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diff --git a/.buildinfo b/.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: 30babaf11b869ae8369a64cf303fb533
+# This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
+config: c320753c7de0fa79fedb27938badedf7
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/HTPolyNetPackage.html b/HTPolyNetPackage.html
diff --git a/_modules/HTPolyNet/ambertools.html b/_modules/HTPolyNet/ambertools.html
@@ -6,9 +6,10 @@
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-    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=12dfc556" />
+    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=686e5160" />
+    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=27fed22d" />
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-    <script src="../../_static/doctools.js?v=888ff710"></script>
+    <script src="../../_static/doctools.js?v=9bcbadda"></script>
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@@ -133,7 +134,7 @@ <h1>Source code for HTPolyNet.ambertools</h1><div class="highlight"><pre>
 
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-      <div class="sphinxsidebar" role="navigation" aria-label="main navigation">
+      <div class="sphinxsidebar" role="navigation" aria-label="Main">
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 <h1 class="logo"><a href="../../index.html">HTPolyNet</a></h1>
 
@@ -163,15 +164,15 @@ <h3>Related Topics</h3>
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@@ -181,8 +182,8 @@ <h3 id="searchlabel">Quick search</h3>
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-      &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>
 
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diff --git a/_modules/HTPolyNet/analyze.html b/_modules/HTPolyNet/analyze.html
@@ -6,9 +6,10 @@
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-    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=12dfc556" />
+    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=686e5160" />
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-    <script src="../../_static/doctools.js?v=888ff710"></script>
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@@ -321,7 +322,7 @@ <h1>Source code for HTPolyNet.analyze</h1><div class="highlight"><pre>
 
         </div>
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-      <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">HTPolyNet</a></h1>
 
@@ -351,15 +352,15 @@ <h3>Related Topics</h3>
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@@ -369,8 +370,8 @@ <h3 id="searchlabel">Quick search</h3>
       &#169;2024, Cameron Abrams, Ming Huang.
 
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-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.2.6</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>
 
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diff --git a/_modules/HTPolyNet/banner.html b/_modules/HTPolyNet/banner.html
@@ -6,9 +6,10 @@
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-    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=12dfc556" />
+    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=686e5160" />
+    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=27fed22d" />
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-    <script src="../../_static/doctools.js?v=888ff710"></script>
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@@ -72,7 +73,7 @@ <h1>Source code for HTPolyNet.banner</h1><div class="highlight"><pre>
 
         </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">HTPolyNet</a></h1>
 
@@ -102,15 +103,15 @@ <h3>Related Topics</h3>
   </ul></li>
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+<search id="searchbox" style="display: none" role="search">
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+</search>
 <script>document.getElementById('searchbox').style.display = "block"</script>
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@@ -120,8 +121,8 @@ <h3 id="searchlabel">Quick search</h3>
       &#169;2024, Cameron Abrams, Ming Huang.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.2.6</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>
 
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diff --git a/_modules/HTPolyNet/bondlist.html b/_modules/HTPolyNet/bondlist.html
@@ -6,9 +6,10 @@
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-    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=12dfc556" />
+    <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=0abd802e"></script>
-    <script src="../../_static/doctools.js?v=888ff710"></script>
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@@ -273,7 +274,7 @@ <h1>Source code for HTPolyNet.bondlist</h1><div class="highlight"><pre>
 
         </div>
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-      <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">HTPolyNet</a></h1>
 
@@ -303,15 +304,15 @@ <h3>Related Topics</h3>
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 <script>document.getElementById('searchbox').style.display = "block"</script>
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@@ -321,8 +322,8 @@ <h3 id="searchlabel">Quick search</h3>
       &#169;2024, Cameron Abrams, Ming Huang.
 
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-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.2.6</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>
 
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diff --git a/_modules/HTPolyNet/bondtemplate.html b/_modules/HTPolyNet/bondtemplate.html
@@ -6,9 +6,10 @@
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-    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=12dfc556" />
+    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=686e5160" />
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-    <script src="../../_static/doctools.js?v=888ff710"></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" />
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@@ -162,7 +163,7 @@ <h1>Source code for HTPolyNet.bondtemplate</h1><div class="highlight"><pre>
 
         </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">HTPolyNet</a></h1>
 
@@ -192,15 +193,15 @@ <h3>Related Topics</h3>
   </ul></li>
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 <script>document.getElementById('searchbox').style.display = "block"</script>
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@@ -210,8 +211,8 @@ <h3 id="searchlabel">Quick search</h3>
       &#169;2024, Cameron Abrams, Ming Huang.
 
       |
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-      &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>
 
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diff --git a/_modules/HTPolyNet/checkpoint.html b/_modules/HTPolyNet/checkpoint.html
@@ -6,9 +6,10 @@
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-    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=12dfc556" />
+    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=686e5160" />
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@@ -139,7 +140,7 @@ <h1>Source code for HTPolyNet.checkpoint</h1><div class="highlight"><pre>
 
         </div>
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-      <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">HTPolyNet</a></h1>
 
@@ -169,15 +170,15 @@ <h3>Related Topics</h3>
   </ul></li>
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 <script>document.getElementById('searchbox').style.display = "block"</script>
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@@ -187,8 +188,8 @@ <h3 id="searchlabel">Quick search</h3>
       &#169;2024, Cameron Abrams, Ming Huang.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.2.6</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>
 
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diff --git a/_modules/HTPolyNet/command.html b/_modules/HTPolyNet/command.html
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-    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=12dfc556" />
+    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=686e5160" />
+    <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=27fed22d" />
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+    <script src="../../_static/doctools.js?v=9bcbadda"></script>
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@@ -84,7 +85,7 @@ <h1>Source code for HTPolyNet.command</h1><div class="highlight"><pre>
 
         </div>
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-      <div class="sphinxsidebar" role="navigation" aria-label="main navigation">
+      <div class="sphinxsidebar" role="navigation" aria-label="Main">
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 <h1 class="logo"><a href="../../index.html">HTPolyNet</a></h1>
 
@@ -114,15 +115,15 @@ <h3>Related Topics</h3>
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       &#169;2024, Cameron Abrams, Ming Huang.
 
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-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 7.2.6</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>
 
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