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docs/pyerrors/correlators.html
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docs/pyerrors/covobs.html
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docs/pyerrors/dirac.html
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docs/pyerrors/fits.html
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docs/pyerrors/input.html
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docs/pyerrors/input/bdio.html
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@ -52,6 +52,9 @@
<h2>API Documentation</h2> <h2>API Documentation</h2>
<ul class="memberlist"> <ul class="memberlist">
<li>
<a class="function" href="#fit_t0">fit_t0</a>
</li>
<li> <li>
<a class="function" href="#read_pbp">read_pbp</a> <a class="function" href="#read_pbp">read_pbp</a>
</li> </li>
@ -81,132 +84,246 @@
</span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">import</span> <span class="nn">re</span> </span><span id="L-3"><a href="#L-3"><span class="linenos"> 3</span></a><span class="kn">import</span> <span class="nn">re</span>
</span><span id="L-4"><a href="#L-4"><span class="linenos"> 4</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">struct</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-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-6"><a href="#L-6"><span class="linenos"> 6</span></a><span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
</span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a> </span><span id="L-7"><a href="#L-7"><span class="linenos"> 7</span></a><span class="kn">from</span> <span class="nn">matplotlib</span> <span class="kn">import</span> <span class="n">gridspec</span>
</span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</span></a> </span><span id="L-8"><a href="#L-8"><span class="linenos"> 8</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-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="k">def</span> <span class="nf">read_pbp</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="o">**</span><span class="n">kwargs</span><span class="p">):</span> </span><span id="L-9"><a href="#L-9"><span class="linenos"> 9</span></a><span class="kn">from</span> <span class="nn">..fits</span> <span class="kn">import</span> <span class="n">fit_lin</span>
</span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure.</span> </span><span id="L-10"><a href="#L-10"><span class="linenos"> 10</span></a>
</span><span id="L-11"><a href="#L-11"><span class="linenos"> 11</span></a> </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 class="sd"> Parameters</span> </span><span id="L-12"><a href="#L-12"><span class="linenos"> 12</span></a><span class="k">def</span> <span class="nf">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="kc">False</span><span class="p">):</span>
</span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a><span class="sd"> ----------</span> </span><span id="L-13"><a href="#L-13"><span class="linenos"> 13</span></a> <span class="n">zero_crossing</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
</span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a><span class="sd"> r_start : list</span> </span><span id="L-14"><a href="#L-14"><span class="linenos"> 14</span></a> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">()])</span> <span class="o">&gt;</span> <span class="mf">0.0</span><span class="p">)</span>
</span><span id="L-15"><a href="#L-15"><span class="linenos"> 15</span></a><span class="sd"> list which contains the first config to be read for each replicum</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"> r_stop : list</span> </span><span id="L-16"><a href="#L-16"><span class="linenos"> 16</span></a> <span class="n">x</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
</span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a><span class="sd"> list which contains the last config to be read for each replicum</span> </span><span id="L-17"><a href="#L-17"><span class="linenos"> 17</span></a> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
</span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a> </span><span id="L-18"><a href="#L-18"><span class="linenos"> 18</span></a> <span class="n">y</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
</span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a><span class="sd"> Returns</span> </span><span id="L-19"><a href="#L-19"><span class="linenos"> 19</span></a> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
</span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a><span class="sd"> -------</span> </span><span id="L-20"><a href="#L-20"><span class="linenos"> 20</span></a> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
</span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a><span class="sd"> result : list[Obs]</span> </span><span id="L-21"><a href="#L-21"><span class="linenos"> 21</span></a>
</span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a><span class="sd"> list of observables read</span> </span><span id="L-22"><a href="#L-22"><span class="linenos"> 22</span></a> <span class="n">fit_result</span> <span class="o">=</span> <span class="n">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
</span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a><span class="sd"> &quot;&quot;&quot;</span> </span><span id="L-23"><a href="#L-23"><span class="linenos"> 23</span></a>
</span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a> </span><span id="L-24"><a href="#L-24"><span class="linenos"> 24</span></a> <span class="k">if</span> <span class="n">plot_fit</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="L-25"><a href="#L-25"><span class="linenos"> 25</span></a> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
</span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</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="p">):</span> </span><span id="L-26"><a href="#L-26"><span class="linenos"> 26</span></a> <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
</span><span id="L-27"><a href="#L-27"><span class="linenos"> 27</span></a> <span class="n">ls</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-27"><a href="#L-27"><span class="linenos"> 27</span></a> <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a> <span class="k">break</span> </span><span id="L-28"><a href="#L-28"><span class="linenos"> 28</span></a> <span class="n">xmore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
</span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a> </span><span id="L-29"><a href="#L-29"><span class="linenos"> 29</span></a> <span class="n">ymore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
</span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span> </span><span id="L-30"><a href="#L-30"><span class="linenos"> 30</span></a> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">]</span>
</span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span> </span><span id="L-31"><a href="#L-31"><span class="linenos"> 31</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">xmore</span><span class="p">,</span> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;x&#39;</span><span class="p">)</span>
</span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a> </span><span id="L-32"><a href="#L-32"><span class="linenos"> 32</span></a> <span class="n">xplot</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">x</span><span class="p">))</span>
</span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a> <span class="c1"># Exclude files with different names</span> </span><span id="L-33"><a href="#L-33"><span class="linenos"> 33</span></a> <span class="n">yplot</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">xplot</span><span class="p">]</span>
</span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a> <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span> </span><span id="L-34"><a href="#L-34"><span class="linenos"> 34</span></a> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">]</span>
</span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span> </span><span id="L-35"><a href="#L-35"><span class="linenos"> 35</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xplot</span><span class="p">,</span> <span class="n">y1</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">],</span> <span class="n">y2</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">])</span>
</span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span> </span><span id="L-36"><a href="#L-36"><span class="linenos"> 36</span></a> <span class="n">retval</span> <span class="o">=</span> <span class="p">(</span><span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
</span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span> </span><span id="L-37"><a href="#L-37"><span class="linenos"> 37</span></a> <span class="n">retval</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
</span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a> <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span> </span><span id="L-38"><a href="#L-38"><span class="linenos"> 38</span></a> <span class="n">ylim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_ylim</span><span class="p">()</span>
</span><span id="L-39"><a href="#L-39"><span class="linenos"> 39</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-39"><a href="#L-39"><span class="linenos"> 39</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">fill_betweenx</span><span class="p">(</span><span class="n">ylim</span><span class="p">,</span> <span class="n">x1</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">x2</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;gray&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
</span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a> </span><span id="L-40"><a href="#L-40"><span class="linenos"> 40</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">ylim</span><span class="p">)</span>
</span><span id="L-41"><a href="#L-41"><span class="linenos"> 41</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-41"><a href="#L-41"><span class="linenos"> 41</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t^2 \langle E(t) \rangle - 0.3 $&#39;</span><span class="p">)</span>
</span><span id="L-42"><a href="#L-42"><span class="linenos"> 42</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-42"><a href="#L-42"><span class="linenos"> 42</span></a> <span class="n">xlim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_xlim</span><span class="p">()</span>
</span><span id="L-43"><a href="#L-43"><span class="linenos"> 43</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-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="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-44"><a href="#L-44"><span class="linenos"> 44</span></a> <span class="n">fit_res</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]</span>
</span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a> <span class="c1"># Adjust Configuration numbering to python index</span> </span><span id="L-45"><a href="#L-45"><span class="linenos"> 45</span></a> <span class="n">residuals</span> <span class="o">=</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">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</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">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
</span><span id="L-46"><a href="#L-46"><span class="linenos"> 46</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</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-46"><a href="#L-46"><span class="linenos"> 46</span></a> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
</span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a> <span class="k">else</span><span class="p">:</span> </span><span id="L-47"><a href="#L-47"><span class="linenos"> 47</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
</span><span id="L-48"><a href="#L-48"><span class="linenos"> 48</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-48"><a href="#L-48"><span class="linenos"> 48</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
</span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a> </span><span id="L-49"><a href="#L-49"><span class="linenos"> 49</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</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="s1">&#39;r_stop&#39;</span> <span class="ow">in</span> <span class="n">kwargs</span><span class="p">:</span> </span><span id="L-50"><a href="#L-50"><span class="linenos"> 50</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
</span><span id="L-51"><a href="#L-51"><span class="linenos"> 51</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-51"><a href="#L-51"><span class="linenos"> 51</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xlim</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
</span><span id="L-52"><a href="#L-52"><span class="linenos"> 52</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-52"><a href="#L-52"><span class="linenos"> 52</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">(</span><span class="n">xlim</span><span class="p">)</span>
</span><span id="L-53"><a href="#L-53"><span class="linenos"> 53</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-53"><a href="#L-53"><span class="linenos"> 53</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
</span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a> <span class="k">else</span><span class="p">:</span> </span><span id="L-54"><a href="#L-54"><span class="linenos"> 54</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t/a^2$&#39;</span><span class="p">)</span>
</span><span id="L-55"><a href="#L-55"><span class="linenos"> 55</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-55"><a href="#L-55"><span class="linenos"> 55</span></a>
</span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a> </span><span id="L-56"><a href="#L-56"><span class="linenos"> 56</span></a> <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
</span><span id="L-57"><a href="#L-57"><span class="linenos"> 57</span></a> <span class="nb">print</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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 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-57"><a href="#L-57"><span class="linenos"> 57</span></a> <span class="k">return</span> <span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
</span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a> </span><span id="L-58"><a href="#L-58"><span class="linenos"> 58</span></a>
</span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span> </span><span id="L-59"><a href="#L-59"><span class="linenos"> 59</span></a>
</span><span id="L-60"><a href="#L-60"><span class="linenos"> 60</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-60"><a href="#L-60"><span class="linenos"> 60</span></a><span class="k">def</span> <span class="nf">read_pbp</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="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span> </span><span id="L-61"><a href="#L-61"><span class="linenos"> 61</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure.</span>
</span><span id="L-62"><a href="#L-62"><span class="linenos"> 62</span></a> <span class="nb">print</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><span id="L-63"><a href="#L-63"><span class="linenos"> 63</span></a><span class="sd"> Parameters</span>
</span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="L-64"><a href="#L-64"><span class="linenos"> 64</span></a><span class="sd"> ----------</span>
</span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a> </span><span id="L-65"><a href="#L-65"><span class="linenos"> 65</span></a><span class="sd"> r_start : list</span>
</span><span id="L-66"><a href="#L-66"><span class="linenos"> 66</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-66"><a href="#L-66"><span class="linenos"> 66</span></a><span class="sd"> list which contains the first config to be read for each replicum</span>
</span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a> <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="L-67"><a href="#L-67"><span class="linenos"> 67</span></a><span class="sd"> r_stop : list</span>
</span><span id="L-68"><a href="#L-68"><span class="linenos"> 68</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-68"><a href="#L-68"><span class="linenos"> 68</span></a><span class="sd"> list which contains the last config to be read for each replicum</span>
</span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a> </span><span id="L-69"><a href="#L-69"><span class="linenos"> 69</span></a>
</span><span id="L-70"><a href="#L-70"><span class="linenos"> 70</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-70"><a href="#L-70"><span class="linenos"> 70</span></a><span class="sd"> Returns</span>
</span><span id="L-71"><a href="#L-71"><span class="linenos"> 71</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-71"><a href="#L-71"><span class="linenos"> 71</span></a><span class="sd"> -------</span>
</span><span id="L-72"><a href="#L-72"><span class="linenos"> 72</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-72"><a href="#L-72"><span class="linenos"> 72</span></a><span class="sd"> result : list[Obs]</span>
</span><span id="L-73"><a href="#L-73"><span class="linenos"> 73</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-73"><a href="#L-73"><span class="linenos"> 73</span></a><span class="sd"> list of observables read</span>
</span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a> <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span> </span><span id="L-74"><a href="#L-74"><span class="linenos"> 74</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a> <span class="k">else</span><span class="p">:</span> </span><span id="L-75"><a href="#L-75"><span class="linenos"> 75</span></a>
</span><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a> <span class="k">if</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><span id="L-76"><a href="#L-76"><span class="linenos"> 76</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span> </span><span id="L-77"><a href="#L-77"><span class="linenos"> 77</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="p">):</span>
</span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a> </span><span id="L-78"><a href="#L-78"><span class="linenos"> 78</span></a> <span class="n">ls</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-79"><a href="#L-79"><span class="linenos"> 79</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-79"><a href="#L-79"><span class="linenos"> 79</span></a> <span class="k">break</span>
</span><span id="L-80"><a href="#L-80"><span class="linenos"> 80</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-80"><a href="#L-80"><span class="linenos"> 80</span></a>
</span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a> </span><span id="L-81"><a href="#L-81"><span class="linenos"> 81</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a> <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span> </span><span id="L-82"><a href="#L-82"><span class="linenos"> 82</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
</span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a> <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="L-83"><a href="#L-83"><span class="linenos"> 83</span></a>
</span><span id="L-84"><a href="#L-84"><span class="linenos"> 84</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-84"><a href="#L-84"><span class="linenos"> 84</span></a> <span class="c1"># Exclude files with different names</span>
</span><span id="L-85"><a href="#L-85"><span class="linenos"> 85</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-85"><a href="#L-85"><span class="linenos"> 85</span></a> <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="L-86"><a href="#L-86"><span class="linenos"> 86</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-86"><a href="#L-86"><span class="linenos"> 86</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span>
</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;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span> <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span> </span><span id="L-87"><a href="#L-87"><span class="linenos"> 87</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
</span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a> </span><span id="L-88"><a href="#L-88"><span class="linenos"> 88</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a> <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="L-89"><a href="#L-89"><span class="linenos"> 89</span></a> <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
</span><span id="L-90"><a href="#L-90"><span class="linenos"> 90</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-90"><a href="#L-90"><span class="linenos"> 90</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-91"><a href="#L-91"><span class="linenos"> 91</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-91"><a href="#L-91"><span class="linenos"> 91</span></a>
</span><span id="L-92"><a href="#L-92"><span class="linenos"> 92</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-92"><a href="#L-92"><span class="linenos"> 92</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-93"><a href="#L-93"><span class="linenos"> 93</span></a> </span><span id="L-93"><a href="#L-93"><span class="linenos"> 93</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-94"><a href="#L-94"><span class="linenos"> 94</span></a> <span class="c1"># body</span> </span><span id="L-94"><a href="#L-94"><span class="linenos"> 94</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-95"><a href="#L-95"><span class="linenos"> 95</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span> </span><span id="L-95"><a href="#L-95"><span class="linenos"> 95</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-96"><a href="#L-96"><span class="linenos"> 96</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-96"><a href="#L-96"><span class="linenos"> 96</span></a> <span class="c1"># Adjust Configuration numbering to python index</span>
</span><span id="L-97"><a href="#L-97"><span class="linenos"> 97</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-97"><a href="#L-97"><span class="linenos"> 97</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</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-98"><a href="#L-98"><span class="linenos"> 98</span></a> <span class="k">break</span> </span><span id="L-98"><a href="#L-98"><span class="linenos"> 98</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span> </span><span id="L-99"><a href="#L-99"><span class="linenos"> 99</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-100"><a href="#L-100"><span class="linenos">100</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><span id="L-100"><a href="#L-100"><span class="linenos">100</span></a>
</span><span id="L-101"><a href="#L-101"><span class="linenos">101</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-101"><a href="#L-101"><span class="linenos">101</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-102"><a href="#L-102"><span class="linenos">102</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span> </span><span id="L-102"><a href="#L-102"><span class="linenos">102</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-103"><a href="#L-103"><span class="linenos">103</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-103"><a href="#L-103"><span class="linenos">103</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-104"><a href="#L-104"><span class="linenos">104</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-104"><a href="#L-104"><span class="linenos">104</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-105"><a href="#L-105"><span class="linenos">105</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-105"><a href="#L-105"><span class="linenos">105</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-106"><a href="#L-106"><span class="linenos">106</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-106"><a href="#L-106"><span class="linenos">106</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-107"><a href="#L-107"><span class="linenos">107</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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span> </span><span id="L-107"><a href="#L-107"><span class="linenos">107</span></a>
</span><span id="L-108"><a href="#L-108"><span class="linenos">108</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</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 class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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 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-109"><a href="#L-109"><span class="linenos">109</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 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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <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">asarray</span><span class="p">(</span><span class="n">tmp_rw</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="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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span> </span><span id="L-110"><a href="#L-110"><span class="linenos">110</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
</span><span id="L-111"><a href="#L-111"><span class="linenos">111</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-111"><a href="#L-111"><span class="linenos">111</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-112"><a href="#L-112"><span class="linenos">112</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-112"><a href="#L-112"><span class="linenos">112</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a> </span><span id="L-113"><a href="#L-113"><span class="linenos">113</span></a> <span class="nb">print</span><span class="p">()</span>
</span><span id="L-114"><a href="#L-114"><span class="linenos">114</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-114"><a href="#L-114"><span class="linenos">114</span></a>
</span><span id="L-115"><a href="#L-115"><span class="linenos">115</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</span><span class="p">[</span><span class="n">rep</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-115"><a href="#L-115"><span class="linenos">115</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a> </span><span id="L-116"><a href="#L-116"><span class="linenos">116</span></a>
</span><span id="L-117"><a href="#L-117"><span class="linenos">117</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="L-117"><a href="#L-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="L-118"><a href="#L-118"><span class="linenos">118</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-118"><a href="#L-118"><span class="linenos">118</span></a> <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-119"><a href="#L-119"><span class="linenos">119</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-119"><a href="#L-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="L-120"><a href="#L-120"><span class="linenos">120</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-120"><a href="#L-120"><span class="linenos">120</span></a>
</span><span id="L-121"><a href="#L-121"><span class="linenos">121</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-121"><a href="#L-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="L-122"><a href="#L-122"><span class="linenos">122</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="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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-122"><a href="#L-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="L-123"><a href="#L-123"><span class="linenos">123</span></a> <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="L-123"><a href="#L-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="L-124"><a href="#L-124"><span class="linenos">124</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-124"><a href="#L-124"><span class="linenos">124</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-125"><a href="#L-125"><span class="linenos">125</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><span id="L-125"><a href="#L-125"><span class="linenos">125</span></a> <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span>
</span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a> </span><span id="L-126"><a href="#L-126"><span class="linenos">126</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a> <span class="k">return</span> <span class="n">result</span> </span><span id="L-127"><a href="#L-127"><span class="linenos">127</span></a> <span class="k">if</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><span id="L-128"><a href="#L-128"><span class="linenos">128</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error: different number of factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
</span><span id="L-129"><a href="#L-129"><span class="linenos">129</span></a>
</span><span id="L-130"><a href="#L-130"><span class="linenos">130</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-131"><a href="#L-131"><span class="linenos">131</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-132"><a href="#L-132"><span class="linenos">132</span></a>
</span><span id="L-133"><a href="#L-133"><span class="linenos">133</span></a> <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span>
</span><span id="L-134"><a href="#L-134"><span class="linenos">134</span></a> <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-135"><a href="#L-135"><span class="linenos">135</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-136"><a href="#L-136"><span class="linenos">136</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-137"><a href="#L-137"><span class="linenos">137</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-138"><a href="#L-138"><span class="linenos">138</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span> <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span>
</span><span id="L-139"><a href="#L-139"><span class="linenos">139</span></a>
</span><span id="L-140"><a href="#L-140"><span class="linenos">140</span></a> <span class="n">nsrc</span> <span class="o">=</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">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-143"><a href="#L-143"><span class="linenos">143</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-144"><a href="#L-144"><span class="linenos">144</span></a>
</span><span id="L-145"><a href="#L-145"><span class="linenos">145</span></a> <span class="c1"># body</span>
</span><span id="L-146"><a href="#L-146"><span class="linenos">146</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="L-147"><a href="#L-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="L-148"><a href="#L-148"><span class="linenos">148</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-149"><a href="#L-149"><span class="linenos">149</span></a> <span class="k">break</span>
</span><span id="L-150"><a href="#L-150"><span class="linenos">150</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="L-151"><a href="#L-151"><span class="linenos">151</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><span id="L-152"><a href="#L-152"><span class="linenos">152</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-153"><a href="#L-153"><span class="linenos">153</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
</span><span id="L-154"><a href="#L-154"><span class="linenos">154</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-155"><a href="#L-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">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-156"><a href="#L-156"><span class="linenos">156</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-157"><a href="#L-157"><span class="linenos">157</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-158"><a href="#L-158"><span class="linenos">158</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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
</span><span id="L-159"><a href="#L-159"><span class="linenos">159</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="L-160"><a href="#L-160"><span class="linenos">160</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 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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
</span><span id="L-161"><a href="#L-161"><span class="linenos">161</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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
</span><span id="L-162"><a href="#L-162"><span class="linenos">162</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-163"><a href="#L-163"><span class="linenos">163</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-164"><a href="#L-164"><span class="linenos">164</span></a>
</span><span id="L-165"><a href="#L-165"><span class="linenos">165</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-166"><a href="#L-166"><span class="linenos">166</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</span><span class="p">[</span><span class="n">rep</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-167"><a href="#L-167"><span class="linenos">167</span></a>
</span><span id="L-168"><a href="#L-168"><span class="linenos">168</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-169"><a href="#L-169"><span class="linenos">169</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-170"><a href="#L-170"><span class="linenos">170</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-171"><a href="#L-171"><span class="linenos">171</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-172"><a href="#L-172"><span class="linenos">172</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-173"><a href="#L-173"><span class="linenos">173</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="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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-174"><a href="#L-174"><span class="linenos">174</span></a> <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="L-175"><a href="#L-175"><span class="linenos">175</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-176"><a href="#L-176"><span class="linenos">176</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><span id="L-177"><a href="#L-177"><span class="linenos">177</span></a>
</span><span id="L-178"><a href="#L-178"><span class="linenos">178</span></a> <span class="k">return</span> <span class="n">result</span>
</span></pre></div> </span></pre></div>
</section> </section>
<section id="fit_t0">
<input id="fit_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">fit_t0</span><span class="signature pdoc-code condensed">(<span class="param"><span class="n">t2E_dict</span>, </span><span class="param"><span class="n">fit_range</span>, </span><span class="param"><span class="n">plot_fit</span><span class="o">=</span><span class="kc">False</span></span><span class="return-annotation">):</span></span>
<label class="view-source-button" for="fit_t0-view-source"><span>View Source</span></label>
</div>
<a class="headerlink" href="#fit_t0"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="fit_t0-13"><a href="#fit_t0-13"><span class="linenos">13</span></a><span class="k">def</span> <span class="nf">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="kc">False</span><span class="p">):</span>
</span><span id="fit_t0-14"><a href="#fit_t0-14"><span class="linenos">14</span></a> <span class="n">zero_crossing</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">argmax</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
</span><span id="fit_t0-15"><a href="#fit_t0-15"><span class="linenos">15</span></a> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">()])</span> <span class="o">&gt;</span> <span class="mf">0.0</span><span class="p">)</span>
</span><span id="fit_t0-16"><a href="#fit_t0-16"><span class="linenos">16</span></a>
</span><span id="fit_t0-17"><a href="#fit_t0-17"><span class="linenos">17</span></a> <span class="n">x</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
</span><span id="fit_t0-18"><a href="#fit_t0-18"><span class="linenos">18</span></a> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
</span><span id="fit_t0-19"><a href="#fit_t0-19"><span class="linenos">19</span></a> <span class="n">y</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span><span class="p">:</span>
</span><span id="fit_t0-20"><a href="#fit_t0-20"><span class="linenos">20</span></a> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span><span class="p">]</span>
</span><span id="fit_t0-21"><a href="#fit_t0-21"><span class="linenos">21</span></a> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">]</span>
</span><span id="fit_t0-22"><a href="#fit_t0-22"><span class="linenos">22</span></a>
</span><span id="fit_t0-23"><a href="#fit_t0-23"><span class="linenos">23</span></a> <span class="n">fit_result</span> <span class="o">=</span> <span class="n">fit_lin</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
</span><span id="fit_t0-24"><a href="#fit_t0-24"><span class="linenos">24</span></a>
</span><span id="fit_t0-25"><a href="#fit_t0-25"><span class="linenos">25</span></a> <span class="k">if</span> <span class="n">plot_fit</span> <span class="ow">is</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="fit_t0-26"><a href="#fit_t0-26"><span class="linenos">26</span></a> <span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">()</span>
</span><span id="fit_t0-27"><a href="#fit_t0-27"><span class="linenos">27</span></a> <span class="n">gs</span> <span class="o">=</span> <span class="n">gridspec</span><span class="o">.</span><span class="n">GridSpec</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">height_ratios</span><span class="o">=</span><span class="p">[</span><span class="mi">3</span><span class="p">,</span> <span class="mi">1</span><span class="p">],</span> <span class="n">wspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">hspace</span><span class="o">=</span><span class="mf">0.0</span><span class="p">)</span>
</span><span id="fit_t0-28"><a href="#fit_t0-28"><span class="linenos">28</span></a> <span class="n">ax0</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
</span><span id="fit_t0-29"><a href="#fit_t0-29"><span class="linenos">29</span></a> <span class="n">xmore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">keys</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
</span><span id="fit_t0-30"><a href="#fit_t0-30"><span class="linenos">30</span></a> <span class="n">ymore</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="n">t2E_dict</span><span class="o">.</span><span class="n">values</span><span class="p">())[</span><span class="n">zero_crossing</span> <span class="o">-</span> <span class="n">fit_range</span> <span class="o">-</span> <span class="mi">2</span><span class="p">:</span> <span class="n">zero_crossing</span> <span class="o">+</span> <span class="n">fit_range</span> <span class="o">+</span> <span class="mi">2</span><span class="p">]</span>
</span><span id="fit_t0-31"><a href="#fit_t0-31"><span class="linenos">31</span></a> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">]</span>
</span><span id="fit_t0-32"><a href="#fit_t0-32"><span class="linenos">32</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">errorbar</span><span class="p">(</span><span class="n">xmore</span><span class="p">,</span> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">yerr</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">ymore</span><span class="p">],</span> <span class="n">fmt</span><span class="o">=</span><span class="s1">&#39;x&#39;</span><span class="p">)</span>
</span><span id="fit_t0-33"><a href="#fit_t0-33"><span class="linenos">33</span></a> <span class="n">xplot</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">x</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">x</span><span class="p">))</span>
</span><span id="fit_t0-34"><a href="#fit_t0-34"><span class="linenos">34</span></a> <span class="n">yplot</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">xplot</span><span class="p">]</span>
</span><span id="fit_t0-35"><a href="#fit_t0-35"><span class="linenos">35</span></a> <span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">]</span>
</span><span id="fit_t0-36"><a href="#fit_t0-36"><span class="linenos">36</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xplot</span><span class="p">,</span> <span class="n">y1</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">],</span> <span class="n">y2</span><span class="o">=</span><span class="p">[</span><span class="n">yi</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">yi</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">yi</span> <span class="ow">in</span> <span class="n">yplot</span><span class="p">])</span>
</span><span id="fit_t0-37"><a href="#fit_t0-37"><span class="linenos">37</span></a> <span class="n">retval</span> <span class="o">=</span> <span class="p">(</span><span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
</span><span id="fit_t0-38"><a href="#fit_t0-38"><span class="linenos">38</span></a> <span class="n">retval</span><span class="o">.</span><span class="n">gamma_method</span><span class="p">()</span>
</span><span id="fit_t0-39"><a href="#fit_t0-39"><span class="linenos">39</span></a> <span class="n">ylim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_ylim</span><span class="p">()</span>
</span><span id="fit_t0-40"><a href="#fit_t0-40"><span class="linenos">40</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">fill_betweenx</span><span class="p">(</span><span class="n">ylim</span><span class="p">,</span> <span class="n">x1</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">-</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">x2</span><span class="o">=</span><span class="n">retval</span><span class="o">.</span><span class="n">value</span> <span class="o">+</span> <span class="n">retval</span><span class="o">.</span><span class="n">dvalue</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;gray&#39;</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.4</span><span class="p">)</span>
</span><span id="fit_t0-41"><a href="#fit_t0-41"><span class="linenos">41</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylim</span><span class="p">(</span><span class="n">ylim</span><span class="p">)</span>
</span><span id="fit_t0-42"><a href="#fit_t0-42"><span class="linenos">42</span></a> <span class="n">ax0</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t^2 \langle E(t) \rangle - 0.3 $&#39;</span><span class="p">)</span>
</span><span id="fit_t0-43"><a href="#fit_t0-43"><span class="linenos">43</span></a> <span class="n">xlim</span> <span class="o">=</span> <span class="n">ax0</span><span class="o">.</span><span class="n">get_xlim</span><span class="p">()</span>
</span><span id="fit_t0-44"><a href="#fit_t0-44"><span class="linenos">44</span></a>
</span><span id="fit_t0-45"><a href="#fit_t0-45"><span class="linenos">45</span></a> <span class="n">fit_res</span> <span class="o">=</span> <span class="p">[</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">*</span> <span class="n">xi</span> <span class="k">for</span> <span class="n">xi</span> <span class="ow">in</span> <span class="n">x</span><span class="p">]</span>
</span><span id="fit_t0-46"><a href="#fit_t0-46"><span class="linenos">46</span></a> <span class="n">residuals</span> <span class="o">=</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">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span> <span class="o">-</span> <span class="p">[</span><span class="n">o</span><span class="o">.</span><span class="n">value</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">fit_res</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">o</span><span class="o">.</span><span class="n">dvalue</span> <span class="k">for</span> <span class="n">o</span> <span class="ow">in</span> <span class="n">y</span><span class="p">])</span>
</span><span id="fit_t0-47"><a href="#fit_t0-47"><span class="linenos">47</span></a> <span class="n">ax1</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplot</span><span class="p">(</span><span class="n">gs</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span>
</span><span id="fit_t0-48"><a href="#fit_t0-48"><span class="linenos">48</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">residuals</span><span class="p">,</span> <span class="s1">&#39;ko&#39;</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;none&#39;</span><span class="p">,</span> <span class="n">markersize</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
</span><span id="fit_t0-49"><a href="#fit_t0-49"><span class="linenos">49</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">direction</span><span class="o">=</span><span class="s1">&#39;out&#39;</span><span class="p">)</span>
</span><span id="fit_t0-50"><a href="#fit_t0-50"><span class="linenos">50</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">&quot;x&quot;</span><span class="p">,</span> <span class="n">bottom</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">top</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">labelbottom</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
</span><span id="fit_t0-51"><a href="#fit_t0-51"><span class="linenos">51</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">y</span><span class="o">=</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">ls</span><span class="o">=</span><span class="s1">&#39;--&#39;</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
</span><span id="fit_t0-52"><a href="#fit_t0-52"><span class="linenos">52</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">fill_between</span><span class="p">(</span><span class="n">xlim</span><span class="p">,</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.1</span><span class="p">,</span> <span class="n">facecolor</span><span class="o">=</span><span class="s1">&#39;k&#39;</span><span class="p">)</span>
</span><span id="fit_t0-53"><a href="#fit_t0-53"><span class="linenos">53</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlim</span><span class="p">(</span><span class="n">xlim</span><span class="p">)</span>
</span><span id="fit_t0-54"><a href="#fit_t0-54"><span class="linenos">54</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="s1">&#39;Residuals&#39;</span><span class="p">)</span>
</span><span id="fit_t0-55"><a href="#fit_t0-55"><span class="linenos">55</span></a> <span class="n">ax1</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;$t/a^2$&#39;</span><span class="p">)</span>
</span><span id="fit_t0-56"><a href="#fit_t0-56"><span class="linenos">56</span></a>
</span><span id="fit_t0-57"><a href="#fit_t0-57"><span class="linenos">57</span></a> <span class="n">plt</span><span class="o">.</span><span class="n">draw</span><span class="p">()</span>
</span><span id="fit_t0-58"><a href="#fit_t0-58"><span class="linenos">58</span></a> <span class="k">return</span> <span class="o">-</span><span class="n">fit_result</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">/</span> <span class="n">fit_result</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span>
</span></pre></div>
</section>
<section id="read_pbp"> <section id="read_pbp">
<input id="read_pbp-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1"> <input id="read_pbp-view-source" class="view-source-toggle-state" type="checkbox" aria-hidden="true" tabindex="-1">
<div class="attr function"> <div class="attr function">
@ -218,125 +335,125 @@
</div> </div>
<a class="headerlink" href="#read_pbp"></a> <a class="headerlink" href="#read_pbp"></a>
<div class="pdoc-code codehilite"><pre><span></span><span id="read_pbp-10"><a href="#read_pbp-10"><span class="linenos"> 10</span></a><span class="k">def</span> <span class="nf">read_pbp</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="o">**</span><span class="n">kwargs</span><span class="p">):</span> <div class="pdoc-code codehilite"><pre><span></span><span id="read_pbp-61"><a href="#read_pbp-61"><span class="linenos"> 61</span></a><span class="k">def</span> <span class="nf">read_pbp</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="o">**</span><span class="n">kwargs</span><span class="p">):</span>
</span><span id="read_pbp-11"><a href="#read_pbp-11"><span class="linenos"> 11</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure.</span> </span><span id="read_pbp-62"><a href="#read_pbp-62"><span class="linenos"> 62</span></a><span class="w"> </span><span class="sd">&quot;&quot;&quot;Read pbp format from given folder structure.</span>
</span><span id="read_pbp-12"><a href="#read_pbp-12"><span class="linenos"> 12</span></a> </span><span id="read_pbp-63"><a href="#read_pbp-63"><span class="linenos"> 63</span></a>
</span><span id="read_pbp-13"><a href="#read_pbp-13"><span class="linenos"> 13</span></a><span class="sd"> Parameters</span> </span><span id="read_pbp-64"><a href="#read_pbp-64"><span class="linenos"> 64</span></a><span class="sd"> Parameters</span>
</span><span id="read_pbp-14"><a href="#read_pbp-14"><span class="linenos"> 14</span></a><span class="sd"> ----------</span> </span><span id="read_pbp-65"><a href="#read_pbp-65"><span class="linenos"> 65</span></a><span class="sd"> ----------</span>
</span><span id="read_pbp-15"><a href="#read_pbp-15"><span class="linenos"> 15</span></a><span class="sd"> r_start : list</span> </span><span id="read_pbp-66"><a href="#read_pbp-66"><span class="linenos"> 66</span></a><span class="sd"> r_start : list</span>
</span><span id="read_pbp-16"><a href="#read_pbp-16"><span class="linenos"> 16</span></a><span class="sd"> list which contains the first config to be read for each replicum</span> </span><span id="read_pbp-67"><a href="#read_pbp-67"><span class="linenos"> 67</span></a><span class="sd"> list which contains the first config to be read for each replicum</span>
</span><span id="read_pbp-17"><a href="#read_pbp-17"><span class="linenos"> 17</span></a><span class="sd"> r_stop : list</span> </span><span id="read_pbp-68"><a href="#read_pbp-68"><span class="linenos"> 68</span></a><span class="sd"> r_stop : list</span>
</span><span id="read_pbp-18"><a href="#read_pbp-18"><span class="linenos"> 18</span></a><span class="sd"> list which contains the last config to be read for each replicum</span> </span><span id="read_pbp-69"><a href="#read_pbp-69"><span class="linenos"> 69</span></a><span class="sd"> list which contains the last config to be read for each replicum</span>
</span><span id="read_pbp-19"><a href="#read_pbp-19"><span class="linenos"> 19</span></a>
</span><span id="read_pbp-20"><a href="#read_pbp-20"><span class="linenos"> 20</span></a><span class="sd"> Returns</span>
</span><span id="read_pbp-21"><a href="#read_pbp-21"><span class="linenos"> 21</span></a><span class="sd"> -------</span>
</span><span id="read_pbp-22"><a href="#read_pbp-22"><span class="linenos"> 22</span></a><span class="sd"> result : list[Obs]</span>
</span><span id="read_pbp-23"><a href="#read_pbp-23"><span class="linenos"> 23</span></a><span class="sd"> list of observables read</span>
</span><span id="read_pbp-24"><a href="#read_pbp-24"><span class="linenos"> 24</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="read_pbp-25"><a href="#read_pbp-25"><span class="linenos"> 25</span></a>
</span><span id="read_pbp-26"><a href="#read_pbp-26"><span class="linenos"> 26</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-27"><a href="#read_pbp-27"><span class="linenos"> 27</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="p">):</span>
</span><span id="read_pbp-28"><a href="#read_pbp-28"><span class="linenos"> 28</span></a> <span class="n">ls</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="read_pbp-29"><a href="#read_pbp-29"><span class="linenos"> 29</span></a> <span class="k">break</span>
</span><span id="read_pbp-30"><a href="#read_pbp-30"><span class="linenos"> 30</span></a>
</span><span id="read_pbp-31"><a href="#read_pbp-31"><span class="linenos"> 31</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="read_pbp-32"><a href="#read_pbp-32"><span class="linenos"> 32</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
</span><span id="read_pbp-33"><a href="#read_pbp-33"><span class="linenos"> 33</span></a>
</span><span id="read_pbp-34"><a href="#read_pbp-34"><span class="linenos"> 34</span></a> <span class="c1"># Exclude files with different names</span>
</span><span id="read_pbp-35"><a href="#read_pbp-35"><span class="linenos"> 35</span></a> <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="read_pbp-36"><a href="#read_pbp-36"><span class="linenos"> 36</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span>
</span><span id="read_pbp-37"><a href="#read_pbp-37"><span class="linenos"> 37</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
</span><span id="read_pbp-38"><a href="#read_pbp-38"><span class="linenos"> 38</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="read_pbp-39"><a href="#read_pbp-39"><span class="linenos"> 39</span></a> <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
</span><span id="read_pbp-40"><a href="#read_pbp-40"><span class="linenos"> 40</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_pbp-41"><a href="#read_pbp-41"><span class="linenos"> 41</span></a>
</span><span id="read_pbp-42"><a href="#read_pbp-42"><span class="linenos"> 42</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_pbp-43"><a href="#read_pbp-43"><span class="linenos"> 43</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_pbp-44"><a href="#read_pbp-44"><span class="linenos"> 44</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_pbp-45"><a href="#read_pbp-45"><span class="linenos"> 45</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_pbp-46"><a href="#read_pbp-46"><span class="linenos"> 46</span></a> <span class="c1"># Adjust Configuration numbering to python index</span>
</span><span id="read_pbp-47"><a href="#read_pbp-47"><span class="linenos"> 47</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</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_pbp-48"><a href="#read_pbp-48"><span class="linenos"> 48</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_pbp-49"><a href="#read_pbp-49"><span class="linenos"> 49</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_pbp-50"><a href="#read_pbp-50"><span class="linenos"> 50</span></a>
</span><span id="read_pbp-51"><a href="#read_pbp-51"><span class="linenos"> 51</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_pbp-52"><a href="#read_pbp-52"><span class="linenos"> 52</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_pbp-53"><a href="#read_pbp-53"><span class="linenos"> 53</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_pbp-54"><a href="#read_pbp-54"><span class="linenos"> 54</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_pbp-55"><a href="#read_pbp-55"><span class="linenos"> 55</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_pbp-56"><a href="#read_pbp-56"><span class="linenos"> 56</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_pbp-57"><a href="#read_pbp-57"><span class="linenos"> 57</span></a>
</span><span id="read_pbp-58"><a href="#read_pbp-58"><span class="linenos"> 58</span></a> <span class="nb">print</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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 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_pbp-59"><a href="#read_pbp-59"><span class="linenos"> 59</span></a>
</span><span id="read_pbp-60"><a href="#read_pbp-60"><span class="linenos"> 60</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
</span><span id="read_pbp-61"><a href="#read_pbp-61"><span class="linenos"> 61</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_pbp-62"><a href="#read_pbp-62"><span class="linenos"> 62</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="read_pbp-63"><a href="#read_pbp-63"><span class="linenos"> 63</span></a> <span class="nb">print</span><span class="p">()</span>
</span><span id="read_pbp-64"><a href="#read_pbp-64"><span class="linenos"> 64</span></a>
</span><span id="read_pbp-65"><a href="#read_pbp-65"><span class="linenos"> 65</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-66"><a href="#read_pbp-66"><span class="linenos"> 66</span></a>
</span><span id="read_pbp-67"><a href="#read_pbp-67"><span class="linenos"> 67</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_pbp-68"><a href="#read_pbp-68"><span class="linenos"> 68</span></a> <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-69"><a href="#read_pbp-69"><span class="linenos"> 69</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_pbp-70"><a href="#read_pbp-70"><span class="linenos"> 70</span></a> </span><span id="read_pbp-70"><a href="#read_pbp-70"><span class="linenos"> 70</span></a>
</span><span id="read_pbp-71"><a href="#read_pbp-71"><span class="linenos"> 71</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_pbp-71"><a href="#read_pbp-71"><span class="linenos"> 71</span></a><span class="sd"> Returns</span>
</span><span id="read_pbp-72"><a href="#read_pbp-72"><span class="linenos"> 72</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_pbp-72"><a href="#read_pbp-72"><span class="linenos"> 72</span></a><span class="sd"> -------</span>
</span><span id="read_pbp-73"><a href="#read_pbp-73"><span class="linenos"> 73</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_pbp-73"><a href="#read_pbp-73"><span class="linenos"> 73</span></a><span class="sd"> result : list[Obs]</span>
</span><span id="read_pbp-74"><a href="#read_pbp-74"><span class="linenos"> 74</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_pbp-74"><a href="#read_pbp-74"><span class="linenos"> 74</span></a><span class="sd"> list of observables read</span>
</span><span id="read_pbp-75"><a href="#read_pbp-75"><span class="linenos"> 75</span></a> <span class="n">deltas</span><span class="o">.</span><span class="n">append</span><span class="p">([])</span> </span><span id="read_pbp-75"><a href="#read_pbp-75"><span class="linenos"> 75</span></a><span class="sd"> &quot;&quot;&quot;</span>
</span><span id="read_pbp-76"><a href="#read_pbp-76"><span class="linenos"> 76</span></a> <span class="k">else</span><span class="p">:</span> </span><span id="read_pbp-76"><a href="#read_pbp-76"><span class="linenos"> 76</span></a>
</span><span id="read_pbp-77"><a href="#read_pbp-77"><span class="linenos"> 77</span></a> <span class="k">if</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><span id="read_pbp-77"><a href="#read_pbp-77"><span class="linenos"> 77</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-78"><a href="#read_pbp-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;Error: different number of factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span> </span><span id="read_pbp-78"><a href="#read_pbp-78"><span class="linenos"> 78</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="p">):</span>
</span><span id="read_pbp-79"><a href="#read_pbp-79"><span class="linenos"> 79</span></a> </span><span id="read_pbp-79"><a href="#read_pbp-79"><span class="linenos"> 79</span></a> <span class="n">ls</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="read_pbp-80"><a href="#read_pbp-80"><span class="linenos"> 80</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_pbp-80"><a href="#read_pbp-80"><span class="linenos"> 80</span></a> <span class="k">break</span>
</span><span id="read_pbp-81"><a href="#read_pbp-81"><span class="linenos"> 81</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_pbp-81"><a href="#read_pbp-81"><span class="linenos"> 81</span></a>
</span><span id="read_pbp-82"><a href="#read_pbp-82"><span class="linenos"> 82</span></a> </span><span id="read_pbp-82"><a href="#read_pbp-82"><span class="linenos"> 82</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="read_pbp-83"><a href="#read_pbp-83"><span class="linenos"> 83</span></a> <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span> </span><span id="read_pbp-83"><a href="#read_pbp-83"><span class="linenos"> 83</span></a> <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s1">&#39;Error, directory not found&#39;</span><span class="p">)</span>
</span><span id="read_pbp-84"><a href="#read_pbp-84"><span class="linenos"> 84</span></a> <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="read_pbp-84"><a href="#read_pbp-84"><span class="linenos"> 84</span></a>
</span><span id="read_pbp-85"><a href="#read_pbp-85"><span class="linenos"> 85</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_pbp-85"><a href="#read_pbp-85"><span class="linenos"> 85</span></a> <span class="c1"># Exclude files with different names</span>
</span><span id="read_pbp-86"><a href="#read_pbp-86"><span class="linenos"> 86</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_pbp-86"><a href="#read_pbp-86"><span class="linenos"> 86</span></a> <span class="k">for</span> <span class="n">exc</span> <span class="ow">in</span> <span class="n">ls</span><span class="p">:</span>
</span><span id="read_pbp-87"><a href="#read_pbp-87"><span class="linenos"> 87</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_pbp-87"><a href="#read_pbp-87"><span class="linenos"> 87</span></a> <span class="k">if</span> <span class="ow">not</span> <span class="n">fnmatch</span><span class="o">.</span><span class="n">fnmatch</span><span class="p">(</span><span class="n">exc</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.dat&#39;</span><span class="p">):</span>
</span><span id="read_pbp-88"><a href="#read_pbp-88"><span class="linenos"> 88</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span> <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span> </span><span id="read_pbp-88"><a href="#read_pbp-88"><span class="linenos"> 88</span></a> <span class="n">ls</span> <span class="o">=</span> <span class="nb">list</span><span class="p">(</span><span class="nb">set</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">-</span> <span class="nb">set</span><span class="p">([</span><span class="n">exc</span><span class="p">]))</span>
</span><span id="read_pbp-89"><a href="#read_pbp-89"><span class="linenos"> 89</span></a> </span><span id="read_pbp-89"><a href="#read_pbp-89"><span class="linenos"> 89</span></a> <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">ls</span><span class="p">)</span> <span class="o">&gt;</span> <span class="mi">1</span><span class="p">:</span>
</span><span id="read_pbp-90"><a href="#read_pbp-90"><span class="linenos"> 90</span></a> <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="read_pbp-90"><a href="#read_pbp-90"><span class="linenos"> 90</span></a> <span class="n">ls</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">key</span><span class="o">=</span><span class="k">lambda</span> <span class="n">x</span><span class="p">:</span> <span class="nb">int</span><span class="p">(</span><span class="n">re</span><span class="o">.</span><span class="n">findall</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;\d+&#39;</span><span class="p">,</span> <span class="n">x</span><span class="p">[</span><span class="nb">len</span><span class="p">(</span><span class="n">prefix</span><span class="p">):])[</span><span class="mi">0</span><span class="p">]))</span>
</span><span id="read_pbp-91"><a href="#read_pbp-91"><span class="linenos"> 91</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_pbp-91"><a href="#read_pbp-91"><span class="linenos"> 91</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_pbp-92"><a href="#read_pbp-92"><span class="linenos"> 92</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_pbp-92"><a href="#read_pbp-92"><span class="linenos"> 92</span></a>
</span><span id="read_pbp-93"><a href="#read_pbp-93"><span class="linenos"> 93</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_pbp-93"><a href="#read_pbp-93"><span class="linenos"> 93</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_pbp-94"><a href="#read_pbp-94"><span class="linenos"> 94</span></a> </span><span id="read_pbp-94"><a href="#read_pbp-94"><span class="linenos"> 94</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_pbp-95"><a href="#read_pbp-95"><span class="linenos"> 95</span></a> <span class="c1"># body</span> </span><span id="read_pbp-95"><a href="#read_pbp-95"><span class="linenos"> 95</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_pbp-96"><a href="#read_pbp-96"><span class="linenos"> 96</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span> </span><span id="read_pbp-96"><a href="#read_pbp-96"><span class="linenos"> 96</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_pbp-97"><a href="#read_pbp-97"><span class="linenos"> 97</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_pbp-97"><a href="#read_pbp-97"><span class="linenos"> 97</span></a> <span class="c1"># Adjust Configuration numbering to python index</span>
</span><span id="read_pbp-98"><a href="#read_pbp-98"><span class="linenos"> 98</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_pbp-98"><a href="#read_pbp-98"><span class="linenos"> 98</span></a> <span class="n">r_start</span> <span class="o">=</span> <span class="p">[</span><span class="n">o</span> <span class="o">-</span> <span class="mi">1</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_pbp-99"><a href="#read_pbp-99"><span class="linenos"> 99</span></a> <span class="k">break</span> </span><span id="read_pbp-99"><a href="#read_pbp-99"><span class="linenos"> 99</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_pbp-100"><a href="#read_pbp-100"><span class="linenos">100</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span> </span><span id="read_pbp-100"><a href="#read_pbp-100"><span class="linenos">100</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_pbp-101"><a href="#read_pbp-101"><span class="linenos">101</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><span id="read_pbp-101"><a href="#read_pbp-101"><span class="linenos">101</span></a>
</span><span id="read_pbp-102"><a href="#read_pbp-102"><span class="linenos">102</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_pbp-102"><a href="#read_pbp-102"><span class="linenos">102</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_pbp-103"><a href="#read_pbp-103"><span class="linenos">103</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span> </span><span id="read_pbp-103"><a href="#read_pbp-103"><span class="linenos">103</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_pbp-104"><a href="#read_pbp-104"><span class="linenos">104</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_pbp-104"><a href="#read_pbp-104"><span class="linenos">104</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_pbp-105"><a href="#read_pbp-105"><span class="linenos">105</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_pbp-105"><a href="#read_pbp-105"><span class="linenos">105</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_pbp-106"><a href="#read_pbp-106"><span class="linenos">106</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_pbp-106"><a href="#read_pbp-106"><span class="linenos">106</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_pbp-107"><a href="#read_pbp-107"><span class="linenos">107</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_pbp-107"><a href="#read_pbp-107"><span class="linenos">107</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_pbp-108"><a href="#read_pbp-108"><span class="linenos">108</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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span> </span><span id="read_pbp-108"><a href="#read_pbp-108"><span class="linenos">108</span></a>
</span><span id="read_pbp-109"><a href="#read_pbp-109"><span class="linenos">109</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span> </span><span id="read_pbp-109"><a href="#read_pbp-109"><span class="linenos">109</span></a> <span class="nb">print</span><span class="p">(</span><span class="sa">r</span><span class="s1">&#39;Read &lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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 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_pbp-110"><a href="#read_pbp-110"><span class="linenos">110</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 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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span> </span><span id="read_pbp-110"><a href="#read_pbp-110"><span class="linenos">110</span></a>
</span><span id="read_pbp-111"><a href="#read_pbp-111"><span class="linenos">111</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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span> </span><span id="read_pbp-111"><a href="#read_pbp-111"><span class="linenos">111</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">0</span>
</span><span id="read_pbp-112"><a href="#read_pbp-112"><span class="linenos">112</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_pbp-112"><a href="#read_pbp-112"><span class="linenos">112</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_pbp-113"><a href="#read_pbp-113"><span class="linenos">113</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_pbp-113"><a href="#read_pbp-113"><span class="linenos">113</span></a> <span class="n">print_err</span> <span class="o">=</span> <span class="mi">1</span>
</span><span id="read_pbp-114"><a href="#read_pbp-114"><span class="linenos">114</span></a> </span><span id="read_pbp-114"><a href="#read_pbp-114"><span class="linenos">114</span></a> <span class="nb">print</span><span class="p">()</span>
</span><span id="read_pbp-115"><a href="#read_pbp-115"><span class="linenos">115</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_pbp-115"><a href="#read_pbp-115"><span class="linenos">115</span></a>
</span><span id="read_pbp-116"><a href="#read_pbp-116"><span class="linenos">116</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</span><span class="p">[</span><span class="n">rep</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_pbp-116"><a href="#read_pbp-116"><span class="linenos">116</span></a> <span class="n">deltas</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-117"><a href="#read_pbp-117"><span class="linenos">117</span></a> </span><span id="read_pbp-117"><a href="#read_pbp-117"><span class="linenos">117</span></a>
</span><span id="read_pbp-118"><a href="#read_pbp-118"><span class="linenos">118</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="read_pbp-118"><a href="#read_pbp-118"><span class="linenos">118</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_pbp-119"><a href="#read_pbp-119"><span class="linenos">119</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_pbp-119"><a href="#read_pbp-119"><span class="linenos">119</span></a> <span class="n">tmp_array</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-120"><a href="#read_pbp-120"><span class="linenos">120</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="read_pbp-120"><a href="#read_pbp-120"><span class="linenos">120</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_pbp-121"><a href="#read_pbp-121"><span class="linenos">121</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_pbp-121"><a href="#read_pbp-121"><span class="linenos">121</span></a>
</span><span id="read_pbp-122"><a href="#read_pbp-122"><span class="linenos">122</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_pbp-122"><a href="#read_pbp-122"><span class="linenos">122</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_pbp-123"><a href="#read_pbp-123"><span class="linenos">123</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="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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_pbp-123"><a href="#read_pbp-123"><span class="linenos">123</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_pbp-124"><a href="#read_pbp-124"><span class="linenos">124</span></a> <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span> </span><span id="read_pbp-124"><a href="#read_pbp-124"><span class="linenos">124</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_pbp-125"><a href="#read_pbp-125"><span class="linenos">125</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_pbp-125"><a href="#read_pbp-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="read_pbp-126"><a href="#read_pbp-126"><span class="linenos">126</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><span id="read_pbp-126"><a href="#read_pbp-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="read_pbp-127"><a href="#read_pbp-127"><span class="linenos">127</span></a> </span><span id="read_pbp-127"><a href="#read_pbp-127"><span class="linenos">127</span></a> <span class="k">else</span><span class="p">:</span>
</span><span id="read_pbp-128"><a href="#read_pbp-128"><span class="linenos">128</span></a> <span class="k">return</span> <span class="n">result</span> </span><span id="read_pbp-128"><a href="#read_pbp-128"><span class="linenos">128</span></a> <span class="k">if</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><span id="read_pbp-129"><a href="#read_pbp-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 factors for replicum&#39;</span><span class="p">,</span> <span class="n">rep</span><span class="p">)</span>
</span><span id="read_pbp-130"><a href="#read_pbp-130"><span class="linenos">130</span></a>
</span><span id="read_pbp-131"><a href="#read_pbp-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="read_pbp-132"><a href="#read_pbp-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="read_pbp-133"><a href="#read_pbp-133"><span class="linenos">133</span></a>
</span><span id="read_pbp-134"><a href="#read_pbp-134"><span class="linenos">134</span></a> <span class="c1"># This block is necessary for openQCD1.6 ms1 files</span>
</span><span id="read_pbp-135"><a href="#read_pbp-135"><span class="linenos">135</span></a> <span class="n">nfct</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-136"><a href="#read_pbp-136"><span class="linenos">136</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_pbp-137"><a href="#read_pbp-137"><span class="linenos">137</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_pbp-138"><a href="#read_pbp-138"><span class="linenos">138</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_pbp-139"><a href="#read_pbp-139"><span class="linenos">139</span></a> <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;nfct: &#39;</span><span class="p">,</span> <span class="n">nfct</span><span class="p">)</span> <span class="c1"># Hasenbusch factor, 1 for rat reweighting</span>
</span><span id="read_pbp-140"><a href="#read_pbp-140"><span class="linenos">140</span></a>
</span><span id="read_pbp-141"><a href="#read_pbp-141"><span class="linenos">141</span></a> <span class="n">nsrc</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-142"><a href="#read_pbp-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_pbp-143"><a href="#read_pbp-143"><span class="linenos">143</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_pbp-144"><a href="#read_pbp-144"><span class="linenos">144</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_pbp-145"><a href="#read_pbp-145"><span class="linenos">145</span></a>
</span><span id="read_pbp-146"><a href="#read_pbp-146"><span class="linenos">146</span></a> <span class="c1"># body</span>
</span><span id="read_pbp-147"><a href="#read_pbp-147"><span class="linenos">147</span></a> <span class="k">while</span> <span class="kc">True</span><span class="p">:</span>
</span><span id="read_pbp-148"><a href="#read_pbp-148"><span class="linenos">148</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_pbp-149"><a href="#read_pbp-149"><span class="linenos">149</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_pbp-150"><a href="#read_pbp-150"><span class="linenos">150</span></a> <span class="k">break</span>
</span><span id="read_pbp-151"><a href="#read_pbp-151"><span class="linenos">151</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="read_pbp-152"><a href="#read_pbp-152"><span class="linenos">152</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><span id="read_pbp-153"><a href="#read_pbp-153"><span class="linenos">153</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_pbp-154"><a href="#read_pbp-154"><span class="linenos">154</span></a> <span class="n">tmp_nfct</span> <span class="o">=</span> <span class="mf">1.0</span>
</span><span id="read_pbp-155"><a href="#read_pbp-155"><span class="linenos">155</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_pbp-156"><a href="#read_pbp-156"><span class="linenos">156</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_pbp-157"><a href="#read_pbp-157"><span class="linenos">157</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_pbp-158"><a href="#read_pbp-158"><span class="linenos">158</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_pbp-159"><a href="#read_pbp-159"><span class="linenos">159</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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
</span><span id="read_pbp-160"><a href="#read_pbp-160"><span class="linenos">160</span></a> <span class="k">if</span> <span class="n">print_err</span><span class="p">:</span>
</span><span id="read_pbp-161"><a href="#read_pbp-161"><span class="linenos">161</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 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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)),</span> <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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">)))</span>
</span><span id="read_pbp-162"><a href="#read_pbp-162"><span class="linenos">162</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">asarray</span><span class="p">(</span><span class="n">tmp_rw</span><span class="p">))</span>
</span><span id="read_pbp-163"><a href="#read_pbp-163"><span class="linenos">163</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_pbp-164"><a href="#read_pbp-164"><span class="linenos">164</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_pbp-165"><a href="#read_pbp-165"><span class="linenos">165</span></a>
</span><span id="read_pbp-166"><a href="#read_pbp-166"><span class="linenos">166</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_pbp-167"><a href="#read_pbp-167"><span class="linenos">167</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</span><span class="p">[</span><span class="n">rep</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_pbp-168"><a href="#read_pbp-168"><span class="linenos">168</span></a>
</span><span id="read_pbp-169"><a href="#read_pbp-169"><span class="linenos">169</span></a> <span class="n">rep_names</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-170"><a href="#read_pbp-170"><span class="linenos">170</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_pbp-171"><a href="#read_pbp-171"><span class="linenos">171</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="read_pbp-172"><a href="#read_pbp-172"><span class="linenos">172</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_pbp-173"><a href="#read_pbp-173"><span class="linenos">173</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_pbp-174"><a href="#read_pbp-174"><span class="linenos">174</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="sa">r</span><span class="s1">&#39;&lt;bar</span><span class="si">{psi}</span><span class="s1">\psi&gt; 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_pbp-175"><a href="#read_pbp-175"><span class="linenos">175</span></a> <span class="n">result</span> <span class="o">=</span> <span class="p">[]</span>
</span><span id="read_pbp-176"><a href="#read_pbp-176"><span class="linenos">176</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_pbp-177"><a href="#read_pbp-177"><span class="linenos">177</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><span id="read_pbp-178"><a href="#read_pbp-178"><span class="linenos">178</span></a>
</span><span id="read_pbp-179"><a href="#read_pbp-179"><span class="linenos">179</span></a> <span class="k">return</span> <span class="n">result</span>
</span></pre></div> </span></pre></div>

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docs/pyerrors/input/openQCD.html
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docs/pyerrors/input/pandas.html
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docs/pyerrors/input/sfcf.html
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docs/pyerrors/input/utils.html
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docs/pyerrors/obs.html
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docs/pyerrors/roots.html
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