><span class="linenos">1276</span></a> <span class="n">tmpcorr</span> <span class="o">=</span> <span class="n">asascii</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="n">placesBI</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">):</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="n">placesBI</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">]</span>
</span><span id="L-1277"><a href="#L-1277"><span class="linenos">1277</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1278"><a href="#L-1278"><span class="linenos">1278</span></a> <span class="n">tmpcorr</span> <span class="o">=</span> <span class="n">asascii</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">placesBI</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">placesBB</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">):</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">placesBI</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">placesBB</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
</span><span id="L-1279"><a href="#L-1279"><span class="linenos">1279</span></a>
</span><span id="L-1280"><a href="#L-1280"><span class="linenos">1280</span></a> <span class="n">corrres</span> <span class="o">=</span> <span class="p">[[],</span> <span class="p">[]]</span>
</span><span id="L-1281"><a href="#L-1281"><span class="linenos">1281</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)):</span>
</span><span id="L-1282"><a href="#L-1282"><span class="linenos">1282</span></a> <span class="n">corrres</span><span class="p">[</span><span class="n">i</span> <span class="o">%</span> <span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
</span><span id="L-1283"><a href="#L-1283"><span class="linenos">1283</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)):</span>
</span><span id="L-1284"><a href="#L-1284"><span class="linenos">1284</span></a> <span class="n">realsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">][</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corrres</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="L-1285"><a href="#L-1285"><span class="linenos">1285</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)):</span>
</span><span id="L-1286"><a href="#L-1286"><span class="linenos">1286</span></a> <span class="n">imagsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">][</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corrres</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="L-1287"><a href="#L-1287"><span class="linenos">1287</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="L-1288"><a href="#L-1288"><span class="linenos">1288</span></a> <span class="n">left_idl</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">left_idl</span><span class="p">)</span>
</span><span id="L-1289"><a href="#L-1289"><span class="linenos">1289</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">left_idl</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="L-1290"><a href="#L-1290"><span class="linenos">1290</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Could not find idls &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">left_idl</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; in replikum of file &#39;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
</span><span id="L-1291"><a href="#L-1291"><span class="linenos">1291</span></a> <span class="n">repnum</span> <span class="o">+=</span> <span class="mi">1</span>
</span><span id="L-1292"><a href="#L-1292"><span class="linenos">1292</span></a> <span class="n">s</span> <span class="o">=</span> <span class="s2">&quot;Read correlator &quot;</span> <span class="o">+</span> <span class="n">corr</span> <span class="o">+</span> <span class="s2">&quot; from &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">repnum</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; replika with idls&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">realsamples</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="L-1293"><a href="#L-1293"><span class="linenos">1293</span></a> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">repnum</span><span class="p">):</span>
</span><span id="L-1294"><a href="#L-1294"><span class="linenos">1294</span></a> <span class="n">s</span> <span class="o">+=</span> <span class="s2">&quot;, &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">realsamples</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="L-1295"><a href="#L-1295"><span class="linenos">1295</span></a> <span class="nb">print</span><span class="p">(</span><span class="n">s</span><span class="p">)</span>
</span><span id="L-1296"><a href="#L-1296"><span class="linenos">1296</span></a> <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Asserted run parameters:</span><span class="se">\n</span><span class="s2"> T:&quot;</span><span class="p">,</span> <span class="n">tmax</span><span class="p">,</span> <span class="s2">&quot;kappa:&quot;</span><span class="p">,</span> <span class="n">kappa</span><span class="p">,</span> <span class="s2">&quot;csw:&quot;</span><span class="p">,</span> <span class="n">csw</span><span class="p">,</span> <span class="s2">&quot;dF:&quot;</span><span class="p">,</span> <span class="n">dF</span><span class="p">,</span> <span class="s2">&quot;zF:&quot;</span><span class="p">,</span> <span class="n">zF</span><span class="p">,</span> <span class="s2">&quot;bnd:&quot;</span><span class="p">,</span> <span class="n">bnd</span><span class="p">)</span>
</span><span id="L-1297"><a href="#L-1297"><span class="linenos">1297</span></a>
</span><span id="L-1298"><a href="#L-1298"><span class="linenos">1298</span></a> <span class="c1"># we have the data now... but we need to re format the whole thing and put it into Corr objects.</span>
</span><span id="L-1299"><a href="#L-1299"><span class="linenos">1299</span></a>
</span><span id="L-1300"><a href="#L-1300"><span class="linenos">1300</span></a> <span class="n">compObs</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-1301"><a href="#L-1301"><span class="linenos">1301</span></a>
</span><span id="L-1302"><a href="#L-1302"><span class="linenos">1302</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)):</span>
</span><span id="L-1303"><a href="#L-1303"><span class="linenos">1303</span></a> <span class="n">compObs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">CObs</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">realsamples</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">repnum</span><span class="p">)],</span> <span class="n">names</span><span class="o">=</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">cnfgs</span><span class="p">),</span>
</span><span id="L-1304"><a href="#L-1304"><span class="linenos">1304</span></a> <span class="n">Obs</span><span class="p">([</span><span class="n">imagsamples</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">repnum</span><span class="p">)],</span> <span class="n">names</span><span class="o">=</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">cnfgs</span><span class="p">)))</span>
</span><span id="L-1305"><a href="#L-1305"><span class="linenos">1305</span></a>
</span><span id="L-1306"><a href="#L-1306"><span class="linenos">1306</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">compObs</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="L-1307"><a href="#L-1307"><span class="linenos">1307</span></a> <span class="k">return</span> <span class="n">compObs</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="L-1308"><a href="#L-1308"><span class="linenos">1308</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-1309"><a href="#L-1309"><span class="linenos">1309</span></a> <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">compObs</span><span class="p">)</span>
</span></pre></div>
</section>
<section id="read_rwms">
<input id="read_rwms-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">read_rwms</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span>, </span><span class="param"><span class="n">names</span><span class="o">=</span><span class="kc">None</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span><span class="return-annotation">):</span></span>
<label class="view-source-button" for="read_rwms-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#read_rwms"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="read_rwms-14"><a href="#read_rwms-14"><span class="linenos"> 14</span></a><span class="k">def</span> <span class="nf">read_rwms</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s1">&#39;2.0&#39;</span><span class="p">,</span> <span class="n">names</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="read_rwms-15"><a href="#read_rwms-15"><span class="linenos"> 15</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read rwms format from given folder structure. Returns a list of length nrw</span>
</span><span id="read_rwms-16"><a href="#read_rwms-16"><span class="linenos"> 16</span></a>
</span><span id="read_rwms-17"><a href="#read_rwms-17"><span class="linenos"> 17</span></a><span class="sd"> Parameters</span>
</span><span id="read_rwms-18"><a href="#read_rwms-18"><span class="linenos"> 18</span></a><span class="sd"> ----------</span>
</span><span id="read_rwms-19"><a href="#read_rwms-19"><span class="linenos"> 19</span></a><span class="sd"> path : str</span>
</span><span id="read_rwms-20"><a href="#read_rwms-20"><span class="linenos"> 20</span></a><span class="sd"> path that contains the data files</span>
</span><span id="read_rwms-21"><a href="#read_rwms-21"><span class="linenos"> 21</span></a><span class="sd"> prefix : str</span>
</span><span id="read_rwms-22"><a href="#read_rwms-22"><span class="linenos"> 22</span></a><span class="sd"> all files in path that start with prefix are considered as input files.</span>
</span><span id="read_rwms-23"><a href="#read_rwms-23"><span class="linenos"> 23</span></a><span class="sd"> May be used together postfix to consider only special file endings.</span>
</span><span id="read_rwms-24"><a href="#read_rwms-24"><span class="linenos"> 24</span></a><span class="sd"> Prefix is ignored, if the keyword &#39;files&#39; is used.</span>
</span><span id="read_rwms-25"><a href="#read_rwms-25"><span class="linenos"> 25</span></a><span class="sd"> version : str</span>
</span><span id="read_rwms-26"><a href="#read_rwms-26"><span class="linenos"> 26</span></a><span class="sd"> version of openQCD, default 2.0</span>
</span><span id="read_rwms-27"><a href="#read_rwms-27"><span class="linenos"> 27</span></a><span class="sd"> names : list</span>
</span><span id="read_rwms-28"><a href="#read_rwms-28"><span class="linenos"> 28</span></a><span class="sd"> list of names that is assigned to the data according according</span>
</span><span id="read_rwms-29"><a href="#read_rwms-29"><span class="linenos"> 29</span></a><span class="sd"> to the order in the file list. Use careful, if you do not provide file names!</span>
</span><span id="read_rwms-30"><a href="#read_rwms-30"><span class="linenos"> 30</span></a><span class="sd"> r_start : list</span>
</span><span id="read_rwms-31"><a href="#read_rwms-31"><span class="linenos"> 31</span></a><span class="sd"> list which contains the first config to be read for each replicum</span>
</span><span id="read_rwms-32"><a href="#read_rwms-32"><span class="linenos"> 32</span></a><span class="sd"> r_stop : list</span>
</span><span id="read_rwms-33"><a href="#read_rwms-33"><span class="linenos"> 33</span></a><span class="sd"> list which contains the last config to be read for each replicum</span>
</span><span id="read_rwms-34"><a href="#read_rwms-34"><span class="linenos"> 34</span></a><span class="sd"> r_step : int</span>
</span><span id="read_rwms-35"><a href="#read_rwms-35"><span class="linenos"> 35</span></a><span class="sd"> integer that defines a fixed step size between two measurements (in units of configs)</span>
</span><span id="read_rwms-36"><a href="#read_rwms-36"><span class="linenos"> 36</span></a><span class="sd"> If not given, r_step=1 is assumed.</span>
</span><span id="read_rwms-37"><a href="#read_rwms-37"><span class="linenos"> 37</span></a><span class="sd"> postfix : str</span>
</span><span id="read_rwms-38"><a href="#read_rwms-38"><span class="linenos"> 38</span></a><span class="sd"> postfix of the file to read, e.g. &#39;.ms1&#39; for openQCD-files</span>
</span><span id="read_rwms-39"><a href="#read_rwms-39"><span class="linenos"> 39</span></a><span class="sd"> files : list</span>
</span><span id="read_rwms-40"><a href="#read_rwms-40"><span class="linenos"> 40</span></a><span class="sd"> list which contains the filenames to be read. No automatic detection of</span>
</span><span id="read_rwms-41"><a href="#read_rwms-41"><span class="linenos"> 41</span></a><span class="sd"> files performed if given.</span>
</span><span id="read_rwms-42"><a href="#read_rwms-42"><span class="linenos"> 42</span></a><span class="sd"> print_err : bool</span>
</span><span id="read_rwms-43"><a href="#read_rwms-43"><span class="linenos"> 43</span></a><span class="sd"> Print additional information that is useful for debugging.</span>
</span><span id="read_rwms-44"><a href="#read_rwms-44"><span class="linenos"> 44</span></a>
</span><span id="read_rwms-45"><a href="#read_rwms-45"><span class="linenos"> 45</span></a><span class="sd"> Returns</span>
</span><span id="read_rwms-46"><a href="#read_rwms-46"><span class="linenos"> 46</span></a><span class="sd"> -------</span>
</span><span id="read_rwms-47"><a href="#read_rwms-47"><span class="linenos"> 47</span></a><span class="sd"> rwms : Obs</span>
</span><span id="read_rwms-48"><a href="#read_rwms-48"><span class="linenos"> 48</span></a><span class="sd"> Reweighting factors read</span>
</span><span id="read_rwms-49"><a href="#read_rwms-49"><span class="linenos"> 49</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="read_rwms-50"><a href="#read_rwms-50"><span class="linenos"> 50</span></a> <span class="n">known_oqcd_versions</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;1.4&#39;</span><span class="p">,</span> <span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]</span>
</span><span id="read_rwms-51"><a href="#read_rwms-51"><span class="linenos"> 51</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="p">(</span><span class="n">version</span> <span class="ow">in</span> <span class="n">known_oqcd_versions</span><span class="p">):</span>
</span><span id="read_rwms-52"><a href="#read_rwms-52"><span class="linenos"> 52</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Unknown openQCD version defined!&#39;</span><span class="p">)</span>
</span><span id="read_rwms-53"><a href="#read_rwms-53"><span class="linenos"> 53</span></a> <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Working with openQCD version &quot;</span> <span class="o">+</span> <span class="n">version</span><span class="p">)</span>
</span><span id="read_rwms-54"><a href="#read_rwms-54"><span class="linenos"> 54</span></a> <span class="k">if</span> <span class="s1">&#39;postfix&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_rwms-55"><a href="#read_rwms-55"><span class="linenos"> 55</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;postfix&#39;</span><span class="p">)</span>
</span><span id="read_rwms-56"><a href="#read_rwms-56"><span class="linenos"> 56</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-57"><a href="#read_rwms-57"><span class="linenos"> 57</span></a> <span class="n">postfix</span> <span class="o">=</span> <span class="s1">&#39;&#39;</span>
</span><span id="read_rwms-58"><a href="#read_rwms-58"><span class="linenos"> 58</span></a>
</span><span id="read_rwms-59"><a href="#read_rwms-59"><span class="linenos"> 59</span></a> <span class="k">if</span> <span class="s1">&#39;files&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_rwms-60"><a href="#read_rwms-60"><span class="linenos"> 60</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;files&#39;</span><span class="p">)</span>
</span><span id="read_rwms-61"><a href="#read_rwms-61"><span class="linenos"> 61</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-62"><a href="#read_rwms-62"><span class="linenos"> 62</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-63"><a href="#read_rwms-63"><span class="linenos"> 63</span></a>
</span><span id="read_rwms-64"><a href="#read_rwms-64"><span class="linenos"> 64</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="n">_find_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="s1">&#39;dat&#39;</span><span class="p">,</span> <span class="n">known_files</span><span class="o">=</span><span class="n">known_files</span><span class="p">)</span>
</span><span id="read_rwms-65"><a href="#read_rwms-65"><span class="linenos"> 65</span></a>
</span><span id="read_rwms-66"><a href="#read_rwms-66"><span class="linenos"> 66</span></a> <span class="n">replica</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span>
</span><span id="read_rwms-67"><a href="#read_rwms-67"><span class="linenos"> 67</span></a>
</span><span id="read_rwms-68"><a href="#read_rwms-68"><span class="linenos"> 68</span></a> <span class="k">if</span> <span class="s1">&#39;r_start&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_rwms-69"><a href="#read_rwms-69"><span class="linenos"> 69</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_start&#39;</span><span class="p">)</span>
</span><span id="read_rwms-70"><a href="#read_rwms-70"><span class="linenos"> 70</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_start</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
</span><span id="read_rwms-71"><a href="#read_rwms-71"><span class="linenos"> 71</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_start does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="read_rwms-72"><a href="#read_rwms-72"><span class="linenos"> 72</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="k">if</span> <span class="n">o</span> <span class="k">else</span> <span class="kc">None</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">r_start</span><span class="p">]</span>
</span><span id="read_rwms-73"><a href="#read_rwms-73"><span class="linenos"> 73</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-74"><a href="#read_rwms-74"><span class="linenos"> 74</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
</span><span id="read_rwms-75"><a href="#read_rwms-75"><span class="linenos"> 75</span></a>
</span><span id="read_rwms-76"><a href="#read_rwms-76"><span class="linenos"> 76</span></a> <span class="k">if</span> <span class="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_rwms-77"><a href="#read_rwms-77"><span class="linenos"> 77</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_stop&#39;</span><span class="p">)</span>
</span><span id="read_rwms-78"><a href="#read_rwms-78"><span class="linenos"> 78</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">r_stop</span><span class="p">)</span> <span class="o">!=</span> <span class="n">replica</span><span class="p">:</span>
</span><span id="read_rwms-79"><a href="#read_rwms-79"><span class="linenos"> 79</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;r_stop does not match number of replicas&#39;</span><span class="p">)</span>
</span><span id="read_rwms-80"><a href="#read_rwms-80"><span class="linenos"> 80</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-81"><a href="#read_rwms-81"><span class="linenos"> 81</span></a> <span class="n">r_stop</span> <span class="o">=</span> <span class="p">[</span><span class="kc">None</span><span class="p">]</span> <span class="o">*</span> <span class="n">replica</span>
</span><span id="read_rwms-82"><a href="#read_rwms-82"><span class="linenos"> 82</span></a>
</span><span id="read_rwms-83"><a href="#read_rwms-83"><span class="linenos"> 83</span></a> <span class="k">if</span> <span class="s1">&#39;r_step&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_rwms-84"><a href="#read_rwms-84"><span class="linenos"> 84</span></a> <span class="n">r_step</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;r_step&#39;</span><span class="p">)</span>
</span><span id="read_rwms-85"><a href="#read_rwms-85"><span class="linenos"> 85</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-86"><a href="#read_rwms-86"><span class="linenos"> 86</span></a> <span class="n">r_step</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="read_rwms-87"><a href="#read_rwms-87"><span class="linenos"> 87</span></a>
</span><span id="read_rwms-88"><a href="#read_rwms-88"><span class="linenos"> 88</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Read reweighting factors from&#39;</span><span class="p">,</span> <span class="n">prefix</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="s1">&#39;,&#39;</span><span class="p">,</span>
</span><span id="read_rwms-89"><a href="#read_rwms-89"><span class="linenos"> 89</span></a> <span class="n">replica</span><span class="p">,</span> <span class="s1">&#39;replica&#39;</span><span class="p">,</span> <span class="n">end</span><span class="o">=</span><span class="s1">&#39;&#39;</span><span class="p">)</span>
</span><span id="read_rwms-90"><a href="#read_rwms-90"><span class="linenos"> 90</span></a>
</span><span id="read_rwms-91"><a href="#read_rwms-91"><span class="linenos"> 91</span></a> <span class="k">if</span> <span class="n">names</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="read_rwms-92"><a href="#read_rwms-92"><span class="linenos"> 92</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-93"><a href="#read_rwms-93"><span class="linenos"> 93</span></a> <span class="k">for</span> <span class="n">entry</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="read_rwms-94"><a href="#read_rwms-94"><span class="linenos"> 94</span></a> <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">entry</span>
</span><span id="read_rwms-95"><a href="#read_rwms-95"><span class="linenos"> 95</span></a> <span class="n">suffixes</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;.dat&quot;</span><span class="p">,</span> <span class="s2">&quot;.rwms&quot;</span><span class="p">,</span> <span class="s2">&quot;.ms1&quot;</span><span class="p">]</span>
</span><span id="read_rwms-96"><a href="#read_rwms-96"><span class="linenos"> 96</span></a> <span class="k">for</span> <span class="n">suffix</span> <span class="ow">in</span> <span class="n">suffixes</span><span class="p">:</span>
</span><span id="read_rwms-97"><a href="#read_rwms-97"><span class="linenos"> 97</span></a> <span class="k">if</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">endswith</span><span class="p">(</span><span class="n">suffix</span><span class="p">):</span>
</span><span id="read_rwms-98"><a href="#read_rwms-98"><span class="linenos"> 98</span></a> <span class="n">truncated_entry</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="mi">0</span><span class="p">:</span><span class="o">-</span><span class="nb">len</span><span class="p">(</span><span class="n">suffix</span><span class="p">)]</span>
</span><span id="read_rwms-99"><a href="#read_rwms-99"><span class="linenos"> 99</span></a> <span class="n">idx</span> <span class="o">=</span> <span class="n">truncated_entry</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="s1">&#39;r&#39;</span><span class="p">)</span>
</span><span id="read_rwms-100"><a href="#read_rwms-100"><span class="linenos">100</span></a> <span class="n">rep_names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">truncated_entry</span><span class="p">[:</span><span class="n">idx</span><span class="p">]</span> <span class="o">+</span> <span class="s1">&#39;|&#39;</span> <span class="o">+</span> <span class="n">truncated_entry</span><span class="p">[</span><span class="n">idx</span><span class="p">:])</span>
</span><span id="read_rwms-101"><a href="#read_rwms-101"><span class="linenos">101</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-102"><a href="#read_rwms-102"><span class="linenos">102</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="n">names</span>
</span><span id="read_rwms-103"><a href="#read_rwms-103"><span class="linenos">103</span></a>
</span><span id="read_rwms-104"><a href="#read_rwms-104"><span class="linenos">104</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="n">sort_names</span><span class="p">(</span><span class="n">rep_names</span><span class="p">)</span>
</span><span id="read_rwms-105"><a href="#read_rwms-105"><span class="linenos">105</span></a>
</span><span id="read_rwms-106"><a href="#read_rwms-106"><span class="linenos">106</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
</span><span id="read_rwms-107"><a href="#read_rwms-107"><span class="linenos">107</span></a> <span class="k">if</span> <span class="s1">&#39;print_err&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_rwms-108"><a href="#read_rwms-108"><span class="linenos">108</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="read_rwms-109"><a href="#read_rwms-109"><span class="linenos">109</span></a> <span class="nb">print</span><span class="p">()</span>
</span><span id="read_rwms-110"><a href="#read_rwms-110"><span class="linenos">110</span></a>
</span><span id="read_rwms-111"><a href="#read_rwms-111"><span class="linenos">111</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-112"><a href="#read_rwms-112"><span class="linenos">112</span></a>
</span><span id="read_rwms-113"><a href="#read_rwms-113"><span class="linenos">113</span></a> <span class="n">configlist</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-114"><a href="#read_rwms-114"><span class="linenos">114</span></a> <span class="n">r_start_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-115"><a href="#read_rwms-115"><span class="linenos">115</span></a> <span class="n">r_stop_index</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-116"><a href="#read_rwms-116"><span class="linenos">116</span></a>
</span><span id="read_rwms-117"><a href="#read_rwms-117"><span class="linenos">117</span></a> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">):</span>
</span><span id="read_rwms-118"><a href="#read_rwms-118"><span class="linenos">118</span></a> <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-119"><a href="#read_rwms-119"><span class="linenos">119</span></a> <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">ls</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
</span><span id="read_rwms-120"><a href="#read_rwms-120"><span class="linenos">120</span></a>
</span><span id="read_rwms-121"><a href="#read_rwms-121"><span class="linenos">121</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span> <span class="c1"># number of reweighting factors</span>
</span><span id="read_rwms-122"><a href="#read_rwms-122"><span class="linenos">122</span></a> <span class="k">if</span> <span class="n">rep</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="read_rwms-123"><a href="#read_rwms-123"><span class="linenos">123</span></a> <span class="n">nrw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_rwms-124"><a href="#read_rwms-124"><span class="linenos">124</span></a> <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
</span><span id="read_rwms-125"><a href="#read_rwms-125"><span class="linenos">125</span></a> <span class="n">nrw</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="n">nrw</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)</span>
</span><span id="read_rwms-126"><a href="#read_rwms-126"><span class="linenos">126</span></a> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-127"><a href="#read_rwms-127"><span class="linenos">127</span></a> <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_rwms-128"><a href="#read_rwms-128"><span class="linenos">128</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-129"><a href="#read_rwms-129"><span class="linenos">129</span></a> <span class="k">if</span> <span class="p">((</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="ow">and</span> <span class="p">(</span><span class="ow">not</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">))</span> <span class="ow">or</span> <span class="p">(</span><span class="n">nrw</span> <span class="o">!=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="mi">2</span> <span class="ow">and</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">)):</span>
</span><span id="read_rwms-130"><a href="#read_rwms-130"><span class="linenos">130</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of reweighting factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
</span><span id="read_rwms-131"><a href="#read_rwms-131"><span class="linenos">131</span></a>
</span><span id="read_rwms-132"><a href="#read_rwms-132"><span class="linenos">132</span></a> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-133"><a href="#read_rwms-133"><span class="linenos">133</span></a> <span class="n">tmp_array</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_rwms-134"><a href="#read_rwms-134"><span class="linenos">134</span></a>
</span><span id="read_rwms-135"><a href="#read_rwms-135"><span class="linenos">135</span></a> <span class="c1"># This block is necessary for openQCD1.6 and openQCD2.0 ms1 files</span>
</span><span id="read_rwms-136"><a href="#read_rwms-136"><span class="linenos">136</span></a> <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-137"><a href="#read_rwms-137"><span class="linenos">137</span></a> <span class="k">if</span> <span class="n">version</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;1.6&#39;</span><span class="p">,</span> <span class="s1">&#39;2.0&#39;</span><span class="p">]:</span>
</span><span id="read_rwms-138"><a href="#read_rwms-138"><span class="linenos">138</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-139"><a href="#read_rwms-139"><span class="linenos">139</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="read_rwms-140"><a href="#read_rwms-140"><span class="linenos">140</span></a> <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="read_rwms-141"><a href="#read_rwms-141"><span class="linenos">141</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-142"><a href="#read_rwms-142"><span class="linenos">142</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-143"><a href="#read_rwms-143"><span class="linenos">143</span></a> <span class="n">nfct</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
</span><span id="read_rwms-144"><a href="#read_rwms-144"><span class="linenos">144</span></a>
</span><span id="read_rwms-145"><a href="#read_rwms-145"><span class="linenos">145</span></a> <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-146"><a href="#read_rwms-146"><span class="linenos">146</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-147"><a href="#read_rwms-147"><span class="linenos">147</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="read_rwms-148"><a href="#read_rwms-148"><span class="linenos">148</span></a> <span class="n">nsrc</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="read_rwms-149"><a href="#read_rwms-149"><span class="linenos">149</span></a> <span class="k">if</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">:</span>
</span><span id="read_rwms-150"><a href="#read_rwms-150"><span class="linenos">150</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">))[</span><span class="mi">0</span><span class="p">]</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="read_rwms-151"><a href="#read_rwms-151"><span class="linenos">151</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;You are using the input for openQCD version 2.0, this is not correct.&quot;</span><span class="p">)</span>
</span><span id="read_rwms-152"><a href="#read_rwms-152"><span class="linenos">152</span></a>
</span><span id="read_rwms-153"><a href="#read_rwms-153"><span class="linenos">153</span></a> <span class="n">configlist</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_rwms-154"><a href="#read_rwms-154"><span class="linenos">154</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="read_rwms-155"><a href="#read_rwms-155"><span class="linenos">155</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="read_rwms-156"><a href="#read_rwms-156"><span class="linenos">156</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">t</span><span class="p">)</span> <span class="o">&lt;</span> <span class="mi">4</span><span class="p">:</span>
</span><span id="read_rwms-157"><a href="#read_rwms-157"><span class="linenos">157</span></a> <span class="k">break</span>
</span><span id="read_rwms-158"><a href="#read_rwms-158"><span class="linenos">158</span></a> <span class="n">config_no</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_rwms-159"><a href="#read_rwms-159"><span class="linenos">159</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">config_no</span><span class="p">)</span>
</span><span id="read_rwms-160"><a href="#read_rwms-160"><span class="linenos">160</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-161"><a href="#read_rwms-161"><span class="linenos">161</span></a> <span class="k">if</span> <span class="p">(</span><span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;2.0&#39;</span><span class="p">):</span>
</span><span id="read_rwms-162"><a href="#read_rwms-162"><span class="linenos">162</span></a> <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
</span><span id="read_rwms-163"><a href="#read_rwms-163"><span class="linenos">163</span></a> <span class="n">tmpd</span> <span class="o">=</span> <span class="n">_read_array_openQCD2</span><span class="p">(</span><span class="n">fp</span><span class="p">)</span>
</span><span id="read_rwms-164"><a href="#read_rwms-164"><span class="linenos">164</span></a> <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;arr&#39;</span><span class="p">]</span>
</span><span id="read_rwms-165"><a href="#read_rwms-165"><span class="linenos">165</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
</span><span id="read_rwms-166"><a href="#read_rwms-166"><span class="linenos">166</span></a> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmpd</span><span class="p">[</span><span class="s1">&#39;n&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]):</span>
</span><span id="read_rwms-167"><a href="#read_rwms-167"><span class="linenos">167</span></a> <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
</span><span id="read_rwms-168"><a href="#read_rwms-168"><span class="linenos">168</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="read_rwms-169"><a href="#read_rwms-169"><span class="linenos">169</span></a> <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
</span><span id="read_rwms-170"><a href="#read_rwms-170"><span class="linenos">170</span></a> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))),</span>
</span><span id="read_rwms-171"><a href="#read_rwms-171"><span class="linenos">171</span></a> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">]))))</span>
</span><span id="read_rwms-172"><a href="#read_rwms-172"><span class="linenos">172</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span>
</span><span id="read_rwms-173"><a href="#read_rwms-173"><span class="linenos">173</span></a> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">[</span><span class="n">j</span><span class="p">])))</span>
</span><span id="read_rwms-174"><a href="#read_rwms-174"><span class="linenos">174</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
</span><span id="read_rwms-175"><a href="#read_rwms-175"><span class="linenos">175</span></a> <span class="k">elif</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.6&#39;</span> <span class="ow">or</span> <span class="n">version</span> <span class="o">==</span> <span class="s1">&#39;1.4&#39;</span><span class="p">:</span>
</span><span id="read_rwms-176"><a href="#read_rwms-176"><span class="linenos">176</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
</span><span id="read_rwms-177"><a href="#read_rwms-177"><span class="linenos">177</span></a> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nfct</span><span class="p">[</span><span class="n">i</span><span class="p">]):</span>
</span><span id="read_rwms-178"><a href="#read_rwms-178"><span class="linenos">178</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
</span><span id="read_rwms-179"><a href="#read_rwms-179"><span class="linenos">179</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
</span><span id="read_rwms-180"><a href="#read_rwms-180"><span class="linenos">180</span></a> <span class="n">tmp_rw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="n">nsrc</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">t</span><span class="p">)</span>
</span><span id="read_rwms-181"><a href="#read_rwms-181"><span class="linenos">181</span></a> <span class="n">tmp_nfct</span> <span class="o">*=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
</span><span id="read_rwms-182"><a href="#read_rwms-182"><span class="linenos">182</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="read_rwms-183"><a href="#read_rwms-183"><span class="linenos">183</span></a> <span class="nb">print</span><span class="p">(</span><span class="n">config_no</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="n">j</span><span class="p">,</span>
</span><span id="read_rwms-184"><a href="#read_rwms-184"><span class="linenos">184</span></a> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))),</span>
</span><span id="read_rwms-185"><a href="#read_rwms-185"><span class="linenos">185</span></a> <span class="n">np</span><span class="o">.</span><span class="n">std</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))))</span>
</span><span id="read_rwms-186"><a href="#read_rwms-186"><span class="linenos">186</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Sources:&#39;</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
</span><span id="read_rwms-187"><a href="#read_rwms-187"><span class="linenos">187</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;Partial factor:&#39;</span><span class="p">,</span> <span class="n">tmp_nfct</span><span class="p">)</span>
</span><span id="read_rwms-188"><a href="#read_rwms-188"><span class="linenos">188</span></a> <span class="n">tmp_array</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_nfct</span><span class="p">)</span>
</span><span id="read_rwms-189"><a href="#read_rwms-189"><span class="linenos">189</span></a>
</span><span id="read_rwms-190"><a href="#read_rwms-190"><span class="linenos">190</span></a> <span class="n">diffmeas</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
</span><span id="read_rwms-191"><a href="#read_rwms-191"><span class="linenos">191</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">//</span> <span class="n">diffmeas</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="read_rwms-192"><a href="#read_rwms-192"><span class="linenos">192</span></a> <span class="k">if</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">&gt;</span> <span class="mi">1</span> <span class="ow">and</span> <span class="n">diffmeas</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="read_rwms-193"><a href="#read_rwms-193"><span class="linenos">193</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Assume thermalization and that the first measurement belongs to the first config.&#39;</span><span class="p">)</span>
</span><span id="read_rwms-194"><a href="#read_rwms-194"><span class="linenos">194</span></a> <span class="n">offset</span> <span class="o">=</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="mi">1</span>
</span><span id="read_rwms-195"><a href="#read_rwms-195"><span class="linenos">195</span></a> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">item</span> <span class="o">-</span> <span class="n">offset</span> <span class="k">for</span> <span class="n">item</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
</span><span id="read_rwms-196"><a href="#read_rwms-196"><span class="linenos">196</span></a>
</span><span id="read_rwms-197"><a href="#read_rwms-197"><span class="linenos">197</span></a> <span class="k">if</span> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="read_rwms-198"><a href="#read_rwms-198"><span class="linenos">198</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">0</span><span class="p">)</span>
</span><span id="read_rwms-199"><a href="#read_rwms-199"><span class="linenos">199</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-200"><a href="#read_rwms-200"><span class="linenos">200</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="read_rwms-201"><a href="#read_rwms-201"><span class="linenos">201</span></a> <span class="n">r_start_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="read_rwms-202"><a href="#read_rwms-202"><span class="linenos">202</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="read_rwms-203"><a href="#read_rwms-203"><span class="linenos">203</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="read_rwms-204"><a href="#read_rwms-204"><span class="linenos">204</span></a> <span class="n">r_start</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="read_rwms-205"><a href="#read_rwms-205"><span class="linenos">205</span></a>
</span><span id="read_rwms-206"><a href="#read_rwms-206"><span class="linenos">206</span></a> <span class="k">if</span> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
</span><span id="read_rwms-207"><a href="#read_rwms-207"><span class="linenos">207</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="mi">1</span><span class="p">)</span>
</span><span id="read_rwms-208"><a href="#read_rwms-208"><span class="linenos">208</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_rwms-209"><a href="#read_rwms-209"><span class="linenos">209</span></a> <span class="k">try</span><span class="p">:</span>
</span><span id="read_rwms-210"><a href="#read_rwms-210"><span class="linenos">210</span></a> <span class="n">r_stop_index</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">]))</span>
</span><span id="read_rwms-211"><a href="#read_rwms-211"><span class="linenos">211</span></a> <span class="k">except</span> <span class="ne">ValueError</span><span class="p">:</span>
</span><span id="read_rwms-212"><a href="#read_rwms-212"><span class="linenos">212</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Config </span><span class="si">%d</span><span class="s1"> not in file with range [</span><span class="si">%d</span><span class="s1">, </span><span class="si">%d</span><span class="s1">]&#39;</span> <span class="o">%</span> <span class="p">(</span>
</span><span id="read_rwms-213"><a href="#read_rwms-213"><span class="linenos">213</span></a> <span class="n">r_stop</span><span class="p">[</span><span class="n">rep</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="mi">0</span><span class="p">],</span> <span class="n">configlist</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">][</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span> <span class="kn">from</span> <span class="kc">None</span>
</span><span id="read_rwms-214"><a href="#read_rwms-214"><span class="linenos">214</span></a>
</span><span id="read_rwms-215"><a href="#read_rwms-215"><span class="linenos">215</span></a> <span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-216"><a href="#read_rwms-216"><span class="linenos">216</span></a> <span class="n">deltas</span><span class="p">[</span><span class="n">k</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmp_array</span><span class="p">[</span><span class="n">k</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]:</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">][::</span><span class="n">r_step</span><span class="p">])</span>
</span><span id="read_rwms-217"><a href="#read_rwms-217"><span class="linenos">217</span></a>
</span><span id="read_rwms-218"><a href="#read_rwms-218"><span class="linenos">218</span></a> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]):</span>
</span><span id="read_rwms-219"><a href="#read_rwms-219"><span class="linenos">219</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Irregular spaced data in input file!&#39;</span><span class="p">,</span> <span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">])</span>
</span><span id="read_rwms-220"><a href="#read_rwms-220"><span class="linenos">220</span></a> <span class="n">stepsizes</span> <span class="o">=</span> <span class="p">[</span><span class="nb">list</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">diff</span><span class="p">(</span><span class="n">cl</span><span class="p">)))[</span><span class="mi">0</span><span class="p">]</span> <span class="k">for</span> <span class="n">cl</span> <span class="ow">in</span> <span class="n">configlist</span><span class="p">]</span>
</span><span id="read_rwms-221"><a href="#read_rwms-221"><span class="linenos">221</span></a> <span class="k">if</span> <span class="n">np</span><span class="o">.</span><span class="n">any</span><span class="p">([</span><span class="n">step</span> <span class="o">!=</span> <span class="mi">1</span> <span class="k">for</span> <span class="n">step</span> <span class="ow">in</span> <span class="n">stepsizes</span><span class="p">]):</span>
</span><span id="read_rwms-222"><a href="#read_rwms-222"><span class="linenos">222</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Stepsize between configurations is greater than one!&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">stepsizes</span><span class="p">),</span> <span class="ne">RuntimeWarning</span><span class="p">)</span>
</span><span id="read_rwms-223"><a href="#read_rwms-223"><span class="linenos">223</span></a>
</span><span id="read_rwms-224"><a href="#read_rwms-224"><span class="linenos">224</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">,</span> <span class="n">nrw</span><span class="p">,</span> <span class="s1">&#39;reweighting factors with&#39;</span><span class="p">,</span> <span class="n">nsrc</span><span class="p">,</span> <span class="s1">&#39;sources&#39;</span><span class="p">)</span>
</span><span id="read_rwms-225"><a href="#read_rwms-225"><span class="linenos">225</span></a> <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_rwms-226"><a href="#read_rwms-226"><span class="linenos">226</span></a> <span class="n">idl</span> <span class="o">=</span> <span class="p">[</span><span class="nb">range</span><span class="p">(</span><span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_start_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]],</span> <span class="n">configlist</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">r_stop_index</span><span class="p">[</span><span class="n">rep</span><span class="p">]]</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">r_step</span><span class="p">)</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">replica</span><span class="p">)]</span>
</span><span id="read_rwms-227"><a href="#read_rwms-227"><span class="linenos">227</span></a>
</span><span id="read_rwms-228"><a href="#read_rwms-228"><span class="linenos">228</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nrw</span><span class="p">):</span>
</span><span id="read_rwms-229"><a href="#read_rwms-229"><span class="linenos">229</span></a> <span class="n">result</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">Obs</span><span class="p">(</span><span class="n">deltas</span><span class="p">[</span><span class="n">t</span><span class="p">],</span> <span class="n">rep_names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">idl</span><span class="p">))</span>
</span><span id="read_rwms-230"><a href="#read_rwms-230"><span class="linenos">230</span></a> <span class="k">return</span> <span class="n">result</span>
</span></pre></div>
<div class="docstring"><p>Read rwms format from given folder structure. Returns a list of length nrw</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (str):
path that contains the data files</li>
<li><strong>prefix</strong> (str):
all files in path that start with prefix are considered as input files.
May be used together postfix to consider only special file endings.
Prefix is ignored, if the keyword 'files' is used.</li>
<li><strong>version</strong> (str):
version of openQCD, default 2.0</li>
<li><strong>names</strong> (list):
list of names that is assigned to the data according according
to the order in the file list. Use careful, if you do not provide file names!</li>
<li><strong>r_start</strong> (list):
list which contains the first config to be read for each replicum</li>
<li><strong>r_stop</strong> (list):
list which contains the last config to be read for each replicum</li>
<li><strong>r_step</strong> (int):
integer that defines a fixed step size between two measurements (in units of configs)
If not given, r_step=1 is assumed.</li>
<li><strong>postfix</strong> (str):
postfix of the file to read, e.g. '.ms1' for openQCD-files</li>
<li><strong>files</strong> (list):
list which contains the filenames to be read. No automatic detection of
files performed if given.</li>
<li><strong>print_err</strong> (bool):
Print additional information that is useful for debugging.</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>rwms</strong> (Obs):
Reweighting factors read</li>
</ul>
</div>
</section>
<section id="extract_t0">
<input id="extract_t0-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">extract_t0</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="n">path</span>,</span><span class="param"> <span class="n">prefix</span>,</span><span class="param"> <span class="n">dtr_read</span>,</span><span class="param"> <span class="n">xmin</span>,</span><span class="param"> <span class="n">spatial_extent</span>,</span><span class="param"> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span>,</span><span class="param"> <span class="n">postfix</span><span class="o">=</span><span class="s1">&#39;ms&#39;</span>,</span><span class="param"> <span class="n">c</span><span class="o">=</span><span class="mf">0.3</span>,</span><span class="param"> <span class="o">**</span><span class="n">kwargs</span></span><span class="return-annotation">):</span></span>
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</div>
<a class="headerlink" href="#extract_t0"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="extract_t0-426"><a href="#extract_t0-426"><span class="linenos">426</span></a><span class="k">def</span> <span class="nf">extract_t0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">postfix</span><span class="o">=</span><span class="s1">&#39;ms&#39;</span><span class="p">,</span> <span class="n">c</span><span class="o">=</span><span class="mf">0.3</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="extract_t0-427"><a href="#extract_t0-427"><span class="linenos">427</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Extract t0/a^2 from given .ms.dat files. Returns t0 as Obs.</span>
</span><span id="extract_t0-428"><a href="#extract_t0-428"><span class="linenos">428</span></a>
</span><span id="extract_t0-429"><a href="#extract_t0-429"><span class="linenos">429</span></a><span class="sd"> It is assumed that all boundary effects have</span>
</span><span id="extract_t0-430"><a href="#extract_t0-430"><span class="linenos">430</span></a><span class="sd"> sufficiently decayed at x0=xmin.</span>
</span><span id="extract_t0-431"><a href="#extract_t0-431"><span class="linenos">431</span></a><span class="sd"> The data around the zero crossing of t^2&lt;E&gt; - c (where c=0.3 by default)</span>
</span><span id="extract_t0-432"><a href="#extract_t0-432"><span class="linenos">432</span></a><span class="sd"> is fitted with a linear function</span>
</span><span id="extract_t0-433"><a href="#extract_t0-433"><span class="linenos">433</span></a><span class="sd"> from which the exact root is extracted.</span>
</span><span id="extract_t0-434"><a href="#extract_t0-434"><span class="linenos">434</span></a>
</span><span id="extract_t0-435"><a href="#extract_t0-435"><span class="linenos">435</span></a><span class="sd"> It is assumed that one measurement is performed for each config.</span>
</span><span id="extract_t0-436"><a href="#extract_t0-436"><span class="linenos">436</span></a><span class="sd"> If this is not the case, the resulting idl, as well as the handling</span>
</span><span id="extract_t0-437"><a href="#extract_t0-437"><span class="linenos">437</span></a><span class="sd"> of r_start, r_stop and r_step is wrong and the user has to correct</span>
</span><span id="extract_t0-438"><a href="#extract_t0-438"><span class="linenos">438</span></a><span class="sd"> this in the resulting observable.</span>
</span><span id="extract_t0-439"><a href="#extract_t0-439"><span class="linenos">439</span></a>
</span><span id="extract_t0-440"><a href="#extract_t0-440"><span class="linenos">440</span></a><span class="sd"> Parameters</span>
</span><span id="extract_t0-441"><a href="#extract_t0-441"><span class="linenos">441</span></a><span class="sd"> ----------</span>
</span><span id="extract_t0-442"><a href="#extract_t0-442"><span class="linenos">442</span></a><span class="sd"> path : str</span>
</span><span id="extract_t0-443"><a href="#extract_t0-443"><span class="linenos">443</span></a><span class="sd"> Path to .ms.dat files</span>
</span><span id="extract_t0-444"><a href="#extract_t0-444"><span class="linenos">444</span></a><span class="sd"> prefix : str</span>
</span><span id="extract_t0-445"><a href="#extract_t0-445"><span class="linenos">445</span></a><span class="sd"> Ensemble prefix</span>
</span><span id="extract_t0-446"><a href="#extract_t0-446"><span class="linenos">446</span></a><span class="sd"> dtr_read : int</span>
</span><span id="extract_t0-447"><a href="#extract_t0-447"><span class="linenos">447</span></a><span class="sd"> Determines how many trajectories should be skipped</span>
</span><span id="extract_t0-448"><a href="#extract_t0-448"><span class="linenos">448</span></a><span class="sd"> when reading the ms.dat files.</span>
</span><span id="extract_t0-449"><a href="#extract_t0-449"><span class="linenos">449</span></a><span class="sd"> Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
</span><span id="extract_t0-450"><a href="#extract_t0-450"><span class="linenos">450</span></a><span class="sd"> xmin : int</span>
</span><span id="extract_t0-451"><a href="#extract_t0-451"><span class="linenos">451</span></a><span class="sd"> First timeslice where the boundary</span>
</span><span id="extract_t0-452"><a href="#extract_t0-452"><span class="linenos">452</span></a><span class="sd"> effects have sufficiently decayed.</span>
</span><span id="extract_t0-453"><a href="#extract_t0-453"><span class="linenos">453</span></a><span class="sd"> spatial_extent : int</span>
</span><span id="extract_t0-454"><a href="#extract_t0-454"><span class="linenos">454</span></a><span class="sd"> spatial extent of the lattice, required for normalization.</span>
</span><span id="extract_t0-455"><a href="#extract_t0-455"><span class="linenos">455</span></a><span class="sd"> fit_range : int</span>
</span><span id="extract_t0-456"><a href="#extract_t0-456"><span class="linenos">456</span></a><span class="sd"> Number of data points left and right of the zero</span>
</span><span id="extract_t0-457"><a href="#extract_t0-457"><span class="linenos">457</span></a><span class="sd"> crossing to be included in the linear fit. (Default: 5)</span>
</span><span id="extract_t0-458"><a href="#extract_t0-458"><span class="linenos">458</span></a><span class="sd"> postfix : str</span>
</span><span id="extract_t0-459"><a href="#extract_t0-459"><span class="linenos">459</span></a><span class="sd"> Postfix of measurement file (Default: ms)</span>
</span><span id="extract_t0-460"><a href="#extract_t0-460"><span class="linenos">460</span></a><span class="sd"> c: float</span>
</span><span id="extract_t0-461"><a href="#extract_t0-461"><span class="linenos">461</span></a><span class="sd"> Constant that defines the flow scale. Default 0.3 for t_0, choose 2./3 for t_1.</span>
</span><span id="extract_t0-462"><a href="#extract_t0-462"><span class="linenos">462</span></a><span class="sd"> r_start : list</span>
</span><span id="extract_t0-463"><a href="#extract_t0-463"><span class="linenos">463</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="extract_t0-464"><a href="#extract_t0-464"><span class="linenos">464</span></a><span class="sd"> r_stop : list</span>
</span><span id="extract_t0-465"><a href="#extract_t0-465"><span class="linenos">465</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="extract_t0-466"><a href="#extract_t0-466"><span class="linenos">466</span></a><span class="sd"> r_step : int</span>
</span><span id="extract_t0-467"><a href="#extract_t0-467"><span class="linenos">467</span></a><span class="sd"> integer that defines a fixed step size between two measurements (in units of configs)</span>
</span><span id="extract_t0-468"><a href="#extract_t0-468"><span class="linenos">468</span></a><span class="sd"> If not given, r_step=1 is assumed.</span>
</span><span id="extract_t0-469"><a href="#extract_t0-469"><span class="linenos">469</span></a><span class="sd"> plaquette : bool</span>
</span><span id="extract_t0-470"><a href="#extract_t0-470"><span class="linenos">470</span></a><span class="sd"> If true extract the plaquette estimate of t0 instead.</span>
</span><span id="extract_t0-471"><a href="#extract_t0-471"><span class="linenos">471</span></a><span class="sd"> names : list</span>
</span><span id="extract_t0-472"><a href="#extract_t0-472"><span class="linenos">472</span></a><span class="sd"> list of names that is assigned to the data according according</span>
</span><span id="extract_t0-473"><a href="#extract_t0-473"><span class="linenos">473</span></a><span class="sd"> to the order in the file list. Use careful, if you do not provide file names!</span>
</span><span id="extract_t0-474"><a href="#extract_t0-474"><span class="linenos">474</span></a><span class="sd"> files : list</span>
</span><span id="extract_t0-475"><a href="#extract_t0-475"><span class="linenos">475</span></a><span class="sd"> list which contains the filenames to be read. No automatic detection of</span>
</span><span id="extract_t0-476"><a href="#extract_t0-476"><span class="linenos">476</span></a><span class="sd"> files performed if given.</span>
</span><span id="extract_t0-477"><a href="#extract_t0-477"><span class="linenos">477</span></a><span class="sd"> plot_fit : bool</span>
</span><span id="extract_t0-478"><a href="#extract_t0-478"><span class="linenos">478</span></a><span class="sd"> If true, the fit for the extraction of t0 is shown together with the data.</span>
</span><span id="extract_t0-479"><a href="#extract_t0-479"><span class="linenos">479</span></a><span class="sd"> assume_thermalization : bool</span>
</span><span id="extract_t0-480"><a href="#extract_t0-480"><span class="linenos">480</span></a><span class="sd"> If True: If the first record divided by the distance between two measurements is larger than</span>
</span><span id="extract_t0-481"><a href="#extract_t0-481"><span class="linenos">481</span></a><span class="sd"> 1, it is assumed that this is due to thermalization and the first measurement belongs</span>
</span><span id="extract_t0-482"><a href="#extract_t0-482"><span class="linenos">482</span></a><span class="sd"> to the first config (default).</span>
</span><span id="extract_t0-483"><a href="#extract_t0-483"><span class="linenos">483</span></a><span class="sd"> If False: The config numbers are assumed to be traj_number // difference</span>
</span><span id="extract_t0-484"><a href="#extract_t0-484"><span class="linenos">484</span></a>
</span><span id="extract_t0-485"><a href="#extract_t0-485"><span class="linenos">485</span></a><span class="sd"> Returns</span>
</span><span id="extract_t0-486"><a href="#extract_t0-486"><span class="linenos">486</span></a><span class="sd"> -------</span>
</span><span id="extract_t0-487"><a href="#extract_t0-487"><span class="linenos">487</span></a><span class="sd"> t0 : Obs</span>
</span><span id="extract_t0-488"><a href="#extract_t0-488"><span class="linenos">488</span></a><span class="sd"> Extracted t0</span>
</span><span id="extract_t0-489"><a href="#extract_t0-489"><span class="linenos">489</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="extract_t0-490"><a href="#extract_t0-490"><span class="linenos">490</span></a>
</span><span id="extract_t0-491"><a href="#extract_t0-491"><span class="linenos">491</span></a> <span class="n">E_dict</span> <span class="o">=</span> <span class="n">_extract_flowed_energy_density</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="extract_t0-492"><a href="#extract_t0-492"><span class="linenos">492</span></a> <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
</span><span id="extract_t0-493"><a href="#extract_t0-493"><span class="linenos">493</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">()):</span>
</span><span id="extract_t0-494"><a href="#extract_t0-494"><span class="linenos">494</span></a> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">t</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="extract_t0-495"><a href="#extract_t0-495"><span class="linenos">495</span></a>
</span><span id="extract_t0-496"><a href="#extract_t0-496"><span class="linenos">496</span></a> <span class="k">return</span> <span class="n">fit_t0</span><span class="p">(</span><span class="n">t2E_dict</span><span class="p">,</span> <span class="n">fit_range</span><span class="p">,</span> <span class="n">plot_fit</span><span class="o">=</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">))</span>
</span></pre></div>
<div class="docstring"><p>Extract t0/a^2 from given .ms.dat files. Returns t0 as Obs.</p>
<p>It is assumed that all boundary effects have
sufficiently decayed at x0=xmin.
The data around the zero crossing of t^2<E> - c (where c=0.3 by default)
is fitted with a linear function
from which the exact root is extracted.</p>
<p>It is assumed that one measurement is performed for each config.
If this is not the case, the resulting idl, as well as the handling
of r_start, r_stop and r_step is wrong and the user has to correct
this in the resulting observable.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (str):
Path to .ms.dat files</li>
<li><strong>prefix</strong> (str):
Ensemble prefix</li>
<li><strong>dtr_read</strong> (int):
Determines how many trajectories should be skipped
when reading the ms.dat files.
Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</li>
<li><strong>xmin</strong> (int):
First timeslice where the boundary
effects have sufficiently decayed.</li>
<li><strong>spatial_extent</strong> (int):
spatial extent of the lattice, required for normalization.</li>
<li><strong>fit_range</strong> (int):
Number of data points left and right of the zero
crossing to be included in the linear fit. (Default: 5)</li>
<li><strong>postfix</strong> (str):
Postfix of measurement file (Default: ms)</li>
<li><strong>c</strong> (float):
Constant that defines the flow scale. Default 0.3 for t_0, choose 2./3 for t_1.</li>
<li><strong>r_start</strong> (list):
list which contains the first config to be read for each replicum.</li>
<li><strong>r_stop</strong> (list):
list which contains the last config to be read for each replicum.</li>
<li><strong>r_step</strong> (int):
integer that defines a fixed step size between two measurements (in units of configs)
If not given, r_step=1 is assumed.</li>
<li><strong>plaquette</strong> (bool):
If true extract the plaquette estimate of t0 instead.</li>
<li><strong>names</strong> (list):
list of names that is assigned to the data according according
to the order in the file list. Use careful, if you do not provide file names!</li>
<li><strong>files</strong> (list):
list which contains the filenames to be read. No automatic detection of
files performed if given.</li>
<li><strong>plot_fit</strong> (bool):
If true, the fit for the extraction of t0 is shown together with the data.</li>
<li><strong>assume_thermalization</strong> (bool):
If True: If the first record divided by the distance between two measurements is larger than
1, it is assumed that this is due to thermalization and the first measurement belongs
to the first config (default).
If False: The config numbers are assumed to be traj_number // difference</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>t0</strong> (Obs):
Extracted t0</li>
</ul>
</div>
</section>
<section id="extract_w0">
<input id="extract_w0-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">extract_w0</span><span class="signature pdoc-code multiline">(<span class="param"> <span class="n">path</span>,</span><span class="param"> <span class="n">prefix</span>,</span><span class="param"> <span class="n">dtr_read</span>,</span><span class="param"> <span class="n">xmin</span>,</span><span class="param"> <span class="n">spatial_extent</span>,</span><span class="param"> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span>,</span><span class="param"> <span class="n">postfix</span><span class="o">=</span><span class="s1">&#39;ms&#39;</span>,</span><span class="param"> <span class="n">c</span><span class="o">=</span><span class="mf">0.3</span>,</span><span class="param"> <span class="o">**</span><span class="n">kwargs</span></span><span class="return-annotation">):</span></span>
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</div>
<a class="headerlink" href="#extract_w0"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="extract_w0-499"><a href="#extract_w0-499"><span class="linenos">499</span></a><span class="k">def</span> <span class="nf">extract_w0</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">fit_range</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span> <span class="n">postfix</span><span class="o">=</span><span class="s1">&#39;ms&#39;</span><span class="p">,</span> <span class="n">c</span><span class="o">=</span><span class="mf">0.3</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="extract_w0-500"><a href="#extract_w0-500"><span class="linenos">500</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Extract w0/a from given .ms.dat files. Returns w0 as Obs.</span>
</span><span id="extract_w0-501"><a href="#extract_w0-501"><span class="linenos">501</span></a>
</span><span id="extract_w0-502"><a href="#extract_w0-502"><span class="linenos">502</span></a><span class="sd"> It is assumed that all boundary effects have</span>
</span><span id="extract_w0-503"><a href="#extract_w0-503"><span class="linenos">503</span></a><span class="sd"> sufficiently decayed at x0=xmin.</span>
</span><span id="extract_w0-504"><a href="#extract_w0-504"><span class="linenos">504</span></a><span class="sd"> The data around the zero crossing of t d(t^2&lt;E&gt;)/dt - (where c=0.3 by default)</span>
</span><span id="extract_w0-505"><a href="#extract_w0-505"><span class="linenos">505</span></a><span class="sd"> is fitted with a linear function</span>
</span><span id="extract_w0-506"><a href="#extract_w0-506"><span class="linenos">506</span></a><span class="sd"> from which the exact root is extracted.</span>
</span><span id="extract_w0-507"><a href="#extract_w0-507"><span class="linenos">507</span></a>
</span><span id="extract_w0-508"><a href="#extract_w0-508"><span class="linenos">508</span></a><span class="sd"> It is assumed that one measurement is performed for each config.</span>
</span><span id="extract_w0-509"><a href="#extract_w0-509"><span class="linenos">509</span></a><span class="sd"> If this is not the case, the resulting idl, as well as the handling</span>
</span><span id="extract_w0-510"><a href="#extract_w0-510"><span class="linenos">510</span></a><span class="sd"> of r_start, r_stop and r_step is wrong and the user has to correct</span>
</span><span id="extract_w0-511"><a href="#extract_w0-511"><span class="linenos">511</span></a><span class="sd"> this in the resulting observable.</span>
</span><span id="extract_w0-512"><a href="#extract_w0-512"><span class="linenos">512</span></a>
</span><span id="extract_w0-513"><a href="#extract_w0-513"><span class="linenos">513</span></a><span class="sd"> Parameters</span>
</span><span id="extract_w0-514"><a href="#extract_w0-514"><span class="linenos">514</span></a><span class="sd"> ----------</span>
</span><span id="extract_w0-515"><a href="#extract_w0-515"><span class="linenos">515</span></a><span class="sd"> path : str</span>
</span><span id="extract_w0-516"><a href="#extract_w0-516"><span class="linenos">516</span></a><span class="sd"> Path to .ms.dat files</span>
</span><span id="extract_w0-517"><a href="#extract_w0-517"><span class="linenos">517</span></a><span class="sd"> prefix : str</span>
</span><span id="extract_w0-518"><a href="#extract_w0-518"><span class="linenos">518</span></a><span class="sd"> Ensemble prefix</span>
</span><span id="extract_w0-519"><a href="#extract_w0-519"><span class="linenos">519</span></a><span class="sd"> dtr_read : int</span>
</span><span id="extract_w0-520"><a href="#extract_w0-520"><span class="linenos">520</span></a><span class="sd"> Determines how many trajectories should be skipped</span>
</span><span id="extract_w0-521"><a href="#extract_w0-521"><span class="linenos">521</span></a><span class="sd"> when reading the ms.dat files.</span>
</span><span id="extract_w0-522"><a href="#extract_w0-522"><span class="linenos">522</span></a><span class="sd"> Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</span>
</span><span id="extract_w0-523"><a href="#extract_w0-523"><span class="linenos">523</span></a><span class="sd"> xmin : int</span>
</span><span id="extract_w0-524"><a href="#extract_w0-524"><span class="linenos">524</span></a><span class="sd"> First timeslice where the boundary</span>
</span><span id="extract_w0-525"><a href="#extract_w0-525"><span class="linenos">525</span></a><span class="sd"> effects have sufficiently decayed.</span>
</span><span id="extract_w0-526"><a href="#extract_w0-526"><span class="linenos">526</span></a><span class="sd"> spatial_extent : int</span>
</span><span id="extract_w0-527"><a href="#extract_w0-527"><span class="linenos">527</span></a><span class="sd"> spatial extent of the lattice, required for normalization.</span>
</span><span id="extract_w0-528"><a href="#extract_w0-528"><span class="linenos">528</span></a><span class="sd"> fit_range : int</span>
</span><span id="extract_w0-529"><a href="#extract_w0-529"><span class="linenos">529</span></a><span class="sd"> Number of data points left and right of the zero</span>
</span><span id="extract_w0-530"><a href="#extract_w0-530"><span class="linenos">530</span></a><span class="sd"> crossing to be included in the linear fit. (Default: 5)</span>
</span><span id="extract_w0-531"><a href="#extract_w0-531"><span class="linenos">531</span></a><span class="sd"> postfix : str</span>
</span><span id="extract_w0-532"><a href="#extract_w0-532"><span class="linenos">532</span></a><span class="sd"> Postfix of measurement file (Default: ms)</span>
</span><span id="extract_w0-533"><a href="#extract_w0-533"><span class="linenos">533</span></a><span class="sd"> c: float</span>
</span><span id="extract_w0-534"><a href="#extract_w0-534"><span class="linenos">534</span></a><span class="sd"> Constant that defines the flow scale. Default 0.3 for w_0, choose 2./3 for w_1.</span>
</span><span id="extract_w0-535"><a href="#extract_w0-535"><span class="linenos">535</span></a><span class="sd"> r_start : list</span>
</span><span id="extract_w0-536"><a href="#extract_w0-536"><span class="linenos">536</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="extract_w0-537"><a href="#extract_w0-537"><span class="linenos">537</span></a><span class="sd"> r_stop : list</span>
</span><span id="extract_w0-538"><a href="#extract_w0-538"><span class="linenos">538</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="extract_w0-539"><a href="#extract_w0-539"><span class="linenos">539</span></a><span class="sd"> r_step : int</span>
</span><span id="extract_w0-540"><a href="#extract_w0-540"><span class="linenos">540</span></a><span class="sd"> integer that defines a fixed step size between two measurements (in units of configs)</span>
</span><span id="extract_w0-541"><a href="#extract_w0-541"><span class="linenos">541</span></a><span class="sd"> If not given, r_step=1 is assumed.</span>
</span><span id="extract_w0-542"><a href="#extract_w0-542"><span class="linenos">542</span></a><span class="sd"> plaquette : bool</span>
</span><span id="extract_w0-543"><a href="#extract_w0-543"><span class="linenos">543</span></a><span class="sd"> If true extract the plaquette estimate of w0 instead.</span>
</span><span id="extract_w0-544"><a href="#extract_w0-544"><span class="linenos">544</span></a><span class="sd"> names : list</span>
</span><span id="extract_w0-545"><a href="#extract_w0-545"><span class="linenos">545</span></a><span class="sd"> list of names that is assigned to the data according according</span>
</span><span id="extract_w0-546"><a href="#extract_w0-546"><span class="linenos">546</span></a><span class="sd"> to the order in the file list. Use careful, if you do not provide file names!</span>
</span><span id="extract_w0-547"><a href="#extract_w0-547"><span class="linenos">547</span></a><span class="sd"> files : list</span>
</span><span id="extract_w0-548"><a href="#extract_w0-548"><span class="linenos">548</span></a><span class="sd"> list which contains the filenames to be read. No automatic detection of</span>
</span><span id="extract_w0-549"><a href="#extract_w0-549"><span class="linenos">549</span></a><span class="sd"> files performed if given.</span>
</span><span id="extract_w0-550"><a href="#extract_w0-550"><span class="linenos">550</span></a><span class="sd"> plot_fit : bool</span>
</span><span id="extract_w0-551"><a href="#extract_w0-551"><span class="linenos">551</span></a><span class="sd"> If true, the fit for the extraction of w0 is shown together with the data.</span>
</span><span id="extract_w0-552"><a href="#extract_w0-552"><span class="linenos">552</span></a><span class="sd"> assume_thermalization : bool</span>
</span><span id="extract_w0-553"><a href="#extract_w0-553"><span class="linenos">553</span></a><span class="sd"> If True: If the first record divided by the distance between two measurements is larger than</span>
</span><span id="extract_w0-554"><a href="#extract_w0-554"><span class="linenos">554</span></a><span class="sd"> 1, it is assumed that this is due to thermalization and the first measurement belongs</span>
</span><span id="extract_w0-555"><a href="#extract_w0-555"><span class="linenos">555</span></a><span class="sd"> to the first config (default).</span>
</span><span id="extract_w0-556"><a href="#extract_w0-556"><span class="linenos">556</span></a><span class="sd"> If False: The config numbers are assumed to be traj_number // difference</span>
</span><span id="extract_w0-557"><a href="#extract_w0-557"><span class="linenos">557</span></a>
</span><span id="extract_w0-558"><a href="#extract_w0-558"><span class="linenos">558</span></a><span class="sd"> Returns</span>
</span><span id="extract_w0-559"><a href="#extract_w0-559"><span class="linenos">559</span></a><span class="sd"> -------</span>
</span><span id="extract_w0-560"><a href="#extract_w0-560"><span class="linenos">560</span></a><span class="sd"> w0 : Obs</span>
</span><span id="extract_w0-561"><a href="#extract_w0-561"><span class="linenos">561</span></a><span class="sd"> Extracted w0</span>
</span><span id="extract_w0-562"><a href="#extract_w0-562"><span class="linenos">562</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="extract_w0-563"><a href="#extract_w0-563"><span class="linenos">563</span></a>
</span><span id="extract_w0-564"><a href="#extract_w0-564"><span class="linenos">564</span></a> <span class="n">E_dict</span> <span class="o">=</span> <span class="n">_extract_flowed_energy_density</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">dtr_read</span><span class="p">,</span> <span class="n">xmin</span><span class="p">,</span> <span class="n">spatial_extent</span><span class="p">,</span> <span class="n">postfix</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="extract_w0-565"><a href="#extract_w0-565"><span class="linenos">565</span></a>
</span><span id="extract_w0-566"><a href="#extract_w0-566"><span class="linenos">566</span></a> <span class="n">ftimes</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())</span>
</span><span id="extract_w0-567"><a href="#extract_w0-567"><span class="linenos">567</span></a>
</span><span id="extract_w0-568"><a href="#extract_w0-568"><span class="linenos">568</span></a> <span class="n">t2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
</span><span id="extract_w0-569"><a href="#extract_w0-569"><span class="linenos">569</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="n">ftimes</span><span class="p">:</span>
</span><span id="extract_w0-570"><a href="#extract_w0-570"><span class="linenos">570</span></a> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span> <span class="o">=</span> <span class="n">t</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">E_dict</span><span class="p">[</span><span class="n">t</span><span class="p">]</span>
</span><span id="extract_w0-571"><a href="#extract_w0-571"><span class="linenos">571</span></a>
</span><span id="extract_w0-572"><a href="#extract_w0-572"><span class="linenos">572</span></a> <span class="n">tdtt2E_dict</span> <span class="o">=</span> <span class="p">{}</span>
</span><span id="extract_w0-573"><a href="#extract_w0-573"><span class="linenos">573</span></a> <span class="n">tdtt2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">]]</span> <span class="o">=</span> <span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">1</span><span class="p">]]</span> <span class="o">-</span> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">]])</span> <span class="o">/</span> <span class="p">(</span><span class="n">ftimes</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">ftimes</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="extract_w0-574"><a href="#extract_w0-574"><span class="linenos">574</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">ftimes</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span><span class="p">):</span>
</span><span id="extract_w0-575"><a href="#extract_w0-575"><span class="linenos">575</span></a> <span class="n">tdtt2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span><span class="p">]]</span> <span class="o">=</span> <span class="n">ftimes</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]]</span> <span class="o">-</span> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">]])</span> <span class="o">/</span> <span class="p">(</span><span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">ftimes</span><span class="p">[</span><span class="n">i</span> <span class="o">-</span> <span class="mi">1</span><span class="p">])</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="extract_w0-576"><a href="#extract_w0-576"><span class="linenos">576</span></a> <span class="n">tdtt2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">=</span> <span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="p">(</span><span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span> <span class="o">-</span> <span class="n">t2E_dict</span><span class="p">[</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">]])</span> <span class="o">/</span> <span class="p">(</span><span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">ftimes</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">])</span> <span class="o">-</span> <span class="n">c</span>
</span><span id="extract_w0-577"><a href="#extract_w0-577"><span class="linenos">577</span></a>
</span><span id="extract_w0-578"><a href="#extract_w0-578"><span class="linenos">578</span></a> <span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">fit_t0</span><span class="p">(</span><span class="n">tdtt2E_dict</span><span class="p">,</span> <span class="n">fit_range</span><span class="p">,</span> <span class="n">plot_fit</span><span class="o">=</span><span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;plot_fit&#39;</span><span class="p">),</span> <span class="n">observable</span><span class="o">=</span><span class="s1">&#39;w0&#39;</span><span class="p">))</span>
</span></pre></div>
<div class="docstring"><p>Extract w0/a from given .ms.dat files. Returns w0 as Obs.</p>
<p>It is assumed that all boundary effects have
sufficiently decayed at x0=xmin.
The data around the zero crossing of t d(t^2<E>)/dt - (where c=0.3 by default)
is fitted with a linear function
from which the exact root is extracted.</p>
<p>It is assumed that one measurement is performed for each config.
If this is not the case, the resulting idl, as well as the handling
of r_start, r_stop and r_step is wrong and the user has to correct
this in the resulting observable.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (str):
Path to .ms.dat files</li>
<li><strong>prefix</strong> (str):
Ensemble prefix</li>
<li><strong>dtr_read</strong> (int):
Determines how many trajectories should be skipped
when reading the ms.dat files.
Corresponds to dtr_cnfg / dtr_ms in the openQCD input file.</li>
<li><strong>xmin</strong> (int):
First timeslice where the boundary
effects have sufficiently decayed.</li>
<li><strong>spatial_extent</strong> (int):
spatial extent of the lattice, required for normalization.</li>
<li><strong>fit_range</strong> (int):
Number of data points left and right of the zero
crossing to be included in the linear fit. (Default: 5)</li>
<li><strong>postfix</strong> (str):
Postfix of measurement file (Default: ms)</li>
<li><strong>c</strong> (float):
Constant that defines the flow scale. Default 0.3 for w_0, choose 2./3 for w_1.</li>
<li><strong>r_start</strong> (list):
list which contains the first config to be read for each replicum.</li>
<li><strong>r_stop</strong> (list):
list which contains the last config to be read for each replicum.</li>
<li><strong>r_step</strong> (int):
integer that defines a fixed step size between two measurements (in units of configs)
If not given, r_step=1 is assumed.</li>
<li><strong>plaquette</strong> (bool):
If true extract the plaquette estimate of w0 instead.</li>
<li><strong>names</strong> (list):
list of names that is assigned to the data according according
to the order in the file list. Use careful, if you do not provide file names!</li>
<li><strong>files</strong> (list):
list which contains the filenames to be read. No automatic detection of
files performed if given.</li>
<li><strong>plot_fit</strong> (bool):
If true, the fit for the extraction of w0 is shown together with the data.</li>
<li><strong>assume_thermalization</strong> (bool):
If True: If the first record divided by the distance between two measurements is larger than
1, it is assumed that this is due to thermalization and the first measurement belongs
to the first config (default).
If False: The config numbers are assumed to be traj_number // difference</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>w0</strong> (Obs):
Extracted w0</li>
</ul>
</div>
</section>
<section id="read_qtop">
<input id="read_qtop-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">read_qtop</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">c</span>, </span><span class="param"><span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span>, </span><span class="param"><span class="n">version</span><span class="o">=</span><span class="s1">&#39;openQCD&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span><span class="return-annotation">):</span></span>
<label class="view-source-button" for="read_qtop-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#read_qtop"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="read_qtop-666"><a href="#read_qtop-666"><span class="linenos">666</span></a><span class="k">def</span> <span class="nf">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;openQCD&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="read_qtop-667"><a href="#read_qtop-667"><span class="linenos">667</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read the topologial charge based on openQCD gradient flow measurements.</span>
</span><span id="read_qtop-668"><a href="#read_qtop-668"><span class="linenos">668</span></a>
</span><span id="read_qtop-669"><a href="#read_qtop-669"><span class="linenos">669</span></a><span class="sd"> Parameters</span>
</span><span id="read_qtop-670"><a href="#read_qtop-670"><span class="linenos">670</span></a><span class="sd"> ----------</span>
</span><span id="read_qtop-671"><a href="#read_qtop-671"><span class="linenos">671</span></a><span class="sd"> path : str</span>
</span><span id="read_qtop-672"><a href="#read_qtop-672"><span class="linenos">672</span></a><span class="sd"> path of the measurement files</span>
</span><span id="read_qtop-673"><a href="#read_qtop-673"><span class="linenos">673</span></a><span class="sd"> prefix : str</span>
</span><span id="read_qtop-674"><a href="#read_qtop-674"><span class="linenos">674</span></a><span class="sd"> prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
</span><span id="read_qtop-675"><a href="#read_qtop-675"><span class="linenos">675</span></a><span class="sd"> Ignored if file names are passed explicitly via keyword files.</span>
</span><span id="read_qtop-676"><a href="#read_qtop-676"><span class="linenos">676</span></a><span class="sd"> c : double</span>
</span><span id="read_qtop-677"><a href="#read_qtop-677"><span class="linenos">677</span></a><span class="sd"> Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
</span><span id="read_qtop-678"><a href="#read_qtop-678"><span class="linenos">678</span></a><span class="sd"> dtr_cnfg : int</span>
</span><span id="read_qtop-679"><a href="#read_qtop-679"><span class="linenos">679</span></a><span class="sd"> (optional) parameter that specifies the number of measurements</span>
</span><span id="read_qtop-680"><a href="#read_qtop-680"><span class="linenos">680</span></a><span class="sd"> between two configs.</span>
</span><span id="read_qtop-681"><a href="#read_qtop-681"><span class="linenos">681</span></a><span class="sd"> If it is not set, the distance between two measurements</span>
</span><span id="read_qtop-682"><a href="#read_qtop-682"><span class="linenos">682</span></a><span class="sd"> in the file is assumed to be the distance between two configurations.</span>
</span><span id="read_qtop-683"><a href="#read_qtop-683"><span class="linenos">683</span></a><span class="sd"> steps : int</span>
</span><span id="read_qtop-684"><a href="#read_qtop-684"><span class="linenos">684</span></a><span class="sd"> (optional) Distance between two configurations in units of trajectories /</span>
</span><span id="read_qtop-685"><a href="#read_qtop-685"><span class="linenos">685</span></a><span class="sd"> cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
</span><span id="read_qtop-686"><a href="#read_qtop-686"><span class="linenos">686</span></a><span class="sd"> version : str</span>
</span><span id="read_qtop-687"><a href="#read_qtop-687"><span class="linenos">687</span></a><span class="sd"> Either openQCD or sfqcd, depending on the data.</span>
</span><span id="read_qtop-688"><a href="#read_qtop-688"><span class="linenos">688</span></a><span class="sd"> L : int</span>
</span><span id="read_qtop-689"><a href="#read_qtop-689"><span class="linenos">689</span></a><span class="sd"> spatial length of the lattice in L/a.</span>
</span><span id="read_qtop-690"><a href="#read_qtop-690"><span class="linenos">690</span></a><span class="sd"> HAS to be set if version != sfqcd, since openQCD does not provide</span>
</span><span id="read_qtop-691"><a href="#read_qtop-691"><span class="linenos">691</span></a><span class="sd"> this in the header</span>
</span><span id="read_qtop-692"><a href="#read_qtop-692"><span class="linenos">692</span></a><span class="sd"> r_start : list</span>
</span><span id="read_qtop-693"><a href="#read_qtop-693"><span class="linenos">693</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="read_qtop-694"><a href="#read_qtop-694"><span class="linenos">694</span></a><span class="sd"> r_stop : list</span>
</span><span id="read_qtop-695"><a href="#read_qtop-695"><span class="linenos">695</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="read_qtop-696"><a href="#read_qtop-696"><span class="linenos">696</span></a><span class="sd"> files : list</span>
</span><span id="read_qtop-697"><a href="#read_qtop-697"><span class="linenos">697</span></a><span class="sd"> specify the exact files that need to be read</span>
</span><span id="read_qtop-698"><a href="#read_qtop-698"><span class="linenos">698</span></a><span class="sd"> from path, practical if e.g. only one replicum is needed</span>
</span><span id="read_qtop-699"><a href="#read_qtop-699"><span class="linenos">699</span></a><span class="sd"> postfix : str</span>
</span><span id="read_qtop-700"><a href="#read_qtop-700"><span class="linenos">700</span></a><span class="sd"> postfix of the file to read, e.g. &#39;.gfms.dat&#39; for openQCD-files</span>
</span><span id="read_qtop-701"><a href="#read_qtop-701"><span class="linenos">701</span></a><span class="sd"> names : list</span>
</span><span id="read_qtop-702"><a href="#read_qtop-702"><span class="linenos">702</span></a><span class="sd"> Alternative labeling for replicas/ensembles.</span>
</span><span id="read_qtop-703"><a href="#read_qtop-703"><span class="linenos">703</span></a><span class="sd"> Has to have the appropriate length.</span>
</span><span id="read_qtop-704"><a href="#read_qtop-704"><span class="linenos">704</span></a><span class="sd"> Zeuthen_flow : bool</span>
</span><span id="read_qtop-705"><a href="#read_qtop-705"><span class="linenos">705</span></a><span class="sd"> (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
</span><span id="read_qtop-706"><a href="#read_qtop-706"><span class="linenos">706</span></a><span class="sd"> for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
</span><span id="read_qtop-707"><a href="#read_qtop-707"><span class="linenos">707</span></a><span class="sd"> integer_charge : bool</span>
</span><span id="read_qtop-708"><a href="#read_qtop-708"><span class="linenos">708</span></a><span class="sd"> If True, the charge is rounded towards the nearest integer on each config.</span>
</span><span id="read_qtop-709"><a href="#read_qtop-709"><span class="linenos">709</span></a>
</span><span id="read_qtop-710"><a href="#read_qtop-710"><span class="linenos">710</span></a><span class="sd"> Returns</span>
</span><span id="read_qtop-711"><a href="#read_qtop-711"><span class="linenos">711</span></a><span class="sd"> -------</span>
</span><span id="read_qtop-712"><a href="#read_qtop-712"><span class="linenos">712</span></a><span class="sd"> result : Obs</span>
</span><span id="read_qtop-713"><a href="#read_qtop-713"><span class="linenos">713</span></a><span class="sd"> Read topological charge</span>
</span><span id="read_qtop-714"><a href="#read_qtop-714"><span class="linenos">714</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="read_qtop-715"><a href="#read_qtop-715"><span class="linenos">715</span></a>
</span><span id="read_qtop-716"><a href="#read_qtop-716"><span class="linenos">716</span></a> <span class="k">return</span> <span class="n">_read_flow_obs</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="n">dtr_cnfg</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="n">version</span><span class="p">,</span> <span class="n">obspos</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span></pre></div>
<div class="docstring"><p>Read the topologial charge based on openQCD gradient flow measurements.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (str):
path of the measurement files</li>
<li><strong>prefix</strong> (str):
prefix of the measurement files, e.g. <prefix>_id0_r0.ms.dat.
Ignored if file names are passed explicitly via keyword files.</li>
<li><strong>c</strong> (double):
Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</li>
<li><strong>dtr_cnfg</strong> (int):
(optional) parameter that specifies the number of measurements
between two configs.
If it is not set, the distance between two measurements
in the file is assumed to be the distance between two configurations.</li>
<li><strong>steps</strong> (int):
(optional) Distance between two configurations in units of trajectories /
cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</li>
<li><strong>version</strong> (str):
Either openQCD or sfqcd, depending on the data.</li>
<li><strong>L</strong> (int):
spatial length of the lattice in L/a.
HAS to be set if version != sfqcd, since openQCD does not provide
this in the header</li>
<li><strong>r_start</strong> (list):
list which contains the first config to be read for each replicum.</li>
<li><strong>r_stop</strong> (list):
list which contains the last config to be read for each replicum.</li>
<li><strong>files</strong> (list):
specify the exact files that need to be read
from path, practical if e.g. only one replicum is needed</li>
<li><strong>postfix</strong> (str):
postfix of the file to read, e.g. '.gfms.dat' for openQCD-files</li>
<li><strong>names</strong> (list):
Alternative labeling for replicas/ensembles.
Has to have the appropriate length.</li>
<li><strong>Zeuthen_flow</strong> (bool):
(optional) If True, the Zeuthen flow is used for Qtop. Only possible
for version=='sfqcd' If False, the Wilson flow is used.</li>
<li><strong>integer_charge</strong> (bool):
If True, the charge is rounded towards the nearest integer on each config.</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>result</strong> (Obs):
Read topological charge</li>
</ul>
</div>
</section>
<section id="read_gf_coupling">
<input id="read_gf_coupling-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">read_gf_coupling</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">c</span>, </span><span class="param"><span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span>, </span><span class="param"><span class="n">Zeuthen_flow</span><span class="o">=</span><span class="kc">True</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span><span class="return-annotation">):</span></span>
<label class="view-source-button" for="read_gf_coupling-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#read_gf_coupling"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="read_gf_coupling-719"><a href="#read_gf_coupling-719"><span class="linenos">719</span></a><span class="k">def</span> <span class="nf">read_gf_coupling</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">Zeuthen_flow</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="read_gf_coupling-720"><a href="#read_gf_coupling-720"><span class="linenos">720</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read the gradient flow coupling based on sfqcd gradient flow measurements. See 1607.06423 for details.</span>
</span><span id="read_gf_coupling-721"><a href="#read_gf_coupling-721"><span class="linenos">721</span></a>
</span><span id="read_gf_coupling-722"><a href="#read_gf_coupling-722"><span class="linenos">722</span></a><span class="sd"> Note: The current implementation only works for c=0.3 and T=L. The definition of the coupling in 1607.06423 requires projection to topological charge zero which is not done within this function but has to be performed in a separate step.</span>
</span><span id="read_gf_coupling-723"><a href="#read_gf_coupling-723"><span class="linenos">723</span></a>
</span><span id="read_gf_coupling-724"><a href="#read_gf_coupling-724"><span class="linenos">724</span></a><span class="sd"> Parameters</span>
</span><span id="read_gf_coupling-725"><a href="#read_gf_coupling-725"><span class="linenos">725</span></a><span class="sd"> ----------</span>
</span><span id="read_gf_coupling-726"><a href="#read_gf_coupling-726"><span class="linenos">726</span></a><span class="sd"> path : str</span>
</span><span id="read_gf_coupling-727"><a href="#read_gf_coupling-727"><span class="linenos">727</span></a><span class="sd"> path of the measurement files</span>
</span><span id="read_gf_coupling-728"><a href="#read_gf_coupling-728"><span class="linenos">728</span></a><span class="sd"> prefix : str</span>
</span><span id="read_gf_coupling-729"><a href="#read_gf_coupling-729"><span class="linenos">729</span></a><span class="sd"> prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat.</span>
</span><span id="read_gf_coupling-730"><a href="#read_gf_coupling-730"><span class="linenos">730</span></a><span class="sd"> Ignored if file names are passed explicitly via keyword files.</span>
</span><span id="read_gf_coupling-731"><a href="#read_gf_coupling-731"><span class="linenos">731</span></a><span class="sd"> c : double</span>
</span><span id="read_gf_coupling-732"><a href="#read_gf_coupling-732"><span class="linenos">732</span></a><span class="sd"> Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</span>
</span><span id="read_gf_coupling-733"><a href="#read_gf_coupling-733"><span class="linenos">733</span></a><span class="sd"> dtr_cnfg : int</span>
</span><span id="read_gf_coupling-734"><a href="#read_gf_coupling-734"><span class="linenos">734</span></a><span class="sd"> (optional) parameter that specifies the number of measurements</span>
</span><span id="read_gf_coupling-735"><a href="#read_gf_coupling-735"><span class="linenos">735</span></a><span class="sd"> between two configs.</span>
</span><span id="read_gf_coupling-736"><a href="#read_gf_coupling-736"><span class="linenos">736</span></a><span class="sd"> If it is not set, the distance between two measurements</span>
</span><span id="read_gf_coupling-737"><a href="#read_gf_coupling-737"><span class="linenos">737</span></a><span class="sd"> in the file is assumed to be the distance between two configurations.</span>
</span><span id="read_gf_coupling-738"><a href="#read_gf_coupling-738"><span class="linenos">738</span></a><span class="sd"> steps : int</span>
</span><span id="read_gf_coupling-739"><a href="#read_gf_coupling-739"><span class="linenos">739</span></a><span class="sd"> (optional) Distance between two configurations in units of trajectories /</span>
</span><span id="read_gf_coupling-740"><a href="#read_gf_coupling-740"><span class="linenos">740</span></a><span class="sd"> cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
</span><span id="read_gf_coupling-741"><a href="#read_gf_coupling-741"><span class="linenos">741</span></a><span class="sd"> r_start : list</span>
</span><span id="read_gf_coupling-742"><a href="#read_gf_coupling-742"><span class="linenos">742</span></a><span class="sd"> list which contains the first config to be read for each replicum.</span>
</span><span id="read_gf_coupling-743"><a href="#read_gf_coupling-743"><span class="linenos">743</span></a><span class="sd"> r_stop : list</span>
</span><span id="read_gf_coupling-744"><a href="#read_gf_coupling-744"><span class="linenos">744</span></a><span class="sd"> list which contains the last config to be read for each replicum.</span>
</span><span id="read_gf_coupling-745"><a href="#read_gf_coupling-745"><span class="linenos">745</span></a><span class="sd"> files : list</span>
</span><span id="read_gf_coupling-746"><a href="#read_gf_coupling-746"><span class="linenos">746</span></a><span class="sd"> specify the exact files that need to be read</span>
</span><span id="read_gf_coupling-747"><a href="#read_gf_coupling-747"><span class="linenos">747</span></a><span class="sd"> from path, practical if e.g. only one replicum is needed</span>
</span><span id="read_gf_coupling-748"><a href="#read_gf_coupling-748"><span class="linenos">748</span></a><span class="sd"> names : list</span>
</span><span id="read_gf_coupling-749"><a href="#read_gf_coupling-749"><span class="linenos">749</span></a><span class="sd"> Alternative labeling for replicas/ensembles.</span>
</span><span id="read_gf_coupling-750"><a href="#read_gf_coupling-750"><span class="linenos">750</span></a><span class="sd"> Has to have the appropriate length.</span>
</span><span id="read_gf_coupling-751"><a href="#read_gf_coupling-751"><span class="linenos">751</span></a><span class="sd"> postfix : str</span>
</span><span id="read_gf_coupling-752"><a href="#read_gf_coupling-752"><span class="linenos">752</span></a><span class="sd"> postfix of the file to read, e.g. &#39;.gfms.dat&#39; for openQCD-files</span>
</span><span id="read_gf_coupling-753"><a href="#read_gf_coupling-753"><span class="linenos">753</span></a><span class="sd"> Zeuthen_flow : bool</span>
</span><span id="read_gf_coupling-754"><a href="#read_gf_coupling-754"><span class="linenos">754</span></a><span class="sd"> (optional) If True, the Zeuthen flow is used for the coupling. If False, the Wilson flow is used.</span>
</span><span id="read_gf_coupling-755"><a href="#read_gf_coupling-755"><span class="linenos">755</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="read_gf_coupling-756"><a href="#read_gf_coupling-756"><span class="linenos">756</span></a>
</span><span id="read_gf_coupling-757"><a href="#read_gf_coupling-757"><span class="linenos">757</span></a> <span class="k">if</span> <span class="n">c</span> <span class="o">!=</span> <span class="mf">0.3</span><span class="p">:</span>
</span><span id="read_gf_coupling-758"><a href="#read_gf_coupling-758"><span class="linenos">758</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The required lattice norm is only implemented for c=0.3 at the moment.&quot;</span><span class="p">)</span>
</span><span id="read_gf_coupling-759"><a href="#read_gf_coupling-759"><span class="linenos">759</span></a>
</span><span id="read_gf_coupling-760"><a href="#read_gf_coupling-760"><span class="linenos">760</span></a> <span class="n">plaq</span> <span class="o">=</span> <span class="n">_read_flow_obs</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="n">dtr_cnfg</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;sfqcd&quot;</span><span class="p">,</span> <span class="n">obspos</span><span class="o">=</span><span class="mi">6</span><span class="p">,</span> <span class="n">sum_t</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">Zeuthen_flow</span><span class="o">=</span><span class="n">Zeuthen_flow</span><span class="p">,</span> <span class="n">integer_charge</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="read_gf_coupling-761"><a href="#read_gf_coupling-761"><span class="linenos">761</span></a> <span class="n">C2x1</span> <span class="o">=</span> <span class="n">_read_flow_obs</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">dtr_cnfg</span><span class="o">=</span><span class="n">dtr_cnfg</span><span class="p">,</span> <span class="n">version</span><span class="o">=</span><span class="s2">&quot;sfqcd&quot;</span><span class="p">,</span> <span class="n">obspos</span><span class="o">=</span><span class="mi">7</span><span class="p">,</span> <span class="n">sum_t</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">Zeuthen_flow</span><span class="o">=</span><span class="n">Zeuthen_flow</span><span class="p">,</span> <span class="n">integer_charge</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="read_gf_coupling-762"><a href="#read_gf_coupling-762"><span class="linenos">762</span></a> <span class="n">L</span> <span class="o">=</span> <span class="n">plaq</span><span class="o">.</span><span class="n">tag</span><span class="p">[</span><span class="s2">&quot;L&quot;</span><span class="p">]</span>
</span><span id="read_gf_coupling-763"><a href="#read_gf_coupling-763"><span class="linenos">763</span></a> <span class="n">T</span> <span class="o">=</span> <span class="n">plaq</span><span class="o">.</span><span class="n">tag</span><span class="p">[</span><span class="s2">&quot;T&quot;</span><span class="p">]</span>
</span><span id="read_gf_coupling-764"><a href="#read_gf_coupling-764"><span class="linenos">764</span></a>
</span><span id="read_gf_coupling-765"><a href="#read_gf_coupling-765"><span class="linenos">765</span></a> <span class="k">if</span> <span class="n">T</span> <span class="o">!=</span> <span class="n">L</span><span class="p">:</span>
</span><span id="read_gf_coupling-766"><a href="#read_gf_coupling-766"><span class="linenos">766</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The required lattice norm is only implemented for T=L at the moment.&quot;</span><span class="p">)</span>
</span><span id="read_gf_coupling-767"><a href="#read_gf_coupling-767"><span class="linenos">767</span></a>
</span><span id="read_gf_coupling-768"><a href="#read_gf_coupling-768"><span class="linenos">768</span></a> <span class="k">if</span> <span class="n">Zeuthen_flow</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="read_gf_coupling-769"><a href="#read_gf_coupling-769"><span class="linenos">769</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;The required lattice norm is only implemented for the Zeuthen flow at the moment.&quot;</span><span class="p">)</span>
</span><span id="read_gf_coupling-770"><a href="#read_gf_coupling-770"><span class="linenos">770</span></a>
</span><span id="read_gf_coupling-771"><a href="#read_gf_coupling-771"><span class="linenos">771</span></a> <span class="n">t</span> <span class="o">=</span> <span class="p">(</span><span class="n">c</span> <span class="o">*</span> <span class="n">L</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="mi">8</span>
</span><span id="read_gf_coupling-772"><a href="#read_gf_coupling-772"><span class="linenos">772</span></a>
</span><span id="read_gf_coupling-773"><a href="#read_gf_coupling-773"><span class="linenos">773</span></a> <span class="n">normdict</span> <span class="o">=</span> <span class="p">{</span><span class="mi">4</span><span class="p">:</span> <span class="mf">0.012341170468270</span><span class="p">,</span>
</span><span id="read_gf_coupling-774"><a href="#read_gf_coupling-774"><span class="linenos">774</span></a> <span class="mi">6</span><span class="p">:</span> <span class="mf">0.010162691462430</span><span class="p">,</span>
</span><span id="read_gf_coupling-775"><a href="#read_gf_coupling-775"><span class="linenos">775</span></a> <span class="mi">8</span><span class="p">:</span> <span class="mf">0.009031614807931</span><span class="p">,</span>
</span><span id="read_gf_coupling-776"><a href="#read_gf_coupling-776"><span class="linenos">776</span></a> <span class="mi">10</span><span class="p">:</span> <span class="mf">0.008744966371393</span><span class="p">,</span>
</span><span id="read_gf_coupling-777"><a href="#read_gf_coupling-777"><span class="linenos">777</span></a> <span class="mi">12</span><span class="p">:</span> <span class="mf">0.008650917856809</span><span class="p">,</span>
</span><span id="read_gf_coupling-778"><a href="#read_gf_coupling-778"><span class="linenos">778</span></a> <span class="mi">14</span><span class="p">:</span> <span class="mf">8.611154391267955E-03</span><span class="p">,</span>
</span><span id="read_gf_coupling-779"><a href="#read_gf_coupling-779"><span class="linenos">779</span></a> <span class="mi">16</span><span class="p">:</span> <span class="mf">0.008591758449508</span><span class="p">,</span>
</span><span id="read_gf_coupling-780"><a href="#read_gf_coupling-780"><span class="linenos">780</span></a> <span class="mi">20</span><span class="p">:</span> <span class="mf">0.008575359627103</span><span class="p">,</span>
</span><span id="read_gf_coupling-781"><a href="#read_gf_coupling-781"><span class="linenos">781</span></a> <span class="mi">24</span><span class="p">:</span> <span class="mf">0.008569387847540</span><span class="p">,</span>
</span><span id="read_gf_coupling-782"><a href="#read_gf_coupling-782"><span class="linenos">782</span></a> <span class="mi">28</span><span class="p">:</span> <span class="mf">8.566803713382559E-03</span><span class="p">,</span>
</span><span id="read_gf_coupling-783"><a href="#read_gf_coupling-783"><span class="linenos">783</span></a> <span class="mi">32</span><span class="p">:</span> <span class="mf">0.008565541650006</span><span class="p">,</span>
</span><span id="read_gf_coupling-784"><a href="#read_gf_coupling-784"><span class="linenos">784</span></a> <span class="mi">40</span><span class="p">:</span> <span class="mf">8.564480684962046E-03</span><span class="p">,</span>
</span><span id="read_gf_coupling-785"><a href="#read_gf_coupling-785"><span class="linenos">785</span></a> <span class="mi">48</span><span class="p">:</span> <span class="mf">8.564098025073460E-03</span><span class="p">,</span>
</span><span id="read_gf_coupling-786"><a href="#read_gf_coupling-786"><span class="linenos">786</span></a> <span class="mi">64</span><span class="p">:</span> <span class="mf">8.563853943383087E-03</span><span class="p">}</span>
</span><span id="read_gf_coupling-787"><a href="#read_gf_coupling-787"><span class="linenos">787</span></a>
</span><span id="read_gf_coupling-788"><a href="#read_gf_coupling-788"><span class="linenos">788</span></a> <span class="k">return</span> <span class="n">t</span> <span class="o">*</span> <span class="n">t</span> <span class="o">*</span> <span class="p">(</span><span class="mi">5</span> <span class="o">/</span> <span class="mi">3</span> <span class="o">*</span> <span class="n">plaq</span> <span class="o">-</span> <span class="mi">1</span> <span class="o">/</span> <span class="mi">12</span> <span class="o">*</span> <span class="n">C2x1</span><span class="p">)</span> <span class="o">/</span> <span class="n">normdict</span><span class="p">[</span><span class="n">L</span><span class="p">]</span>
</span></pre></div>
<div class="docstring"><p>Read the gradient flow coupling based on sfqcd gradient flow measurements. See 1607.06423 for details.</p>
<p>Note: The current implementation only works for c=0.3 and T=L. The definition of the coupling in 1607.06423 requires projection to topological charge zero which is not done within this function but has to be performed in a separate step.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (str):
path of the measurement files</li>
<li><strong>prefix</strong> (str):
prefix of the measurement files, e.g. <prefix>_id0_r0.ms.dat.
Ignored if file names are passed explicitly via keyword files.</li>
<li><strong>c</strong> (double):
Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L.</li>
<li><strong>dtr_cnfg</strong> (int):
(optional) parameter that specifies the number of measurements
between two configs.
If it is not set, the distance between two measurements
in the file is assumed to be the distance between two configurations.</li>
<li><strong>steps</strong> (int):
(optional) Distance between two configurations in units of trajectories /
cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</li>
<li><strong>r_start</strong> (list):
list which contains the first config to be read for each replicum.</li>
<li><strong>r_stop</strong> (list):
list which contains the last config to be read for each replicum.</li>
<li><strong>files</strong> (list):
specify the exact files that need to be read
from path, practical if e.g. only one replicum is needed</li>
<li><strong>names</strong> (list):
Alternative labeling for replicas/ensembles.
Has to have the appropriate length.</li>
<li><strong>postfix</strong> (str):
postfix of the file to read, e.g. '.gfms.dat' for openQCD-files</li>
<li><strong>Zeuthen_flow</strong> (bool):
(optional) If True, the Zeuthen flow is used for the coupling. If False, the Wilson flow is used.</li>
</ul>
</div>
</section>
<section id="qtop_projection">
<input id="qtop_projection-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">qtop_projection</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">qtop</span>, </span><span class="param"><span class="n">target</span><span class="o">=</span><span class="mi">0</span></span><span class="return-annotation">):</span></span>
<label class="view-source-button" for="qtop_projection-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#qtop_projection"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="qtop_projection-1063"><a href="#qtop_projection-1063"><span class="linenos">1063</span></a><span class="k">def</span> <span class="nf">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">):</span>
</span><span id="qtop_projection-1064"><a href="#qtop_projection-1064"><span class="linenos">1064</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Returns the projection to the topological charge sector defined by target.</span>
</span><span id="qtop_projection-1065"><a href="#qtop_projection-1065"><span class="linenos">1065</span></a>
</span><span id="qtop_projection-1066"><a href="#qtop_projection-1066"><span class="linenos">1066</span></a><span class="sd"> Parameters</span>
</span><span id="qtop_projection-1067"><a href="#qtop_projection-1067"><span class="linenos">1067</span></a><span class="sd"> ----------</span>
</span><span id="qtop_projection-1068"><a href="#qtop_projection-1068"><span class="linenos">1068</span></a><span class="sd"> path : Obs</span>
</span><span id="qtop_projection-1069"><a href="#qtop_projection-1069"><span class="linenos">1069</span></a><span class="sd"> Topological charge.</span>
</span><span id="qtop_projection-1070"><a href="#qtop_projection-1070"><span class="linenos">1070</span></a><span class="sd"> target : int</span>
</span><span id="qtop_projection-1071"><a href="#qtop_projection-1071"><span class="linenos">1071</span></a><span class="sd"> Specifies the topological sector to be reweighted to (default 0)</span>
</span><span id="qtop_projection-1072"><a href="#qtop_projection-1072"><span class="linenos">1072</span></a>
</span><span id="qtop_projection-1073"><a href="#qtop_projection-1073"><span class="linenos">1073</span></a><span class="sd"> Returns</span>
</span><span id="qtop_projection-1074"><a href="#qtop_projection-1074"><span class="linenos">1074</span></a><span class="sd"> -------</span>
</span><span id="qtop_projection-1075"><a href="#qtop_projection-1075"><span class="linenos">1075</span></a><span class="sd"> reto : Obs</span>
</span><span id="qtop_projection-1076"><a href="#qtop_projection-1076"><span class="linenos">1076</span></a><span class="sd"> projection to the topological charge sector defined by target</span>
</span><span id="qtop_projection-1077"><a href="#qtop_projection-1077"><span class="linenos">1077</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="qtop_projection-1078"><a href="#qtop_projection-1078"><span class="linenos">1078</span></a> <span class="k">if</span> <span class="n">qtop</span><span class="o">.</span><span class="n">reweighted</span><span class="p">:</span>
</span><span id="qtop_projection-1079"><a href="#qtop_projection-1079"><span class="linenos">1079</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;You can not use a reweighted observable for reweighting!&#39;</span><span class="p">)</span>
</span><span id="qtop_projection-1080"><a href="#qtop_projection-1080"><span class="linenos">1080</span></a>
</span><span id="qtop_projection-1081"><a href="#qtop_projection-1081"><span class="linenos">1081</span></a> <span class="n">proj_qtop</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="qtop_projection-1082"><a href="#qtop_projection-1082"><span class="linenos">1082</span></a> <span class="k">for</span> <span class="n">n</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">:</span>
</span><span id="qtop_projection-1083"><a href="#qtop_projection-1083"><span class="linenos">1083</span></a> <span class="n">proj_qtop</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="mi">1</span> <span class="k">if</span> <span class="nb">round</span><span class="p">(</span><span class="n">qtop</span><span class="o">.</span><span class="n">r_values</span><span class="p">[</span><span class="n">n</span><span class="p">]</span> <span class="o">+</span> <span class="n">q</span><span class="p">)</span> <span class="o">==</span> <span class="n">target</span> <span class="k">else</span> <span class="mi">0</span> <span class="k">for</span> <span class="n">q</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">deltas</span><span class="p">[</span><span class="n">n</span><span class="p">]]))</span>
</span><span id="qtop_projection-1084"><a href="#qtop_projection-1084"><span class="linenos">1084</span></a>
</span><span id="qtop_projection-1085"><a href="#qtop_projection-1085"><span class="linenos">1085</span></a> <span class="n">reto</span> <span class="o">=</span> <span class="n">Obs</span><span class="p">(</span><span class="n">proj_qtop</span><span class="p">,</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="p">[</span><span class="n">qtop</span><span class="o">.</span><span class="n">idl</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">qtop</span><span class="o">.</span><span class="n">names</span><span class="p">])</span>
</span><span id="qtop_projection-1086"><a href="#qtop_projection-1086"><span class="linenos">1086</span></a> <span class="k">return</span> <span class="n">reto</span>
</span></pre></div>
<div class="docstring"><p>Returns the projection to the topological charge sector defined by target.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (Obs):
Topological charge.</li>
<li><strong>target</strong> (int):
Specifies the topological sector to be reweighted to (default 0)</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>reto</strong> (Obs):
projection to the topological charge sector defined by target</li>
</ul>
</div>
</section>
<section id="read_qtop_sector">
<input id="read_qtop_sector-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">read_qtop_sector</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">c</span>, </span><span class="param"><span class="n">target</span><span class="o">=</span><span class="mi">0</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span><span class="return-annotation">):</span></span>
<label class="view-source-button" for="read_qtop_sector-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#read_qtop_sector"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="read_qtop_sector-1089"><a href="#read_qtop_sector-1089"><span class="linenos">1089</span></a><span class="k">def</span> <span class="nf">read_qtop_sector</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="read_qtop_sector-1090"><a href="#read_qtop_sector-1090"><span class="linenos">1090</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Constructs reweighting factors to a specified topological sector.</span>
</span><span id="read_qtop_sector-1091"><a href="#read_qtop_sector-1091"><span class="linenos">1091</span></a>
</span><span id="read_qtop_sector-1092"><a href="#read_qtop_sector-1092"><span class="linenos">1092</span></a><span class="sd"> Parameters</span>
</span><span id="read_qtop_sector-1093"><a href="#read_qtop_sector-1093"><span class="linenos">1093</span></a><span class="sd"> ----------</span>
</span><span id="read_qtop_sector-1094"><a href="#read_qtop_sector-1094"><span class="linenos">1094</span></a><span class="sd"> path : str</span>
</span><span id="read_qtop_sector-1095"><a href="#read_qtop_sector-1095"><span class="linenos">1095</span></a><span class="sd"> path of the measurement files</span>
</span><span id="read_qtop_sector-1096"><a href="#read_qtop_sector-1096"><span class="linenos">1096</span></a><span class="sd"> prefix : str</span>
</span><span id="read_qtop_sector-1097"><a href="#read_qtop_sector-1097"><span class="linenos">1097</span></a><span class="sd"> prefix of the measurement files, e.g. &lt;prefix&gt;_id0_r0.ms.dat</span>
</span><span id="read_qtop_sector-1098"><a href="#read_qtop_sector-1098"><span class="linenos">1098</span></a><span class="sd"> c : double</span>
</span><span id="read_qtop_sector-1099"><a href="#read_qtop_sector-1099"><span class="linenos">1099</span></a><span class="sd"> Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L</span>
</span><span id="read_qtop_sector-1100"><a href="#read_qtop_sector-1100"><span class="linenos">1100</span></a><span class="sd"> target : int</span>
</span><span id="read_qtop_sector-1101"><a href="#read_qtop_sector-1101"><span class="linenos">1101</span></a><span class="sd"> Specifies the topological sector to be reweighted to (default 0)</span>
</span><span id="read_qtop_sector-1102"><a href="#read_qtop_sector-1102"><span class="linenos">1102</span></a><span class="sd"> dtr_cnfg : int</span>
</span><span id="read_qtop_sector-1103"><a href="#read_qtop_sector-1103"><span class="linenos">1103</span></a><span class="sd"> (optional) parameter that specifies the number of trajectories</span>
</span><span id="read_qtop_sector-1104"><a href="#read_qtop_sector-1104"><span class="linenos">1104</span></a><span class="sd"> between two configs.</span>
</span><span id="read_qtop_sector-1105"><a href="#read_qtop_sector-1105"><span class="linenos">1105</span></a><span class="sd"> if it is not set, the distance between two measurements</span>
</span><span id="read_qtop_sector-1106"><a href="#read_qtop_sector-1106"><span class="linenos">1106</span></a><span class="sd"> in the file is assumed to be the distance between two configurations.</span>
</span><span id="read_qtop_sector-1107"><a href="#read_qtop_sector-1107"><span class="linenos">1107</span></a><span class="sd"> steps : int</span>
</span><span id="read_qtop_sector-1108"><a href="#read_qtop_sector-1108"><span class="linenos">1108</span></a><span class="sd"> (optional) Distance between two configurations in units of trajectories /</span>
</span><span id="read_qtop_sector-1109"><a href="#read_qtop_sector-1109"><span class="linenos">1109</span></a><span class="sd"> cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</span>
</span><span id="read_qtop_sector-1110"><a href="#read_qtop_sector-1110"><span class="linenos">1110</span></a><span class="sd"> version : str</span>
</span><span id="read_qtop_sector-1111"><a href="#read_qtop_sector-1111"><span class="linenos">1111</span></a><span class="sd"> version string of the openQCD (sfqcd) version used to create</span>
</span><span id="read_qtop_sector-1112"><a href="#read_qtop_sector-1112"><span class="linenos">1112</span></a><span class="sd"> the ensemble. Default is 2.0. May also be set to sfqcd.</span>
</span><span id="read_qtop_sector-1113"><a href="#read_qtop_sector-1113"><span class="linenos">1113</span></a><span class="sd"> L : int</span>
</span><span id="read_qtop_sector-1114"><a href="#read_qtop_sector-1114"><span class="linenos">1114</span></a><span class="sd"> spatial length of the lattice in L/a.</span>
</span><span id="read_qtop_sector-1115"><a href="#read_qtop_sector-1115"><span class="linenos">1115</span></a><span class="sd"> HAS to be set if version != sfqcd, since openQCD does not provide</span>
</span><span id="read_qtop_sector-1116"><a href="#read_qtop_sector-1116"><span class="linenos">1116</span></a><span class="sd"> this in the header</span>
</span><span id="read_qtop_sector-1117"><a href="#read_qtop_sector-1117"><span class="linenos">1117</span></a><span class="sd"> r_start : list</span>
</span><span id="read_qtop_sector-1118"><a href="#read_qtop_sector-1118"><span class="linenos">1118</span></a><span class="sd"> offset of the first ensemble, making it easier to match</span>
</span><span id="read_qtop_sector-1119"><a href="#read_qtop_sector-1119"><span class="linenos">1119</span></a><span class="sd"> later on with other Obs</span>
</span><span id="read_qtop_sector-1120"><a href="#read_qtop_sector-1120"><span class="linenos">1120</span></a><span class="sd"> r_stop : list</span>
</span><span id="read_qtop_sector-1121"><a href="#read_qtop_sector-1121"><span class="linenos">1121</span></a><span class="sd"> last configurations that need to be read (per replicum)</span>
</span><span id="read_qtop_sector-1122"><a href="#read_qtop_sector-1122"><span class="linenos">1122</span></a><span class="sd"> files : list</span>
</span><span id="read_qtop_sector-1123"><a href="#read_qtop_sector-1123"><span class="linenos">1123</span></a><span class="sd"> specify the exact files that need to be read</span>
</span><span id="read_qtop_sector-1124"><a href="#read_qtop_sector-1124"><span class="linenos">1124</span></a><span class="sd"> from path, practical if e.g. only one replicum is needed</span>
</span><span id="read_qtop_sector-1125"><a href="#read_qtop_sector-1125"><span class="linenos">1125</span></a><span class="sd"> names : list</span>
</span><span id="read_qtop_sector-1126"><a href="#read_qtop_sector-1126"><span class="linenos">1126</span></a><span class="sd"> Alternative labeling for replicas/ensembles.</span>
</span><span id="read_qtop_sector-1127"><a href="#read_qtop_sector-1127"><span class="linenos">1127</span></a><span class="sd"> Has to have the appropriate length</span>
</span><span id="read_qtop_sector-1128"><a href="#read_qtop_sector-1128"><span class="linenos">1128</span></a><span class="sd"> Zeuthen_flow : bool</span>
</span><span id="read_qtop_sector-1129"><a href="#read_qtop_sector-1129"><span class="linenos">1129</span></a><span class="sd"> (optional) If True, the Zeuthen flow is used for Qtop. Only possible</span>
</span><span id="read_qtop_sector-1130"><a href="#read_qtop_sector-1130"><span class="linenos">1130</span></a><span class="sd"> for version==&#39;sfqcd&#39; If False, the Wilson flow is used.</span>
</span><span id="read_qtop_sector-1131"><a href="#read_qtop_sector-1131"><span class="linenos">1131</span></a>
</span><span id="read_qtop_sector-1132"><a href="#read_qtop_sector-1132"><span class="linenos">1132</span></a><span class="sd"> Returns</span>
</span><span id="read_qtop_sector-1133"><a href="#read_qtop_sector-1133"><span class="linenos">1133</span></a><span class="sd"> -------</span>
</span><span id="read_qtop_sector-1134"><a href="#read_qtop_sector-1134"><span class="linenos">1134</span></a><span class="sd"> reto : Obs</span>
</span><span id="read_qtop_sector-1135"><a href="#read_qtop_sector-1135"><span class="linenos">1135</span></a><span class="sd"> projection to the topological charge sector defined by target</span>
</span><span id="read_qtop_sector-1136"><a href="#read_qtop_sector-1136"><span class="linenos">1136</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="read_qtop_sector-1137"><a href="#read_qtop_sector-1137"><span class="linenos">1137</span></a>
</span><span id="read_qtop_sector-1138"><a href="#read_qtop_sector-1138"><span class="linenos">1138</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">target</span><span class="p">,</span> <span class="nb">int</span><span class="p">):</span>
</span><span id="read_qtop_sector-1139"><a href="#read_qtop_sector-1139"><span class="linenos">1139</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;&#39;target&#39; has to be an integer.&quot;</span><span class="p">)</span>
</span><span id="read_qtop_sector-1140"><a href="#read_qtop_sector-1140"><span class="linenos">1140</span></a>
</span><span id="read_qtop_sector-1141"><a href="#read_qtop_sector-1141"><span class="linenos">1141</span></a> <span class="n">kwargs</span><span class="p">[</span><span class="s1">&#39;integer_charge&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="kc">True</span>
</span><span id="read_qtop_sector-1142"><a href="#read_qtop_sector-1142"><span class="linenos">1142</span></a> <span class="n">qtop</span> <span class="o">=</span> <span class="n">read_qtop</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">c</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span>
</span><span id="read_qtop_sector-1143"><a href="#read_qtop_sector-1143"><span class="linenos">1143</span></a>
</span><span id="read_qtop_sector-1144"><a href="#read_qtop_sector-1144"><span class="linenos">1144</span></a> <span class="k">return</span> <span class="n">qtop_projection</span><span class="p">(</span><span class="n">qtop</span><span class="p">,</span> <span class="n">target</span><span class="o">=</span><span class="n">target</span><span class="p">)</span>
</span></pre></div>
<div class="docstring"><p>Constructs reweighting factors to a specified topological sector.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (str):
path of the measurement files</li>
<li><strong>prefix</strong> (str):
prefix of the measurement files, e.g. <prefix>_id0_r0.ms.dat</li>
<li><strong>c</strong> (double):
Smearing radius in units of the lattice extent, c = sqrt(8 t0) / L</li>
<li><strong>target</strong> (int):
Specifies the topological sector to be reweighted to (default 0)</li>
<li><strong>dtr_cnfg</strong> (int):
(optional) parameter that specifies the number of trajectories
between two configs.
if it is not set, the distance between two measurements
in the file is assumed to be the distance between two configurations.</li>
<li><strong>steps</strong> (int):
(optional) Distance between two configurations in units of trajectories /
cycles. Assumed to be the distance between two measurements * dtr_cnfg if not given</li>
<li><strong>version</strong> (str):
version string of the openQCD (sfqcd) version used to create
the ensemble. Default is 2.0. May also be set to sfqcd.</li>
<li><strong>L</strong> (int):
spatial length of the lattice in L/a.
HAS to be set if version != sfqcd, since openQCD does not provide
this in the header</li>
<li><strong>r_start</strong> (list):
offset of the first ensemble, making it easier to match
later on with other Obs</li>
<li><strong>r_stop</strong> (list):
last configurations that need to be read (per replicum)</li>
<li><strong>files</strong> (list):
specify the exact files that need to be read
from path, practical if e.g. only one replicum is needed</li>
<li><strong>names</strong> (list):
Alternative labeling for replicas/ensembles.
Has to have the appropriate length</li>
<li><strong>Zeuthen_flow</strong> (bool):
(optional) If True, the Zeuthen flow is used for Qtop. Only possible
for version=='sfqcd' If False, the Wilson flow is used.</li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>reto</strong> (Obs):
projection to the topological charge sector defined by target</li>
</ul>
</div>
</section>
<section id="read_ms5_xsf">
<input id="read_ms5_xsf-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function">
<span class="def">def</span>
<span class="name">read_ms5_xsf</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">path</span>, </span><span class="param"><span class="n">prefix</span>, </span><span class="param"><span class="n">qc</span>, </span><span class="param"><span class="n">corr</span>, </span><span class="param"><span class="n">sep</span><span class="o">=</span><span class="s1">&#39;r&#39;</span>, </span><span class="param"><span class="o">**</span><span class="n">kwargs</span></span><span class="return-annotation">):</span></span>
<label class="view-source-button" for="read_ms5_xsf-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#read_ms5_xsf"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="read_ms5_xsf-1147"><a href="#read_ms5_xsf-1147"><span class="linenos">1147</span></a><span class="k">def</span> <span class="nf">read_ms5_xsf</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="n">qc</span><span class="p">,</span> <span class="n">corr</span><span class="p">,</span> <span class="n">sep</span><span class="o">=</span><span class="s2">&quot;r&quot;</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="read_ms5_xsf-1148"><a href="#read_ms5_xsf-1148"><span class="linenos">1148</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;</span>
</span><span id="read_ms5_xsf-1149"><a href="#read_ms5_xsf-1149"><span class="linenos">1149</span></a><span class="sd"> Read data from files in the specified directory with the specified prefix and quark combination extension, and return a `Corr` object containing the data.</span>
</span><span id="read_ms5_xsf-1150"><a href="#read_ms5_xsf-1150"><span class="linenos">1150</span></a>
</span><span id="read_ms5_xsf-1151"><a href="#read_ms5_xsf-1151"><span class="linenos">1151</span></a><span class="sd"> Parameters</span>
</span><span id="read_ms5_xsf-1152"><a href="#read_ms5_xsf-1152"><span class="linenos">1152</span></a><span class="sd"> ----------</span>
</span><span id="read_ms5_xsf-1153"><a href="#read_ms5_xsf-1153"><span class="linenos">1153</span></a><span class="sd"> path : str</span>
</span><span id="read_ms5_xsf-1154"><a href="#read_ms5_xsf-1154"><span class="linenos">1154</span></a><span class="sd"> The directory to search for the files in.</span>
</span><span id="read_ms5_xsf-1155"><a href="#read_ms5_xsf-1155"><span class="linenos">1155</span></a><span class="sd"> prefix : str</span>
</span><span id="read_ms5_xsf-1156"><a href="#read_ms5_xsf-1156"><span class="linenos">1156</span></a><span class="sd"> The prefix to match the files against.</span>
</span><span id="read_ms5_xsf-1157"><a href="#read_ms5_xsf-1157"><span class="linenos">1157</span></a><span class="sd"> qc : str</span>
</span><span id="read_ms5_xsf-1158"><a href="#read_ms5_xsf-1158"><span class="linenos">1158</span></a><span class="sd"> The quark combination extension to match the files against.</span>
</span><span id="read_ms5_xsf-1159"><a href="#read_ms5_xsf-1159"><span class="linenos">1159</span></a><span class="sd"> corr : str</span>
</span><span id="read_ms5_xsf-1160"><a href="#read_ms5_xsf-1160"><span class="linenos">1160</span></a><span class="sd"> The correlator to extract data for.</span>
</span><span id="read_ms5_xsf-1161"><a href="#read_ms5_xsf-1161"><span class="linenos">1161</span></a><span class="sd"> sep : str, optional</span>
</span><span id="read_ms5_xsf-1162"><a href="#read_ms5_xsf-1162"><span class="linenos">1162</span></a><span class="sd"> The separator to use when parsing the replika names.</span>
</span><span id="read_ms5_xsf-1163"><a href="#read_ms5_xsf-1163"><span class="linenos">1163</span></a><span class="sd"> **kwargs</span>
</span><span id="read_ms5_xsf-1164"><a href="#read_ms5_xsf-1164"><span class="linenos">1164</span></a><span class="sd"> Additional keyword arguments. The following keyword arguments are recognized:</span>
</span><span id="read_ms5_xsf-1165"><a href="#read_ms5_xsf-1165"><span class="linenos">1165</span></a>
</span><span id="read_ms5_xsf-1166"><a href="#read_ms5_xsf-1166"><span class="linenos">1166</span></a><span class="sd"> - names (List[str]): A list of names to use for the replicas.</span>
</span><span id="read_ms5_xsf-1167"><a href="#read_ms5_xsf-1167"><span class="linenos">1167</span></a><span class="sd"> - files (List[str]): A list of files to read data from.</span>
</span><span id="read_ms5_xsf-1168"><a href="#read_ms5_xsf-1168"><span class="linenos">1168</span></a><span class="sd"> - idl (List[List[int]]): A list of idls per replicum, resticting data to the idls given.</span>
</span><span id="read_ms5_xsf-1169"><a href="#read_ms5_xsf-1169"><span class="linenos">1169</span></a>
</span><span id="read_ms5_xsf-1170"><a href="#read_ms5_xsf-1170"><span class="linenos">1170</span></a><span class="sd"> Returns</span>
</span><span id="read_ms5_xsf-1171"><a href="#read_ms5_xsf-1171"><span class="linenos">1171</span></a><span class="sd"> -------</span>
</span><span id="read_ms5_xsf-1172"><a href="#read_ms5_xsf-1172"><span class="linenos">1172</span></a><span class="sd"> Corr</span>
</span><span id="read_ms5_xsf-1173"><a href="#read_ms5_xsf-1173"><span class="linenos">1173</span></a><span class="sd"> A complex valued `Corr` object containing the data read from the files. In case of boudary to bulk correlators.</span>
</span><span id="read_ms5_xsf-1174"><a href="#read_ms5_xsf-1174"><span class="linenos">1174</span></a><span class="sd"> or</span>
</span><span id="read_ms5_xsf-1175"><a href="#read_ms5_xsf-1175"><span class="linenos">1175</span></a><span class="sd"> CObs</span>
</span><span id="read_ms5_xsf-1176"><a href="#read_ms5_xsf-1176"><span class="linenos">1176</span></a><span class="sd"> A complex valued `CObs` object containing the data read from the files. In case of boudary to boundary correlators.</span>
</span><span id="read_ms5_xsf-1177"><a href="#read_ms5_xsf-1177"><span class="linenos">1177</span></a>
</span><span id="read_ms5_xsf-1178"><a href="#read_ms5_xsf-1178"><span class="linenos">1178</span></a>
</span><span id="read_ms5_xsf-1179"><a href="#read_ms5_xsf-1179"><span class="linenos">1179</span></a><span class="sd"> Raises</span>
</span><span id="read_ms5_xsf-1180"><a href="#read_ms5_xsf-1180"><span class="linenos">1180</span></a><span class="sd"> ------</span>
</span><span id="read_ms5_xsf-1181"><a href="#read_ms5_xsf-1181"><span class="linenos">1181</span></a><span class="sd"> FileNotFoundError</span>
</span><span id="read_ms5_xsf-1182"><a href="#read_ms5_xsf-1182"><span class="linenos">1182</span></a><span class="sd"> If no files matching the specified prefix and quark combination extension are found in the specified directory.</span>
</span><span id="read_ms5_xsf-1183"><a href="#read_ms5_xsf-1183"><span class="linenos">1183</span></a><span class="sd"> IOError</span>
</span><span id="read_ms5_xsf-1184"><a href="#read_ms5_xsf-1184"><span class="linenos">1184</span></a><span class="sd"> If there is an error reading a file.</span>
</span><span id="read_ms5_xsf-1185"><a href="#read_ms5_xsf-1185"><span class="linenos">1185</span></a><span class="sd"> struct.error</span>
</span><span id="read_ms5_xsf-1186"><a href="#read_ms5_xsf-1186"><span class="linenos">1186</span></a><span class="sd"> If there is an error unpacking binary data.</span>
</span><span id="read_ms5_xsf-1187"><a href="#read_ms5_xsf-1187"><span class="linenos">1187</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="read_ms5_xsf-1188"><a href="#read_ms5_xsf-1188"><span class="linenos">1188</span></a>
</span><span id="read_ms5_xsf-1189"><a href="#read_ms5_xsf-1189"><span class="linenos">1189</span></a> <span class="c1"># found = []</span>
</span><span id="read_ms5_xsf-1190"><a href="#read_ms5_xsf-1190"><span class="linenos">1190</span></a> <span class="n">files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_ms5_xsf-1191"><a href="#read_ms5_xsf-1191"><span class="linenos">1191</span></a> <span class="n">names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_ms5_xsf-1192"><a href="#read_ms5_xsf-1192"><span class="linenos">1192</span></a>
</span><span id="read_ms5_xsf-1193"><a href="#read_ms5_xsf-1193"><span class="linenos">1193</span></a> <span class="c1"># test if the input is correct</span>
</span><span id="read_ms5_xsf-1194"><a href="#read_ms5_xsf-1194"><span class="linenos">1194</span></a> <span class="k">if</span> <span class="n">qc</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s1">&#39;dd&#39;</span><span class="p">,</span> <span class="s1">&#39;ud&#39;</span><span class="p">,</span> <span class="s1">&#39;du&#39;</span><span class="p">,</span> <span class="s1">&#39;uu&#39;</span><span class="p">]:</span>
</span><span id="read_ms5_xsf-1195"><a href="#read_ms5_xsf-1195"><span class="linenos">1195</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown quark conbination!&quot;</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1196"><a href="#read_ms5_xsf-1196"><span class="linenos">1196</span></a>
</span><span id="read_ms5_xsf-1197"><a href="#read_ms5_xsf-1197"><span class="linenos">1197</span></a> <span class="k">if</span> <span class="n">corr</span> <span class="ow">not</span> <span class="ow">in</span> <span class="p">[</span><span class="s2">&quot;gS&quot;</span><span class="p">,</span> <span class="s2">&quot;gP&quot;</span><span class="p">,</span> <span class="s2">&quot;gA&quot;</span><span class="p">,</span> <span class="s2">&quot;gV&quot;</span><span class="p">,</span> <span class="s2">&quot;gVt&quot;</span><span class="p">,</span> <span class="s2">&quot;lA&quot;</span><span class="p">,</span> <span class="s2">&quot;lV&quot;</span><span class="p">,</span> <span class="s2">&quot;lVt&quot;</span><span class="p">,</span> <span class="s2">&quot;lT&quot;</span><span class="p">,</span> <span class="s2">&quot;lTt&quot;</span><span class="p">,</span> <span class="s2">&quot;g1&quot;</span><span class="p">,</span> <span class="s2">&quot;l1&quot;</span><span class="p">]:</span>
</span><span id="read_ms5_xsf-1198"><a href="#read_ms5_xsf-1198"><span class="linenos">1198</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Unknown correlator!&quot;</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1199"><a href="#read_ms5_xsf-1199"><span class="linenos">1199</span></a>
</span><span id="read_ms5_xsf-1200"><a href="#read_ms5_xsf-1200"><span class="linenos">1200</span></a> <span class="k">if</span> <span class="s2">&quot;files&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1201"><a href="#read_ms5_xsf-1201"><span class="linenos">1201</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;files&quot;</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1202"><a href="#read_ms5_xsf-1202"><span class="linenos">1202</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1203"><a href="#read_ms5_xsf-1203"><span class="linenos">1203</span></a> <span class="n">known_files</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_ms5_xsf-1204"><a href="#read_ms5_xsf-1204"><span class="linenos">1204</span></a> <span class="n">files</span> <span class="o">=</span> <span class="n">_find_files</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span><span class="p">,</span> <span class="s2">&quot;ms5_xsf_&quot;</span> <span class="o">+</span> <span class="n">qc</span><span class="p">,</span> <span class="s2">&quot;dat&quot;</span><span class="p">,</span> <span class="n">known_files</span><span class="o">=</span><span class="n">known_files</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1205"><a href="#read_ms5_xsf-1205"><span class="linenos">1205</span></a>
</span><span id="read_ms5_xsf-1206"><a href="#read_ms5_xsf-1206"><span class="linenos">1206</span></a> <span class="k">if</span> <span class="s2">&quot;names&quot;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1207"><a href="#read_ms5_xsf-1207"><span class="linenos">1207</span></a> <span class="n">names</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">&quot;names&quot;</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1208"><a href="#read_ms5_xsf-1208"><span class="linenos">1208</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1209"><a href="#read_ms5_xsf-1209"><span class="linenos">1209</span></a> <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1210"><a href="#read_ms5_xsf-1210"><span class="linenos">1210</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">sep</span> <span class="o">==</span> <span class="s2">&quot;&quot;</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1211"><a href="#read_ms5_xsf-1211"><span class="linenos">1211</span></a> <span class="n">se</span> <span class="o">=</span> <span class="n">f</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1212"><a href="#read_ms5_xsf-1212"><span class="linenos">1212</span></a> <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">f</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s2">&quot;.&quot;</span><span class="p">)[</span><span class="mi">1</span><span class="p">:</span><span class="o">-</span><span class="mi">2</span><span class="p">]:</span>
</span><span id="read_ms5_xsf-1213"><a href="#read_ms5_xsf-1213"><span class="linenos">1213</span></a> <span class="n">se</span> <span class="o">+=</span> <span class="s2">&quot;.&quot;</span> <span class="o">+</span> <span class="n">s</span>
</span><span id="read_ms5_xsf-1214"><a href="#read_ms5_xsf-1214"><span class="linenos">1214</span></a> <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">se</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">sep</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="s2">&quot;|r&quot;</span> <span class="o">+</span> <span class="n">se</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="n">sep</span><span class="p">)[</span><span class="mi">1</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1215"><a href="#read_ms5_xsf-1215"><span class="linenos">1215</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1216"><a href="#read_ms5_xsf-1216"><span class="linenos">1216</span></a> <span class="n">names</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">prefix</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1217"><a href="#read_ms5_xsf-1217"><span class="linenos">1217</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1218"><a href="#read_ms5_xsf-1218"><span class="linenos">1218</span></a> <span class="n">expected_idl</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s1">&#39;idl&#39;</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1219"><a href="#read_ms5_xsf-1219"><span class="linenos">1219</span></a> <span class="n">names</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">names</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1220"><a href="#read_ms5_xsf-1220"><span class="linenos">1220</span></a> <span class="n">files</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">files</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1221"><a href="#read_ms5_xsf-1221"><span class="linenos">1221</span></a>
</span><span id="read_ms5_xsf-1222"><a href="#read_ms5_xsf-1222"><span class="linenos">1222</span></a> <span class="n">cnfgs</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_ms5_xsf-1223"><a href="#read_ms5_xsf-1223"><span class="linenos">1223</span></a> <span class="n">realsamples</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_ms5_xsf-1224"><a href="#read_ms5_xsf-1224"><span class="linenos">1224</span></a> <span class="n">imagsamples</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_ms5_xsf-1225"><a href="#read_ms5_xsf-1225"><span class="linenos">1225</span></a> <span class="n">repnum</span> <span class="o">=</span> <span class="mi">0</span>
</span><span id="read_ms5_xsf-1226"><a href="#read_ms5_xsf-1226"><span class="linenos">1226</span></a> <span class="k">for</span> <span class="n">file</span> <span class="ow">in</span> <span class="n">files</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1227"><a href="#read_ms5_xsf-1227"><span class="linenos">1227</span></a> <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">path</span> <span class="o">+</span> <span class="s2">&quot;/&quot;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="s2">&quot;rb&quot;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fp</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1228"><a href="#read_ms5_xsf-1228"><span class="linenos">1228</span></a>
</span><span id="read_ms5_xsf-1229"><a href="#read_ms5_xsf-1229"><span class="linenos">1229</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1230"><a href="#read_ms5_xsf-1230"><span class="linenos">1230</span></a> <span class="n">kappa</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1231"><a href="#read_ms5_xsf-1231"><span class="linenos">1231</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1232"><a href="#read_ms5_xsf-1232"><span class="linenos">1232</span></a> <span class="n">csw</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1233"><a href="#read_ms5_xsf-1233"><span class="linenos">1233</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1234"><a href="#read_ms5_xsf-1234"><span class="linenos">1234</span></a> <span class="n">dF</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1235"><a href="#read_ms5_xsf-1235"><span class="linenos">1235</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">8</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1236"><a href="#read_ms5_xsf-1236"><span class="linenos">1236</span></a> <span class="n">zF</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;d&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1237"><a href="#read_ms5_xsf-1237"><span class="linenos">1237</span></a>
</span><span id="read_ms5_xsf-1238"><a href="#read_ms5_xsf-1238"><span class="linenos">1238</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1239"><a href="#read_ms5_xsf-1239"><span class="linenos">1239</span></a> <span class="n">tmax</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1240"><a href="#read_ms5_xsf-1240"><span class="linenos">1240</span></a> <span class="n">t</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="mi">4</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1241"><a href="#read_ms5_xsf-1241"><span class="linenos">1241</span></a> <span class="n">bnd</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="s1">&#39;i&#39;</span><span class="p">,</span> <span class="n">t</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1242"><a href="#read_ms5_xsf-1242"><span class="linenos">1242</span></a>
</span><span id="read_ms5_xsf-1243"><a href="#read_ms5_xsf-1243"><span class="linenos">1243</span></a> <span class="n">placesBI</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;gS&quot;</span><span class="p">,</span> <span class="s2">&quot;gP&quot;</span><span class="p">,</span>
</span><span id="read_ms5_xsf-1244"><a href="#read_ms5_xsf-1244"><span class="linenos">1244</span></a> <span class="s2">&quot;gA&quot;</span><span class="p">,</span> <span class="s2">&quot;gV&quot;</span><span class="p">,</span>
</span><span id="read_ms5_xsf-1245"><a href="#read_ms5_xsf-1245"><span class="linenos">1245</span></a> <span class="s2">&quot;gVt&quot;</span><span class="p">,</span> <span class="s2">&quot;lA&quot;</span><span class="p">,</span>
</span><span id="read_ms5_xsf-1246"><a href="#read_ms5_xsf-1246"><span class="linenos">1246</span></a> <span class="s2">&quot;lV&quot;</span><span class="p">,</span> <span class="s2">&quot;lVt&quot;</span><span class="p">,</span>
</span><span id="read_ms5_xsf-1247"><a href="#read_ms5_xsf-1247"><span class="linenos">1247</span></a> <span class="s2">&quot;lT&quot;</span><span class="p">,</span> <span class="s2">&quot;lTt&quot;</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1248"><a href="#read_ms5_xsf-1248"><span class="linenos">1248</span></a> <span class="n">placesBB</span> <span class="o">=</span> <span class="p">[</span><span class="s2">&quot;g1&quot;</span><span class="p">,</span> <span class="s2">&quot;l1&quot;</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1249"><a href="#read_ms5_xsf-1249"><span class="linenos">1249</span></a>
</span><span id="read_ms5_xsf-1250"><a href="#read_ms5_xsf-1250"><span class="linenos">1250</span></a> <span class="c1"># the chunks have the following structure:</span>
</span><span id="read_ms5_xsf-1251"><a href="#read_ms5_xsf-1251"><span class="linenos">1251</span></a> <span class="c1"># confignumber, 10x timedependent complex correlators as doubles, 2x timeindependent complex correlators as doubles</span>
</span><span id="read_ms5_xsf-1252"><a href="#read_ms5_xsf-1252"><span class="linenos">1252</span></a>
</span><span id="read_ms5_xsf-1253"><a href="#read_ms5_xsf-1253"><span class="linenos">1253</span></a> <span class="n">chunksize</span> <span class="o">=</span> <span class="mi">4</span> <span class="o">+</span> <span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="mi">10</span><span class="p">)</span> <span class="o">+</span> <span class="p">(</span><span class="mi">8</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1254"><a href="#read_ms5_xsf-1254"><span class="linenos">1254</span></a> <span class="n">packstr</span> <span class="o">=</span> <span class="s1">&#39;=i&#39;</span> <span class="o">+</span> <span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="mi">10</span><span class="p">)</span> <span class="o">+</span> <span class="p">(</span><span class="s1">&#39;d&#39;</span> <span class="o">*</span> <span class="mi">2</span> <span class="o">*</span> <span class="mi">2</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1255"><a href="#read_ms5_xsf-1255"><span class="linenos">1255</span></a> <span class="n">cnfgs</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_ms5_xsf-1256"><a href="#read_ms5_xsf-1256"><span class="linenos">1256</span></a> <span class="n">realsamples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_ms5_xsf-1257"><a href="#read_ms5_xsf-1257"><span class="linenos">1257</span></a> <span class="n">imagsamples</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_ms5_xsf-1258"><a href="#read_ms5_xsf-1258"><span class="linenos">1258</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">tmax</span><span class="p">):</span>
</span><span id="read_ms5_xsf-1259"><a href="#read_ms5_xsf-1259"><span class="linenos">1259</span></a> <span class="n">realsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_ms5_xsf-1260"><a href="#read_ms5_xsf-1260"><span class="linenos">1260</span></a> <span class="n">imagsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="read_ms5_xsf-1261"><a href="#read_ms5_xsf-1261"><span class="linenos">1261</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1262"><a href="#read_ms5_xsf-1262"><span class="linenos">1262</span></a> <span class="n">left_idl</span> <span class="o">=</span> <span class="nb">set</span><span class="p">(</span><span class="n">expected_idl</span><span class="p">[</span><span class="n">repnum</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1263"><a href="#read_ms5_xsf-1263"><span class="linenos">1263</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1264"><a href="#read_ms5_xsf-1264"><span class="linenos">1264</span></a> <span class="n">cnfgt</span> <span class="o">=</span> <span class="n">fp</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">chunksize</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1265"><a href="#read_ms5_xsf-1265"><span class="linenos">1265</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">cnfgt</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1266"><a href="#read_ms5_xsf-1266"><span class="linenos">1266</span></a> <span class="k">break</span>
</span><span id="read_ms5_xsf-1267"><a href="#read_ms5_xsf-1267"><span class="linenos">1267</span></a> <span class="n">asascii</span> <span class="o">=</span> <span class="n">struct</span><span class="o">.</span><span class="n">unpack</span><span class="p">(</span><span class="n">packstr</span><span class="p">,</span> <span class="n">cnfgt</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1268"><a href="#read_ms5_xsf-1268"><span class="linenos">1268</span></a> <span class="n">cnfg</span> <span class="o">=</span> <span class="n">asascii</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1269"><a href="#read_ms5_xsf-1269"><span class="linenos">1269</span></a> <span class="n">idl_wanted</span> <span class="o">=</span> <span class="kc">True</span>
</span><span id="read_ms5_xsf-1270"><a href="#read_ms5_xsf-1270"><span class="linenos">1270</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1271"><a href="#read_ms5_xsf-1271"><span class="linenos">1271</span></a> <span class="n">idl_wanted</span> <span class="o">=</span> <span class="p">(</span><span class="n">cnfg</span> <span class="ow">in</span> <span class="n">expected_idl</span><span class="p">[</span><span class="n">repnum</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1272"><a href="#read_ms5_xsf-1272"><span class="linenos">1272</span></a> <span class="n">left_idl</span> <span class="o">=</span> <span class="n">left_idl</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">cnfg</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1273"><a href="#read_ms5_xsf-1273"><span class="linenos">1273</span></a> <span class="k">if</span> <span class="n">idl_wanted</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1274"><a href="#read_ms5_xsf-1274"><span class="linenos">1274</span></a> <span class="n">cnfgs</span><span class="p">[</span><span class="n">repnum</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">cnfg</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1275"><a href="#read_ms5_xsf-1275"><span class="linenos">1275</span></a>
</span><span id="read_ms5_xsf-1276"><a href="#read_ms5_xsf-1276"><span class="linenos">1276</span></a> <span class="k">if</span> <span class="n">corr</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">placesBB</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1277"><a href="#read_ms5_xsf-1277"><span class="linenos">1277</span></a> <span class="n">tmpcorr</span> <span class="o">=</span> <span class="n">asascii</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="n">placesBI</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">):</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="n">placesBI</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1278"><a href="#read_ms5_xsf-1278"><span class="linenos">1278</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1279"><a href="#read_ms5_xsf-1279"><span class="linenos">1279</span></a> <span class="n">tmpcorr</span> <span class="o">=</span> <span class="n">asascii</span><span class="p">[</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">placesBI</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">placesBB</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">):</span><span class="mi">1</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">tmax</span> <span class="o">*</span> <span class="nb">len</span><span class="p">(</span><span class="n">placesBI</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">placesBB</span><span class="o">.</span><span class="n">index</span><span class="p">(</span><span class="n">corr</span><span class="p">)</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1280"><a href="#read_ms5_xsf-1280"><span class="linenos">1280</span></a>
</span><span id="read_ms5_xsf-1281"><a href="#read_ms5_xsf-1281"><span class="linenos">1281</span></a> <span class="n">corrres</span> <span class="o">=</span> <span class="p">[[],</span> <span class="p">[]]</span>
</span><span id="read_ms5_xsf-1282"><a href="#read_ms5_xsf-1282"><span class="linenos">1282</span></a> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)):</span>
</span><span id="read_ms5_xsf-1283"><a href="#read_ms5_xsf-1283"><span class="linenos">1283</span></a> <span class="n">corrres</span><span class="p">[</span><span class="n">i</span> <span class="o">%</span> <span class="mi">2</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1284"><a href="#read_ms5_xsf-1284"><span class="linenos">1284</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)):</span>
</span><span id="read_ms5_xsf-1285"><a href="#read_ms5_xsf-1285"><span class="linenos">1285</span></a> <span class="n">realsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">][</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corrres</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1286"><a href="#read_ms5_xsf-1286"><span class="linenos">1286</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)):</span>
</span><span id="read_ms5_xsf-1287"><a href="#read_ms5_xsf-1287"><span class="linenos">1287</span></a> <span class="n">imagsamples</span><span class="p">[</span><span class="n">repnum</span><span class="p">][</span><span class="n">t</span><span class="p">]</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">corrres</span><span class="p">[</span><span class="mi">1</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1288"><a href="#read_ms5_xsf-1288"><span class="linenos">1288</span></a> <span class="k">if</span> <span class="s1">&#39;idl&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1289"><a href="#read_ms5_xsf-1289"><span class="linenos">1289</span></a> <span class="n">left_idl</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">left_idl</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1290"><a href="#read_ms5_xsf-1290"><span class="linenos">1290</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">left_idl</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">0</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1291"><a href="#read_ms5_xsf-1291"><span class="linenos">1291</span></a> <span class="n">warnings</span><span class="o">.</span><span class="n">warn</span><span class="p">(</span><span class="s1">&#39;Could not find idls &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">left_idl</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; in replikum of file &#39;</span> <span class="o">+</span> <span class="n">file</span><span class="p">,</span> <span class="ne">UserWarning</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1292"><a href="#read_ms5_xsf-1292"><span class="linenos">1292</span></a> <span class="n">repnum</span> <span class="o">+=</span> <span class="mi">1</span>
</span><span id="read_ms5_xsf-1293"><a href="#read_ms5_xsf-1293"><span class="linenos">1293</span></a> <span class="n">s</span> <span class="o">=</span> <span class="s2">&quot;Read correlator &quot;</span> <span class="o">+</span> <span class="n">corr</span> <span class="o">+</span> <span class="s2">&quot; from &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">repnum</span><span class="p">)</span> <span class="o">+</span> <span class="s2">&quot; replika with idls&quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">realsamples</span><span class="p">[</span><span class="mi">0</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1294"><a href="#read_ms5_xsf-1294"><span class="linenos">1294</span></a> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">repnum</span><span class="p">):</span>
</span><span id="read_ms5_xsf-1295"><a href="#read_ms5_xsf-1295"><span class="linenos">1295</span></a> <span class="n">s</span> <span class="o">+=</span> <span class="s2">&quot;, &quot;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">realsamples</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">t</span><span class="p">])</span>
</span><span id="read_ms5_xsf-1296"><a href="#read_ms5_xsf-1296"><span class="linenos">1296</span></a> <span class="nb">print</span><span class="p">(</span><span class="n">s</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1297"><a href="#read_ms5_xsf-1297"><span class="linenos">1297</span></a> <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Asserted run parameters:</span><span class="se">\n</span><span class="s2"> T:&quot;</span><span class="p">,</span> <span class="n">tmax</span><span class="p">,</span> <span class="s2">&quot;kappa:&quot;</span><span class="p">,</span> <span class="n">kappa</span><span class="p">,</span> <span class="s2">&quot;csw:&quot;</span><span class="p">,</span> <span class="n">csw</span><span class="p">,</span> <span class="s2">&quot;dF:&quot;</span><span class="p">,</span> <span class="n">dF</span><span class="p">,</span> <span class="s2">&quot;zF:&quot;</span><span class="p">,</span> <span class="n">zF</span><span class="p">,</span> <span class="s2">&quot;bnd:&quot;</span><span class="p">,</span> <span class="n">bnd</span><span class="p">)</span>
</span><span id="read_ms5_xsf-1298"><a href="#read_ms5_xsf-1298"><span class="linenos">1298</span></a>
</span><span id="read_ms5_xsf-1299"><a href="#read_ms5_xsf-1299"><span class="linenos">1299</span></a> <span class="c1"># we have the data now... but we need to re format the whole thing and put it into Corr objects.</span>
</span><span id="read_ms5_xsf-1300"><a href="#read_ms5_xsf-1300"><span class="linenos">1300</span></a>
</span><span id="read_ms5_xsf-1301"><a href="#read_ms5_xsf-1301"><span class="linenos">1301</span></a> <span class="n">compObs</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_ms5_xsf-1302"><a href="#read_ms5_xsf-1302"><span class="linenos">1302</span></a>
</span><span id="read_ms5_xsf-1303"><a href="#read_ms5_xsf-1303"><span class="linenos">1303</span></a> <span class="k">for</span> <span class="n">t</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">tmpcorr</span><span class="p">)</span> <span class="o">/</span> <span class="mi">2</span><span class="p">)):</span>
</span><span id="read_ms5_xsf-1304"><a href="#read_ms5_xsf-1304"><span class="linenos">1304</span></a> <span class="n">compObs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">CObs</span><span class="p">(</span><span class="n">Obs</span><span class="p">([</span><span class="n">realsamples</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">repnum</span><span class="p">)],</span> <span class="n">names</span><span class="o">=</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">cnfgs</span><span class="p">),</span>
</span><span id="read_ms5_xsf-1305"><a href="#read_ms5_xsf-1305"><span class="linenos">1305</span></a> <span class="n">Obs</span><span class="p">([</span><span class="n">imagsamples</span><span class="p">[</span><span class="n">rep</span><span class="p">][</span><span class="n">t</span><span class="p">]</span> <span class="k">for</span> <span class="n">rep</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">repnum</span><span class="p">)],</span> <span class="n">names</span><span class="o">=</span><span class="n">names</span><span class="p">,</span> <span class="n">idl</span><span class="o">=</span><span class="n">cnfgs</span><span class="p">)))</span>
</span><span id="read_ms5_xsf-1306"><a href="#read_ms5_xsf-1306"><span class="linenos">1306</span></a>
</span><span id="read_ms5_xsf-1307"><a href="#read_ms5_xsf-1307"><span class="linenos">1307</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">compObs</span><span class="p">)</span> <span class="o">==</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1308"><a href="#read_ms5_xsf-1308"><span class="linenos">1308</span></a> <span class="k">return</span> <span class="n">compObs</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span>
</span><span id="read_ms5_xsf-1309"><a href="#read_ms5_xsf-1309"><span class="linenos">1309</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_ms5_xsf-1310"><a href="#read_ms5_xsf-1310"><span class="linenos">1310</span></a> <span class="k">return</span> <span class="n">Corr</span><span class="p">(</span><span class="n">compObs</span><span class="p">)</span>
</span></pre></div>
<div class="docstring"><p>Read data from files in the specified directory with the specified prefix and quark combination extension, and return a <code>Corr</code> object containing the data.</p>
<h6 id="parameters">Parameters</h6>
<ul>
<li><strong>path</strong> (str):
The directory to search for the files in.</li>
<li><strong>prefix</strong> (str):
The prefix to match the files against.</li>
<li><strong>qc</strong> (str):
The quark combination extension to match the files against.</li>
<li><strong>corr</strong> (str):
The correlator to extract data for.</li>
<li><strong>sep</strong> (str, optional):
The separator to use when parsing the replika names.</li>
<li><p><strong>**kwargs</strong>: Additional keyword arguments. The following keyword arguments are recognized:</p>
<ul>
<li>names (List[str]): A list of names to use for the replicas.</li>
<li>files (List[str]): A list of files to read data from.</li>
<li>idl (List[List[int]]): A list of idls per replicum, resticting data to the idls given.</li>
</ul></li>
</ul>
<h6 id="returns">Returns</h6>
<ul>
<li><strong>Corr</strong>: A complex valued <code>Corr</code> object containing the data read from the files. In case of boudary to bulk correlators.</li>
<li><strong>or</strong></li>
<li><strong>CObs</strong>: A complex valued <code>CObs</code> object containing the data read from the files. In case of boudary to boundary correlators.</li>
</ul>
<h6 id="raises">Raises</h6>
<ul>
<li><strong>FileNotFoundError</strong>: If no files matching the specified prefix and quark combination extension are found in the specified directory.</li>
<li><strong>IOError</strong>: If there is an error reading a file.</li>
<li><strong>struct.error</strong>: If there is an error unpacking binary data.</li>
</ul>
</div>
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