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compgenomicslab · Oct 15, 2024 · e5614c3 · e5614c3
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diff --git a/docs/build/doctrees/documentations.doctree b/docs/build/doctrees/documentations.doctree
diff --git a/docs/build/doctrees/environment.pickle b/docs/build/doctrees/environment.pickle
diff --git a/docs/build/doctrees/index.doctree b/docs/build/doctrees/index.doctree
diff --git a/docs/build/html/.buildinfo b/docs/build/html/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
-# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 71c3667afe7096ee3bfc9c1417ac3e30
+# This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
+config: bb4c2dfbf28a34bc9897b378d59a51d7
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/docs/build/html/_sources/documentations.rst.txt b/docs/build/html/_sources/documentations.rst.txt
diff --git a/docs/build/html/documentations.html b/docs/build/html/documentations.html
diff --git a/docs/build/html/genindex.html b/docs/build/html/genindex.html
@@ -5,15 +5,16 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>Index &#8212; treeprofiler [1.2.2-beta] documentation</title>
-    <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="_static/alabaster.css?v=12dfc556" />
-    <script src="_static/documentation_options.js?v=fbc843e6"></script>
-    <script src="_static/doctools.js?v=9a2dae69"></script>
-    <script src="_static/sphinx_highlight.js?v=dc90522c"></script>
+    <link rel="stylesheet" type="text/css" href="static/pygments.css?v=d1102ebc" />
+    <link rel="stylesheet" type="text/css" href="static/basic.css?v=686e5160" />
+    <link rel="stylesheet" type="text/css" href="static/alabaster.css?v=27fed22d" />
+    <script src="static/documentation_options.js?v=fbc843e6"></script>
+    <script src="static/doctools.js?v=9bcbadda"></script>
+    <script src="static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="#" />
     <link rel="search" title="Search" href="search.html" />
 
-  <link rel="stylesheet" href="_static/custom.css" type="text/css" />
+  <link rel="stylesheet" href="static/custom.css" type="text/css" />
 
 
 
@@ -41,7 +42,7 @@ <h1 id="index">Index</h1>
 
         </div>
       </div>
-      <div class="sphinxsidebar" role="navigation" aria-label="main navigation">
+      <div class="sphinxsidebar" role="navigation" aria-label="Main">
         <div class="sphinxsidebarwrapper">
 <h1 class="logo"><a href="index.html">treeprofiler</a></h1>
 
@@ -52,7 +53,16 @@ <h1 class="logo"><a href="index.html">treeprofiler</a></h1>
 
 
 
-<h3>Navigation</h3>
+
+<search id="searchbox" style="display: none" role="search">
+    <div class="searchformwrapper">
+    <form class="search" action="search.html" method="get">
+      <input type="text" name="q" aria-labelledby="searchlabel" autocomplete="off" autocorrect="off" autocapitalize="off" spellcheck="false" placeholder="Search"/>
+      <input type="submit" value="Go" />
+    </form>
+    </div>
+</search>
+<script>document.getElementById('searchbox').style.display = "block"</script><h3>Navigation</h3>
 <p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
 <ul>
 <li class="toctree-l1"><a class="reference internal" href="documentations.html">TreeProfiler Tutorial</a></li>
@@ -69,16 +79,6 @@ <h3>Related Topics</h3>
   </ul></li>
 </ul>
 </div>
-<search id="searchbox" style="display: none" role="search">
-  <h3 id="searchlabel">Quick search</h3>
-    <div class="searchformwrapper">
-    <form class="search" action="search.html" method="get">
-      <input type="text" name="q" aria-labelledby="searchlabel" autocomplete="off" autocorrect="off" autocapitalize="off" spellcheck="false"/>
-      <input type="submit" value="Go" />
-    </form>
-    </div>
-</search>
-<script>document.getElementById('searchbox').style.display = "block"</script>
 
 
 
@@ -95,8 +95,8 @@ <h3 id="searchlabel">Quick search</h3>
       &#169;2024, Ziqi Deng & Jaime Huerta-Cepas.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.3.7</a>
-      &amp; <a href="https://alabaster.readthedocs.io">Alabaster 0.7.16</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
+      &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>
 

diff --git a/docs/build/html/index.html b/docs/build/html/index.html
@@ -6,16 +6,17 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
     <title>Welcome to treeprofiler’s documentation! &#8212; treeprofiler [1.2.2-beta] documentation</title>
-    <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="_static/alabaster.css?v=12dfc556" />
-    <script src="_static/documentation_options.js?v=fbc843e6"></script>
-    <script src="_static/doctools.js?v=9a2dae69"></script>
-    <script src="_static/sphinx_highlight.js?v=dc90522c"></script>
+    <link rel="stylesheet" type="text/css" href="static/pygments.css?v=d1102ebc" />
+    <link rel="stylesheet" type="text/css" href="static/basic.css?v=686e5160" />
+    <link rel="stylesheet" type="text/css" href="static/alabaster.css?v=27fed22d" />
+    <script src="static/documentation_options.js?v=fbc843e6"></script>
+    <script src="static/doctools.js?v=9bcbadda"></script>
+    <script src="static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="genindex.html" />
     <link rel="search" title="Search" href="search.html" />
     <link rel="next" title="TreeProfiler Tutorial" href="documentations.html" />
 
-  <link rel="stylesheet" href="_static/custom.css" type="text/css" />
+  <link rel="stylesheet" href="static/custom.css" type="text/css" />
 
 
 
@@ -107,7 +108,7 @@ <h1>Indices and tables<a class="headerlink" href="#indices-and-tables" title="Li
 
         </div>
       </div>
-      <div class="sphinxsidebar" role="navigation" aria-label="main navigation">
+      <div class="sphinxsidebar" role="navigation" aria-label="Main">
         <div class="sphinxsidebarwrapper">
 <h1 class="logo"><a href="#">treeprofiler</a></h1>
 
@@ -118,7 +119,16 @@ <h1 class="logo"><a href="#">treeprofiler</a></h1>
 
 
 
-<h3>Navigation</h3>
+
+<search id="searchbox" style="display: none" role="search">
+    <div class="searchformwrapper">
+    <form class="search" action="search.html" method="get">
+      <input type="text" name="q" aria-labelledby="searchlabel" autocomplete="off" autocorrect="off" autocapitalize="off" spellcheck="false" placeholder="Search"/>
+      <input type="submit" value="Go" />
+    </form>
+    </div>
+</search>
+<script>document.getElementById('searchbox').style.display = "block"</script><h3>Navigation</h3>
 <p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
 <ul>
 <li class="toctree-l1"><a class="reference internal" href="documentations.html">TreeProfiler Tutorial</a></li>
@@ -136,16 +146,6 @@ <h3>Related Topics</h3>
   </ul></li>
 </ul>
 </div>
-<search id="searchbox" style="display: none" role="search">
-  <h3 id="searchlabel">Quick search</h3>
-    <div class="searchformwrapper">
-    <form class="search" action="search.html" method="get">
-      <input type="text" name="q" aria-labelledby="searchlabel" autocomplete="off" autocorrect="off" autocapitalize="off" spellcheck="false"/>
-      <input type="submit" value="Go" />
-    </form>
-    </div>
-</search>
-<script>document.getElementById('searchbox').style.display = "block"</script>
 
 
 
@@ -162,8 +162,8 @@ <h3 id="searchlabel">Quick search</h3>
       &#169;2024, Ziqi Deng & Jaime Huerta-Cepas.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.3.7</a>
-      &amp; <a href="https://alabaster.readthedocs.io">Alabaster 0.7.16</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
+      &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
       |
       <a href="_sources/index.rst.txt"

diff --git a/docs/build/html/search.html b/docs/build/html/search.html
@@ -5,21 +5,22 @@
     <meta charset="utf-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>Search &#8212; treeprofiler [1.2.2-beta] documentation</title>
-    <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="_static/alabaster.css?v=12dfc556" />
+    <link rel="stylesheet" type="text/css" href="static/pygments.css?v=d1102ebc" />
+    <link rel="stylesheet" type="text/css" href="static/basic.css?v=686e5160" />
+    <link rel="stylesheet" type="text/css" href="static/alabaster.css?v=27fed22d" />
 
-    <script src="_static/documentation_options.js?v=fbc843e6"></script>
-    <script src="_static/doctools.js?v=9a2dae69"></script>
-    <script src="_static/sphinx_highlight.js?v=dc90522c"></script>
-    <script src="_static/searchtools.js"></script>
-    <script src="_static/language_data.js"></script>
+    <script src="static/documentation_options.js?v=fbc843e6"></script>
+    <script src="static/doctools.js?v=9bcbadda"></script>
+    <script src="static/sphinx_highlight.js?v=dc90522c"></script>
+    <script src="static/searchtools.js"></script>
+    <script src="static/language_data.js"></script>
     <link rel="index" title="Index" href="genindex.html" />
     <link rel="search" title="Search" href="#" />
     <script src="searchindex.js" defer="defer"></script>
     <meta name="robots" content="noindex" />
 
 
-  <link rel="stylesheet" href="_static/custom.css" type="text/css" />
+  <link rel="stylesheet" href="static/custom.css" type="text/css" />
 
 
 
@@ -68,7 +69,7 @@ <h1 id="search-documentation">Search</h1>
 
         </div>
       </div>
-      <div class="sphinxsidebar" role="navigation" aria-label="main navigation">
+      <div class="sphinxsidebar" role="navigation" aria-label="Main">
         <div class="sphinxsidebarwrapper">
 <h1 class="logo"><a href="index.html">treeprofiler</a></h1>
 
@@ -112,8 +113,8 @@ <h3>Related Topics</h3>
       &#169;2024, Ziqi Deng & Jaime Huerta-Cepas.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.3.7</a>
-      &amp; <a href="https://alabaster.readthedocs.io">Alabaster 0.7.16</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
+      &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>
 

diff --git a/docs/build/html/searchindex.js b/docs/build/html/searchindex.js