From d8cddce3efeb4a7c0e10afbe26d23048de27f6f0 Mon Sep 17 00:00:00 2001
From: ghutchis <ghutchis@users.noreply.github.com>
Date: Sat, 19 Oct 2024 18:28:50 +0000
Subject: [PATCH] deploy: 9d478723a3921af53a3eb16c6a5b9c830fe86134

---
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diff --git a/.doctrees/develop/rendering.doctree b/.doctrees/develop/rendering.doctree
index 5b37f76f94c3eec562d18fb28f1a56857181b074..119ef4bf21de2c4a78efc929c212dad86e1c59b1 100644
GIT binary patch
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diff --git a/.doctrees/environment.pickle b/.doctrees/environment.pickle
index 9e8bb573b360ab2db3cab5d76ff3c57c56fa5c02..c0d1ae1d5768abf145c8b8450d640f26a381ccc4 100644
GIT binary patch
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diff --git a/_sources/develop/classlist.md.txt b/_sources/develop/classlist.md.txt
index 6cd5abb6..fd6e50ea 100644
--- a/_sources/develop/classlist.md.txt
+++ b/_sources/develop/classlist.md.txt
@@ -1,9 +1,10 @@
 (develop-classlist)=
 
-# Class List
+# API Documentation
 
 ```{toctree}
 :glob: true
+:maxdepth: 1
 
 core
 io
diff --git a/_sources/develop/core.md.txt b/_sources/develop/core.md.txt
index bdc86beb..53b5da16 100644
--- a/_sources/develop/core.md.txt
+++ b/_sources/develop/core.md.txt
@@ -1,6 +1,6 @@
 (develop-core)=
 
-# Core Classes
+# Avogadro::Core
 
 ```{toctree}
 :glob: true
diff --git a/_sources/develop/io.md.txt b/_sources/develop/io.md.txt
index 80da2668..6f3cc1af 100644
--- a/_sources/develop/io.md.txt
+++ b/_sources/develop/io.md.txt
@@ -1,6 +1,6 @@
 (develop-io)=
 
-# IO Classes
+# Avogadro::IO
 
 The IO classes handle Avogadro's native file input/output. Beyond these
 classes, an Open Babel plugin loads translation via `obabel` command calls
diff --git a/_sources/develop/molequeue.md.txt b/_sources/develop/molequeue.md.txt
index 9a6e0166..f17ea980 100644
--- a/_sources/develop/molequeue.md.txt
+++ b/_sources/develop/molequeue.md.txt
@@ -1,11 +1,17 @@
 (develop-molequeue)=
 
-# MoleQueue Classes
+# Avogadro::MoleQueue
 
 MoleQueue classes handle interaction with the MoleQueue queue system
 for submitting calculations to programs and  opening completed output
 files.
 
+```{tip}
+While MoleQueue is not actively developed, some features of Avogadro
+are still handled by this code, including [RPC](develop-rpc) for
+scripting `avogadroapp` and handling scripts for input generator dialogs.
+```
+
 ```{toctree}
 :glob: true
 
diff --git a/_sources/develop/qtgui.md.txt b/_sources/develop/qtgui.md.txt
index ba260109..2466df1d 100644
--- a/_sources/develop/qtgui.md.txt
+++ b/_sources/develop/qtgui.md.txt
@@ -1,9 +1,12 @@
 (develop-qtgui)=
 
-# QtGui Classes
+# Avogadro::QtGui
 
-The QtGui classes handle basic operations with the GUI using Qt widgets and objects.
-Most of the gui is handled through plugins.
+The QtGui classes handle operations with the GUI using Qt widgets
+and objects. Most of the interface is handled through plugins.
+
+These classes provide individual widgets, dialogs, and interaction
+with plugin scripts, etc.
 
 ```{toctree}
 :glob: true
diff --git a/_sources/develop/rendering.md.txt b/_sources/develop/rendering.md.txt
index de31f915..d3b439da 100644
--- a/_sources/develop/rendering.md.txt
+++ b/_sources/develop/rendering.md.txt
@@ -1,6 +1,10 @@
 (develop-rendering)=
 
-# Rendering Classes
+# Avogadro::Rendering
+
+The rendering classes handle 3D graphics including various GLSL
+shader programs for spheres, cylinders (atoms and bonds),
+protein cartoons, meshes, orbitals, etc.
 
 ```{toctree}
 :glob: true
diff --git a/develop/build.html b/develop/build.html
index 99c7ba47..44b3f1a5 100644
--- a/develop/build.html
+++ b/develop/build.html
@@ -438,7 +438,7 @@
 <li class="toctree-l1 current active"><a class="current reference internal" href="#">Building Source Code</a></li>
 <li class="toctree-l1"><a class="reference internal" href="scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1"><a class="reference internal" href="rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/class/class_avogadro_1_1_core_1_1_array.html b/develop/class/class_avogadro_1_1_core_1_1_array.html
index cdba7647..3c119cb8 100644
--- a/develop/class/class_avogadro_1_1_core_1_1_array.html
+++ b/develop/class/class_avogadro_1_1_core_1_1_array.html
@@ -56,7 +56,7 @@
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
     <link rel="next" title="Class Avogadro::Core::ArraySet" href="class_avogadro_1_1_core_1_1_array_set.html" />
-    <link rel="prev" title="Core Classes" href="../core.html" />
+    <link rel="prev" title="Avogadro::Core" href="../core.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
   </head>
@@ -438,8 +438,8 @@
 <li class="toctree-l1"><a class="reference internal" href="../build.html">Building Source Code</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1 current active has-children"><a class="reference internal" href="../classlist.html">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
-<li class="toctree-l2 current active has-children"><a class="reference internal" href="../core.html">Core Classes</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l1 current active has-children"><a class="reference internal" href="../classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2 current active has-children"><a class="reference internal" href="../core.html">Avogadro::Core</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
 <li class="toctree-l3 current active"><a class="current reference internal" href="#">Class Avogadro::Core::Array</a></li>
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_core_1_1_array_set.html">Class Avogadro::Core::ArraySet</a></li>
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_core_1_1_array_set_1_1_holder.html">Class Avogadro::Core::ArraySet::Holder</a></li>
@@ -489,10 +489,10 @@
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html">Class Avogadro::TypeTraits&lt; unsigned short &gt;</a></li>
 </ul>
 </details></li>
-<li class="toctree-l2"><a class="reference internal" href="../io.html">IO Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../molequeue.html">MoleQueue Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../qtgui.html">QtGui Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../rendering.html">Rendering Classes</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../io.html">Avogadro::IO</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../rendering.html">Avogadro::Rendering</a></li>
 <li class="toctree-l2"><a class="reference internal" href="../vtk.html">VTK Classes</a></li>
 </ul>
 </details></li>
@@ -542,7 +542,7 @@
     <li class="breadcrumb-item"><i class="fa-solid fa-ellipsis"></i></li>
     
     
-    <li class="breadcrumb-item"><a href="../core.html" class="nav-link">Core Classes</a></li>
+    <li class="breadcrumb-item"><a href="../core.html" class="nav-link">Avogadro::Core</a></li>
     
     <li class="breadcrumb-item active" aria-current="page">Class...</li>
   </ul>
@@ -928,7 +928,7 @@ <h1>Class Avogadro::Core::Array<a class="headerlink" href="#class-avogadro-core-
       <i class="fa-solid fa-angle-left"></i>
       <div class="prev-next-info">
         <p class="prev-next-subtitle">previous</p>
-        <p class="prev-next-title">Core Classes</p>
+        <p class="prev-next-title">Avogadro::Core</p>
       </div>
     </a>
     <a class="right-next"
diff --git a/develop/class/class_avogadro_1_1_core_1_1_array_set.html b/develop/class/class_avogadro_1_1_core_1_1_array_set.html
index 29309da6..02f1690b 100644
--- a/develop/class/class_avogadro_1_1_core_1_1_array_set.html
+++ b/develop/class/class_avogadro_1_1_core_1_1_array_set.html
@@ -438,8 +438,8 @@
 <li class="toctree-l1"><a class="reference internal" href="../build.html">Building Source Code</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1 current active has-children"><a class="reference internal" href="../classlist.html">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
-<li class="toctree-l2 current active has-children"><a class="reference internal" href="../core.html">Core Classes</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l1 current active has-children"><a class="reference internal" href="../classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2 current active has-children"><a class="reference internal" href="../core.html">Avogadro::Core</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_core_1_1_array.html">Class Avogadro::Core::Array</a></li>
 <li class="toctree-l3 current active"><a class="current reference internal" href="#">Class Avogadro::Core::ArraySet</a></li>
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_core_1_1_array_set_1_1_holder.html">Class Avogadro::Core::ArraySet::Holder</a></li>
@@ -489,10 +489,10 @@
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html">Class Avogadro::TypeTraits&lt; unsigned short &gt;</a></li>
 </ul>
 </details></li>
-<li class="toctree-l2"><a class="reference internal" href="../io.html">IO Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../molequeue.html">MoleQueue Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../qtgui.html">QtGui Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../rendering.html">Rendering Classes</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../io.html">Avogadro::IO</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2"><a class="reference internal" href="../rendering.html">Avogadro::Rendering</a></li>
 <li class="toctree-l2"><a class="reference internal" href="../vtk.html">VTK Classes</a></li>
 </ul>
 </details></li>
@@ -542,7 +542,7 @@
     <li class="breadcrumb-item"><i class="fa-solid fa-ellipsis"></i></li>
     
     
-    <li class="breadcrumb-item"><a href="../core.html" class="nav-link">Core Classes</a></li>
+    <li class="breadcrumb-item"><a href="../core.html" class="nav-link">Avogadro::Core</a></li>
     
     <li class="breadcrumb-item active" aria-current="page">Class...</li>
   </ul>
diff --git a/develop/class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html b/develop/class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html
index 52c06359..1f8686f0 100644
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+++ b/develop/class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html
@@ -438,8 +438,8 @@
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 <li class="toctree-l1"><a class="reference internal" href="../scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1 current active has-children"><a class="reference internal" href="../classlist.html">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
-<li class="toctree-l2 current active has-children"><a class="reference internal" href="../core.html">Core Classes</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l1 current active has-children"><a class="reference internal" href="../classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2 current active has-children"><a class="reference internal" href="../core.html">Avogadro::Core</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_core_1_1_array.html">Class Avogadro::Core::Array</a></li>
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 <li class="toctree-l3 current active"><a class="current reference internal" href="#">Class Avogadro::Core::ArraySet::Holder</a></li>
@@ -489,10 +489,10 @@
 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html">Class Avogadro::TypeTraits&lt; unsigned short &gt;</a></li>
 </ul>
 </details></li>
-<li class="toctree-l2"><a class="reference internal" href="../io.html">IO Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../molequeue.html">MoleQueue Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../qtgui.html">QtGui Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="../rendering.html">Rendering Classes</a></li>
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 <li class="toctree-l3 current active"><a class="current reference internal" href="#">Class Avogadro::Rendering::AmbientOcclusionSphereGeometry</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html">Class Avogadro::Rendering::AmbientOcclusionSphereGeometry</a></li>
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 <li class="toctree-l3"><a class="reference internal" href="class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html">Class Avogadro::Rendering::AmbientOcclusionSphereGeometry</a></li>
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+    <title>API Documentation &#8212; Avogadro 1.99.0 documentation</title>
   
   
   
@@ -55,7 +55,7 @@
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     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
-    <link rel="next" title="Core Classes" href="core.html" />
+    <link rel="next" title="Avogadro::Core" href="core.html" />
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   <meta name="viewport" content="width=device-width, initial-scale=1"/>
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@@ -438,12 +438,12 @@
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 <li class="toctree-l1"><a class="reference internal" href="scripts/index.html">Script Plugins</a></li>
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-<li class="toctree-l1 current active has-children"><a class="current reference internal" href="#">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
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-<li class="toctree-l2"><a class="reference internal" href="rendering.html">Rendering Classes</a></li>
+<li class="toctree-l1 current active has-children"><a class="current reference internal" href="#">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
+<li class="toctree-l2"><a class="reference internal" href="core.html">Avogadro::Core</a></li>
+<li class="toctree-l2"><a class="reference internal" href="io.html">Avogadro::IO</a></li>
+<li class="toctree-l2"><a class="reference internal" href="molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2"><a class="reference internal" href="qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2"><a class="reference internal" href="rendering.html">Avogadro::Rendering</a></li>
 <li class="toctree-l2"><a class="reference internal" href="vtk.html">VTK Classes</a></li>
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@@ -487,7 +487,7 @@
     
     <li class="breadcrumb-item"><a href="index.html" class="nav-link">Develop</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">Class List</li>
+    <li class="breadcrumb-item active" aria-current="page">API Documentation</li>
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 </nav>
 </div>
@@ -504,3637 +504,16 @@
 <div id="searchbox"></div>
                 <article class="bd-article">
                   
-  <section class="tex2jax_ignore mathjax_ignore" id="class-list">
-<span id="develop-classlist"></span><h1>Class List<a class="headerlink" href="#class-list" title="Link to this heading">#</a></h1>
+  <section class="tex2jax_ignore mathjax_ignore" id="api-documentation">
+<span id="develop-classlist"></span><h1>API Documentation<a class="headerlink" href="#api-documentation" title="Link to this heading">#</a></h1>
 <div class="toctree-wrapper compound">
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-<li class="toctree-l1"><a class="reference internal" href="core.html">Core Classes</a><ul>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html">Class Avogadro::Core::Array</a><ul>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array14detachWithCopyEv"><code class="docutils literal notranslate"><span class="pre">Array::detachWithCopy()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array4dataEv"><code class="docutils literal notranslate"><span class="pre">Array::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array9constDataEv"><code class="docutils literal notranslate"><span class="pre">Array::constData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array4sizeEv"><code class="docutils literal notranslate"><span class="pre">Array::size()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array8max_sizeEv"><code class="docutils literal notranslate"><span class="pre">Array::max_size()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array8capacityEv"><code class="docutils literal notranslate"><span class="pre">Array::capacity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array7reserveERK6size_t"><code class="docutils literal notranslate"><span class="pre">Array::reserve()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array6resizeERK6size_tRK9ValueType"><code class="docutils literal notranslate"><span class="pre">Array::resize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array5clearEv"><code class="docutils literal notranslate"><span class="pre">Array::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array5beginEv"><code class="docutils literal notranslate"><span class="pre">Array::begin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array3endEv"><code class="docutils literal notranslate"><span class="pre">Array::end()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array5beginEv"><code class="docutils literal notranslate"><span class="pre">Array::begin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array3endEv"><code class="docutils literal notranslate"><span class="pre">Array::end()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array6rbeginEv"><code class="docutils literal notranslate"><span class="pre">Array::rbegin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array4rendEv"><code class="docutils literal notranslate"><span class="pre">Array::rend()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array6rbeginEv"><code class="docutils literal notranslate"><span class="pre">Array::rbegin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4N8Avogadro4Core5Array4rendEv"><code class="docutils literal notranslate"><span class="pre">Array::rend()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array5frontEv"><code class="docutils literal notranslate"><span class="pre">Array::front()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html#_CPPv4NK8Avogadro4Core5Array4backEv"><code class="docutils literal notranslate"><span class="pre">Array::back()</span></code></a></li>
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-</li>
-</ul>
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-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4N8Avogadro4Core8ArraySet6Holder6HolderERK9ValueType"><code class="docutils literal notranslate"><span class="pre">ArraySet::Holder::Holder()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4NK8Avogadro4Core8ArraySet6Holder4typeEv"><code class="docutils literal notranslate"><span class="pre">ArraySet::Holder::type()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4NK8Avogadro4Core8ArraySet6Holder5cloneEv"><code class="docutils literal notranslate"><span class="pre">ArraySet::Holder::clone()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4N8Avogadro4Core8ArraySet6Holder9m_contentE"><code class="docutils literal notranslate"><span class="pre">ArraySet::Holder::m_content</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4N8Avogadro4Core8ArraySet11PlaceHolderE"><code class="docutils literal notranslate"><span class="pre">ArraySet::PlaceHolder</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4N8Avogadro4Core8ArraySet11PlaceHolderD0Ev"><code class="docutils literal notranslate"><span class="pre">ArraySet::PlaceHolder::~PlaceHolder()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4NK8Avogadro4Core8ArraySet11PlaceHolder4typeEv"><code class="docutils literal notranslate"><span class="pre">ArraySet::PlaceHolder::type()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set.html#_CPPv4NK8Avogadro4Core8ArraySet11PlaceHolder5cloneEv"><code class="docutils literal notranslate"><span class="pre">ArraySet::PlaceHolder::clone()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html">Class Avogadro::Core::ArraySet::Holder</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html#_CPPv4I0EN8Avogadro4Core8ArraySet6HolderE"><code class="docutils literal notranslate"><span class="pre">Holder</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html#_CPPv4N8Avogadro4Core8ArraySet6Holder6HolderERK9ValueType"><code class="docutils literal notranslate"><span class="pre">Holder::Holder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html#_CPPv4NK8Avogadro4Core8ArraySet6Holder4typeEv"><code class="docutils literal notranslate"><span class="pre">Holder::type()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html#_CPPv4NK8Avogadro4Core8ArraySet6Holder5cloneEv"><code class="docutils literal notranslate"><span class="pre">Holder::clone()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_holder.html#_CPPv4N8Avogadro4Core8ArraySet6Holder9m_contentE"><code class="docutils literal notranslate"><span class="pre">Holder::m_content</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_place_holder.html">Class Avogadro::Core::ArraySet::PlaceHolder</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_place_holder.html#_CPPv4N8Avogadro4Core8ArraySet11PlaceHolderE"><code class="docutils literal notranslate"><span class="pre">PlaceHolder</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_place_holder.html#_CPPv4N8Avogadro4Core8ArraySet11PlaceHolderD0Ev"><code class="docutils literal notranslate"><span class="pre">PlaceHolder::~PlaceHolder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_place_holder.html#_CPPv4NK8Avogadro4Core8ArraySet11PlaceHolder4typeEv"><code class="docutils literal notranslate"><span class="pre">PlaceHolder::type()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array_set_1_1_place_holder.html#_CPPv4NK8Avogadro4Core8ArraySet11PlaceHolder5cloneEv"><code class="docutils literal notranslate"><span class="pre">PlaceHolder::clone()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom.html">Class Avogadro::Core::Atom</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom.html#_CPPv4N8Avogadro4Core4AtomE"><code class="docutils literal notranslate"><span class="pre">Atom</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom.html#_CPPv4N8Avogadro4Core4Atom4AtomEv"><code class="docutils literal notranslate"><span class="pre">Atom::Atom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom.html#_CPPv4N8Avogadro4Core4Atom4AtomEP8Molecule5Index"><code class="docutils literal notranslate"><span class="pre">Atom::Atom()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html">Class Avogadro::Core::AtomTemplate</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4I0EN8Avogadro4Core12AtomTemplateE"><code class="docutils literal notranslate"><span class="pre">AtomTemplate</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate15setAtomicNumberEh"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setAtomicNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate12atomicNumberEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::atomicNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate13setPosition2dERK7Vector2"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setPosition2d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate10position2dEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::position2d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate13setPosition3dERK7Vector3"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setPosition3d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate10position3dEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::position3d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate16setHybridizationE17AtomHybridization"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setHybridization()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate13hybridizationEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::hybridization()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate15setFormalChargeEa"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setFormalCharge()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate12formalChargeEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::formalCharge()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate8setColorE9Vector3ub"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate5colorEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::color()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate8setLayerE6size_t"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setLayer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate5layerEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::layer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::MoleculeType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate12AtomTemplateEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::AtomTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate12AtomTemplateEP12MoleculeType5Index"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::AtomTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplateeqERK12AtomTemplateI12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::operator==()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplateneERK12AtomTemplateI12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::operator!=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplateppEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::operator++()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplateppEi"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::operator++()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplatemmEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::operator--()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplatemmEi"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::operator--()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate7isValidEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate8moleculeEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate5indexEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::index()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate11setSelectedEb"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setSelected()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate8selectedEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::selected()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate14setForceVectorERK7Vector3"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setForceVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate11forceVectorEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::forceVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4N8Avogadro4Core12AtomTemplate8setLabelERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::setLabel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_template.html#_CPPv4NK8Avogadro4Core12AtomTemplate5labelEv"><code class="docutils literal notranslate"><span class="pre">AtomTemplate::label()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html">Class Avogadro::Core::AtomTyper</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4I0EN8Avogadro4Core9AtomTyperE"><code class="docutils literal notranslate"><span class="pre">AtomTyper</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper9ValueTypeE"><code class="docutils literal notranslate"><span class="pre">AtomTyper::ValueType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper9AtomTyperEPK8Molecule"><code class="docutils literal notranslate"><span class="pre">AtomTyper::AtomTyper()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyperD0Ev"><code class="docutils literal notranslate"><span class="pre">AtomTyper::~AtomTyper()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper11setMoleculeEPK8Molecule"><code class="docutils literal notranslate"><span class="pre">AtomTyper::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper3runEv"><code class="docutils literal notranslate"><span class="pre">AtomTyper::run()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper8atomTypeERK4Atom"><code class="docutils literal notranslate"><span class="pre">AtomTyper::atomType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4NK8Avogadro4Core9AtomTyper5typesEv"><code class="docutils literal notranslate"><span class="pre">AtomTyper::types()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper5resetEv"><code class="docutils literal notranslate"><span class="pre">AtomTyper::reset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper10initializeEv"><code class="docutils literal notranslate"><span class="pre">AtomTyper::initialize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper4typeERK4Atom"><code class="docutils literal notranslate"><span class="pre">AtomTyper::type()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper10m_moleculeE"><code class="docutils literal notranslate"><span class="pre">AtomTyper::m_molecule</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_atom_typer.html#_CPPv4N8Avogadro4Core9AtomTyper7m_typesE"><code class="docutils literal notranslate"><span class="pre">AtomTyper::m_types</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html">Class Avogadro::Core::AvoSpglib</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html#_CPPv4N8Avogadro4Core9AvoSpglibE"><code class="docutils literal notranslate"><span class="pre">AvoSpglib</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html#_CPPv4N8Avogadro4Core9AvoSpglib9AvoSpglibEv"><code class="docutils literal notranslate"><span class="pre">AvoSpglib::AvoSpglib()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html#_CPPv4N8Avogadro4Core9AvoSpglibD0Ev"><code class="docutils literal notranslate"><span class="pre">AvoSpglib::~AvoSpglib()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html#_CPPv4N8Avogadro4Core9AvoSpglib13getHallNumberER8Moleculed"><code class="docutils literal notranslate"><span class="pre">AvoSpglib::getHallNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html#_CPPv4N8Avogadro4Core9AvoSpglib17reduceToPrimitiveER8Moleculed"><code class="docutils literal notranslate"><span class="pre">AvoSpglib::reduceToPrimitive()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html#_CPPv4N8Avogadro4Core9AvoSpglib19conventionalizeCellER8Moleculed"><code class="docutils literal notranslate"><span class="pre">AvoSpglib::conventionalizeCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_avo_spglib.html#_CPPv4N8Avogadro4Core9AvoSpglib10symmetrizeER8Moleculed"><code class="docutils literal notranslate"><span class="pre">AvoSpglib::symmetrize()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html">Class Avogadro::Core::BasisSet</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSetE"><code class="docutils literal notranslate"><span class="pre">BasisSet</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet12ElectronTypeE"><code class="docutils literal notranslate"><span class="pre">BasisSet::ElectronType</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet12ElectronType6PairedE"><code class="docutils literal notranslate"><span class="pre">BasisSet::ElectronType::Paired</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet12ElectronType5AlphaE"><code class="docutils literal notranslate"><span class="pre">BasisSet::ElectronType::Alpha</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet12ElectronType4BetaE"><code class="docutils literal notranslate"><span class="pre">BasisSet::ElectronType::Beta</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet8BasisSetEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::BasisSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSetD0Ev"><code class="docutils literal notranslate"><span class="pre">BasisSet::~BasisSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4NK8Avogadro4Core8BasisSet5cloneEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::clone()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet16setElectronCountEj12ElectronType"><code class="docutils literal notranslate"><span class="pre">BasisSet::setElectronCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4NK8Avogadro4Core8BasisSet13electronCountE12ElectronType"><code class="docutils literal notranslate"><span class="pre">BasisSet::electronCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet11setMoleculeEP8Molecule"><code class="docutils literal notranslate"><span class="pre">BasisSet::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet8moleculeEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4NK8Avogadro4Core8BasisSet8moleculeEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet7setNameERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">BasisSet::setName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4NK8Avogadro4Core8BasisSet4nameEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet13setTheoryNameERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">BasisSet::setTheoryName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4NK8Avogadro4Core8BasisSet10theoryNameEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::theoryName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet21molecularOrbitalCountE12ElectronType"><code class="docutils literal notranslate"><span class="pre">BasisSet::molecularOrbitalCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet4homoEj"><code class="docutils literal notranslate"><span class="pre">BasisSet::homo()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4NK8Avogadro4Core8BasisSet4homoEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::homo()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet4lumoEj"><code class="docutils literal notranslate"><span class="pre">BasisSet::lumo()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4NK8Avogadro4Core8BasisSet4lumoEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::lumo()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet7isValidEv"><code class="docutils literal notranslate"><span class="pre">BasisSet::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet11m_electronsE"><code class="docutils literal notranslate"><span class="pre">BasisSet::m_electrons</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet10m_moleculeE"><code class="docutils literal notranslate"><span class="pre">BasisSet::m_molecule</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet6m_nameE"><code class="docutils literal notranslate"><span class="pre">BasisSet::m_name</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_basis_set.html#_CPPv4N8Avogadro4Core8BasisSet12m_theoryNameE"><code class="docutils literal notranslate"><span class="pre">BasisSet::m_theoryName</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond.html">Class Avogadro::Core::Bond</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond.html#_CPPv4N8Avogadro4Core4BondE"><code class="docutils literal notranslate"><span class="pre">Bond</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond.html#_CPPv4N8Avogadro4Core4Bond4BondEv"><code class="docutils literal notranslate"><span class="pre">Bond::Bond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond.html#_CPPv4N8Avogadro4Core4Bond4BondEP8Molecule5Index"><code class="docutils literal notranslate"><span class="pre">Bond::Bond()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html">Class Avogadro::Core::BondTemplate</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4I0EN8Avogadro4Core12BondTemplateE"><code class="docutils literal notranslate"><span class="pre">BondTemplate</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate5atom1Ev"><code class="docutils literal notranslate"><span class="pre">BondTemplate::atom1()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate5atom2Ev"><code class="docutils literal notranslate"><span class="pre">BondTemplate::atom2()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplate8setOrderEh"><code class="docutils literal notranslate"><span class="pre">BondTemplate::setOrder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate5orderEv"><code class="docutils literal notranslate"><span class="pre">BondTemplate::order()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplate12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">BondTemplate::MoleculeType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplate8AtomTypeE"><code class="docutils literal notranslate"><span class="pre">BondTemplate::AtomType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplate12BondTemplateEv"><code class="docutils literal notranslate"><span class="pre">BondTemplate::BondTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplate12BondTemplateEP12MoleculeType5Index"><code class="docutils literal notranslate"><span class="pre">BondTemplate::BondTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplateeqERK12BondTemplateI12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">BondTemplate::operator==()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplateneERK12BondTemplateI12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">BondTemplate::operator!=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplateppEv"><code class="docutils literal notranslate"><span class="pre">BondTemplate::operator++()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplateppEi"><code class="docutils literal notranslate"><span class="pre">BondTemplate::operator++()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplatemmEv"><code class="docutils literal notranslate"><span class="pre">BondTemplate::operator--()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4N8Avogadro4Core12BondTemplatemmEi"><code class="docutils literal notranslate"><span class="pre">BondTemplate::operator--()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate7isValidEv"><code class="docutils literal notranslate"><span class="pre">BondTemplate::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate8moleculeEv"><code class="docutils literal notranslate"><span class="pre">BondTemplate::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate5indexEv"><code class="docutils literal notranslate"><span class="pre">BondTemplate::index()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate12getOtherAtomE5Index"><code class="docutils literal notranslate"><span class="pre">BondTemplate::getOtherAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_bond_template.html#_CPPv4NK8Avogadro4Core12BondTemplate12getOtherAtomE8AtomType"><code class="docutils literal notranslate"><span class="pre">BondTemplate::getOtherAtom()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html">Class Avogadro::Core::Color3f</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4N8Avogadro4Core7Color3fE"><code class="docutils literal notranslate"><span class="pre">Color3f</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4N8Avogadro4Core7Color3f7Color3fEfff"><code class="docutils literal notranslate"><span class="pre">Color3f::Color3f()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4N8Avogadro4Core7Color3f7Color3fEiii"><code class="docutils literal notranslate"><span class="pre">Color3f::Color3f()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4N8Avogadro4Core7Color3f3setEfff"><code class="docutils literal notranslate"><span class="pre">Color3f::set()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4NK8Avogadro4Core7Color3f3redEv"><code class="docutils literal notranslate"><span class="pre">Color3f::red()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4NK8Avogadro4Core7Color3f5greenEv"><code class="docutils literal notranslate"><span class="pre">Color3f::green()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4NK8Avogadro4Core7Color3f4blueEv"><code class="docutils literal notranslate"><span class="pre">Color3f::blue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4N8Avogadro4Core7Color3f4dataEv"><code class="docutils literal notranslate"><span class="pre">Color3f::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4NK8Avogadro4Core7Color3f4dataEv"><code class="docutils literal notranslate"><span class="pre">Color3f::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_color3f.html#_CPPv4N8Avogadro4Core7Color3f6m_dataE"><code class="docutils literal notranslate"><span class="pre">Color3f::m_data</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html">Class Avogadro::Core::CoordinateBlockGenerator</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGeneratorE"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator12DistanceUnitE"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::DistanceUnit</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator12DistanceUnit8AngstromE"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::DistanceUnit::Angstrom</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator12DistanceUnit4BohrE"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::DistanceUnit::Bohr</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator15setDistanceUnitE12DistanceUnit"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::setDistanceUnit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4NK8Avogadro4Core24CoordinateBlockGenerator12distanceUnitEv"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::distanceUnit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator24CoordinateBlockGeneratorEv"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::CoordinateBlockGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator11setMoleculeEPK8Molecule"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4NK8Avogadro4Core24CoordinateBlockGenerator8moleculeEv"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator16setSpecificationERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::setSpecification()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4NK8Avogadro4Core24CoordinateBlockGenerator13specificationEv"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::specification()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_block_generator.html#_CPPv4N8Avogadro4Core24CoordinateBlockGenerator23generateCoordinateBlockEv"><code class="docutils literal notranslate"><span class="pre">CoordinateBlockGenerator::generateCoordinateBlock()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html">Class Avogadro::Core::CoordinateSet</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4I0EN8Avogadro4Core13CoordinateSetE"><code class="docutils literal notranslate"><span class="pre">CoordinateSet</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4N8Avogadro4Core13CoordinateSet13CoordinateSetEv"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::CoordinateSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4N8Avogadro4Core13CoordinateSetD0Ev"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::~CoordinateSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4N8Avogadro4Core13CoordinateSet6resizeE5Index"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::resize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4NK8Avogadro4Core13CoordinateSet4sizeEv"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::size()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4N8Avogadro4Core13CoordinateSet11coordinatesEv"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::coordinates()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4NK8Avogadro4Core13CoordinateSet11coordinatesEv"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::coordinates()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4NK8Avogadro4Core13CoordinateSetclE5Index"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::operator()()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4N8Avogadro4Core13CoordinateSetixE5Index"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::operator[]()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_coordinate_set.html#_CPPv4NK8Avogadro4Core13CoordinateSetixE5Index"><code class="docutils literal notranslate"><span class="pre">CoordinateSet::operator[]()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html">Class Avogadro::Core::CrystalTools</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalToolsE"><code class="docutils literal notranslate"><span class="pre">CrystalTools</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools6OptionE"><code class="docutils literal notranslate"><span class="pre">CrystalTools::Option</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools6Option4NoneE"><code class="docutils literal notranslate"><span class="pre">CrystalTools::Option::None</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools6Option14TransformAtomsE"><code class="docutils literal notranslate"><span class="pre">CrystalTools::Option::TransformAtoms</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools7OptionsE"><code class="docutils literal notranslate"><span class="pre">CrystalTools::Options</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools19wrapAtomsToUnitCellER8Molecule"><code class="docutils literal notranslate"><span class="pre">CrystalTools::wrapAtomsToUnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools27rotateToStandardOrientationER8Molecule7Options"><code class="docutils literal notranslate"><span class="pre">CrystalTools::rotateToStandardOrientation()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools9setVolumeER8Molecule4Real7Options"><code class="docutils literal notranslate"><span class="pre">CrystalTools::setVolume()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools12niggliReduceER8Molecule7Options"><code class="docutils literal notranslate"><span class="pre">CrystalTools::niggliReduce()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools15isNiggliReducedERK8Molecule"><code class="docutils literal notranslate"><span class="pre">CrystalTools::isNiggliReduced()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools14buildSupercellER8Moleculejjj"><code class="docutils literal notranslate"><span class="pre">CrystalTools::buildSupercell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools13setCellMatrixER8MoleculeRK7Matrix37Options"><code class="docutils literal notranslate"><span class="pre">CrystalTools::setCellMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools21fractionalCoordinatesERK8UnitCellRK5ArrayI7Vector3ER5ArrayI7Vector3E"><code class="docutils literal notranslate"><span class="pre">CrystalTools::fractionalCoordinates()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools21fractionalCoordinatesERK8MoleculeR5ArrayI7Vector3E"><code class="docutils literal notranslate"><span class="pre">CrystalTools::fractionalCoordinates()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_crystal_tools.html#_CPPv4N8Avogadro4Core12CrystalTools24setFractionalCoordinatesER8MoleculeRK5ArrayI7Vector3E"><code class="docutils literal notranslate"><span class="pre">CrystalTools::setFractionalCoordinates()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html">Class Avogadro::Core::Cube</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4CubeE"><code class="docutils literal notranslate"><span class="pre">Cube</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4TypeE"><code class="docutils literal notranslate"><span class="pre">Cube::Type</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type3VdWE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::VdW</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type17SolventAccessibleE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::SolventAccessible</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type15SolventExcludedE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::SolventExcluded</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type3ESPE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::ESP</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type15ElectronDensityE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::ElectronDensity</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type11SpinDensityE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::SpinDensity</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type2MOE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::MO</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type8FromFileE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::FromFile</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4Type4NoneE"><code class="docutils literal notranslate"><span class="pre">Cube::Type::None</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4CubeEv"><code class="docutils literal notranslate"><span class="pre">Cube::Cube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4CubeD0Ev"><code class="docutils literal notranslate"><span class="pre">Cube::~Cube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube3minEv"><code class="docutils literal notranslate"><span class="pre">Cube::min()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube3maxEv"><code class="docutils literal notranslate"><span class="pre">Cube::max()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube7spacingEv"><code class="docutils literal notranslate"><span class="pre">Cube::spacing()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube10dimensionsEv"><code class="docutils literal notranslate"><span class="pre">Cube::dimensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube9setLimitsERK7Vector3RK7Vector3RK8Vector3i"><code class="docutils literal notranslate"><span class="pre">Cube::setLimits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube9setLimitsERK7Vector3RK7Vector3f"><code class="docutils literal notranslate"><span class="pre">Cube::setLimits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube9setLimitsERK7Vector3RK8Vector3if"><code class="docutils literal notranslate"><span class="pre">Cube::setLimits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube9setLimitsERK7Vector3RK8Vector3iRK7Vector3"><code class="docutils literal notranslate"><span class="pre">Cube::setLimits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube9setLimitsERK4Cube"><code class="docutils literal notranslate"><span class="pre">Cube::setLimits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube9setLimitsERK8Moleculeff"><code class="docutils literal notranslate"><span class="pre">Cube::setLimits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4dataEv"><code class="docutils literal notranslate"><span class="pre">Cube::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube4dataEv"><code class="docutils literal notranslate"><span class="pre">Cube::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube7setDataERKNSt6vectorIfEE"><code class="docutils literal notranslate"><span class="pre">Cube::setData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube7addDataERKNSt6vectorIfEE"><code class="docutils literal notranslate"><span class="pre">Cube::addData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube12closestIndexERK7Vector3"><code class="docutils literal notranslate"><span class="pre">Cube::closestIndex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube11indexVectorERK7Vector3"><code class="docutils literal notranslate"><span class="pre">Cube::indexVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube8positionEj"><code class="docutils literal notranslate"><span class="pre">Cube::position()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube5valueEiii"><code class="docutils literal notranslate"><span class="pre">Cube::value()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube5valueERK8Vector3i"><code class="docutils literal notranslate"><span class="pre">Cube::value()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube6valuefERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Cube::valuef()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube5valueERK7Vector3"><code class="docutils literal notranslate"><span class="pre">Cube::value()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube8setValueEjjjf"><code class="docutils literal notranslate"><span class="pre">Cube::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube8setValueEjf"><code class="docutils literal notranslate"><span class="pre">Cube::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube4fillEf"><code class="docutils literal notranslate"><span class="pre">Cube::fill()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube10fillStripeEjjjjf"><code class="docutils literal notranslate"><span class="pre">Cube::fillStripe()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube8minValueEv"><code class="docutils literal notranslate"><span class="pre">Cube::minValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube8maxValueEv"><code class="docutils literal notranslate"><span class="pre">Cube::maxValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube7setNameERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Cube::setName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube4nameEv"><code class="docutils literal notranslate"><span class="pre">Cube::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube11setCubeTypeE4Type"><code class="docutils literal notranslate"><span class="pre">Cube::setCubeType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube8cubeTypeEv"><code class="docutils literal notranslate"><span class="pre">Cube::cubeType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4NK8Avogadro4Core4Cube4lockEv"><code class="docutils literal notranslate"><span class="pre">Cube::lock()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube6m_dataE"><code class="docutils literal notranslate"><span class="pre">Cube::m_data</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube5m_minE"><code class="docutils literal notranslate"><span class="pre">Cube::m_min</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube5m_maxE"><code class="docutils literal notranslate"><span class="pre">Cube::m_max</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube9m_spacingE"><code class="docutils literal notranslate"><span class="pre">Cube::m_spacing</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube8m_pointsE"><code class="docutils literal notranslate"><span class="pre">Cube::m_points</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube10m_minValueE"><code class="docutils literal notranslate"><span class="pre">Cube::m_minValue</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube10m_maxValueE"><code class="docutils literal notranslate"><span class="pre">Cube::m_maxValue</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube6m_nameE"><code class="docutils literal notranslate"><span class="pre">Cube::m_name</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube10m_cubeTypeE"><code class="docutils literal notranslate"><span class="pre">Cube::m_cubeType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_cube.html#_CPPv4N8Avogadro4Core4Cube6m_lockE"><code class="docutils literal notranslate"><span class="pre">Cube::m_lock</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html">Class Avogadro::Core::Elements</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8ElementsE"><code class="docutils literal notranslate"><span class="pre">Elements</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements8ElementsEv"><code class="docutils literal notranslate"><span class="pre">Elements::Elements()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8ElementsD0Ev"><code class="docutils literal notranslate"><span class="pre">Elements::~Elements()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements12elementCountEv"><code class="docutils literal notranslate"><span class="pre">Elements::elementCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements20atomicNumberFromNameERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Elements::atomicNumberFromName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements22atomicNumberFromSymbolERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Elements::atomicNumberFromSymbol()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements17guessAtomicNumberERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Elements::guessAtomicNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements4nameEh"><code class="docutils literal notranslate"><span class="pre">Elements::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements6symbolEh"><code class="docutils literal notranslate"><span class="pre">Elements::symbol()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements4massEh"><code class="docutils literal notranslate"><span class="pre">Elements::mass()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements9radiusVDWEh"><code class="docutils literal notranslate"><span class="pre">Elements::radiusVDW()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements14radiusCovalentEh"><code class="docutils literal notranslate"><span class="pre">Elements::radiusCovalent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements5colorEh"><code class="docutils literal notranslate"><span class="pre">Elements::color()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_elements.html#_CPPv4N8Avogadro4Core8Elements16valenceElectronsEh"><code class="docutils literal notranslate"><span class="pre">Elements::valenceElectrons()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html">Class Avogadro::Core::GaussianSet</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSetE"><code class="docutils literal notranslate"><span class="pre">GaussianSet</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbitalE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital1SE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::S</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital2SPE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::SP</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital1PE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::P</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital1DE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::D</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital2D5E"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::D5</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital1FE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::F</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital2F7E"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::F7</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital1GE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::G</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital2G9E"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::G9</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital1HE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::H</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital3H11E"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::H11</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital1IE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::I</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital3I13E"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::I13</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7orbital2UUE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::orbital::UU</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet11GaussianSetEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::GaussianSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSetD0Ev"><code class="docutils literal notranslate"><span class="pre">GaussianSet::~GaussianSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet5cloneEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::clone()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet8addBasisEj7orbital"><code class="docutils literal notranslate"><span class="pre">GaussianSet::addBasis()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet6addGtoEjdd"><code class="docutils literal notranslate"><span class="pre">GaussianSet::addGto()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet20setMolecularOrbitalsERKNSt6vectorIdEE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setMolecularOrbitals()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet20setMolecularOrbitalsERKNSt6vectorIdEE12ElectronType5Index"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setMolecularOrbitals()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet8setCountEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet16setActiveSetStepEi"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setActiveSetStep()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet25setMolecularOrbitalEnergyERKNSt6vectorIdEE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setMolecularOrbitalEnergy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet28setMolecularOrbitalOccupancyERKNSt6vectorIhEE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setMolecularOrbitalOccupancy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet25setMolecularOrbitalNumberERKNSt6vectorIjEE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setMolecularOrbitalNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet16setDensityMatrixERK7MatrixX"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setDensityMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet20setSpinDensityMatrixERK7MatrixX"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setSpinDensityMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet21generateDensityMatrixEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::generateDensityMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet25generateSpinDensityMatrixEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::generateSpinDensityMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet21molecularOrbitalCountE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::molecularOrbitalCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet9outputAllE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::outputAll()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet7isValidEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet10setScfTypeE7ScfType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setScfType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet7scfTypeEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::scfType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet17setFunctionalNameERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">GaussianSet::setFunctionalName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet14functionalNameEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::functionalName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet15initCalculationEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::initCalculation()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet8symmetryEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::symmetry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet8symmetryEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::symmetry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet11atomIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::atomIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet11atomIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::atomIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet9moIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet9moIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet10gtoIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::gtoIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet10gtoIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::gtoIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet8cIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::cIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet8cIndicesEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::cIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet4gtoAEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::gtoA()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet4gtoAEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::gtoA()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet4gtoCEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::gtoC()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet4gtoCEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::gtoC()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet5gtoCNEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::gtoCN()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet8moMatrixE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet8moMatrixE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet8moEnergyE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moEnergy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet8moEnergyE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moEnergy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet11moOccupancyE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moOccupancy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet11moOccupancyE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moOccupancy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet8moNumberE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4NK8Avogadro4Core11GaussianSet8moNumberE12ElectronType"><code class="docutils literal notranslate"><span class="pre">GaussianSet::moNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet13densityMatrixEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::densityMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set.html#_CPPv4N8Avogadro4Core11GaussianSet17spinDensityMatrixEv"><code class="docutils literal notranslate"><span class="pre">GaussianSet::spinDensityMatrix()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html">Class Avogadro::Core::GaussianSetTools</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4N8Avogadro4Core16GaussianSetToolsE"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4N8Avogadro4Core16GaussianSetTools16GaussianSetToolsEP8Molecule"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::GaussianSetTools()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4N8Avogadro4Core16GaussianSetToolsD0Ev"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::~GaussianSetTools()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4N8Avogadro4Core16GaussianSetTools15setElectronTypeEN8BasisSet12ElectronTypeE"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::setElectronType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4NK8Avogadro4Core16GaussianSetTools25calculateMolecularOrbitalER4Cubei"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::calculateMolecularOrbital()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4NK8Avogadro4Core16GaussianSetTools25calculateMolecularOrbitalERK7Vector3i"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::calculateMolecularOrbital()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4NK8Avogadro4Core16GaussianSetTools24calculateElectronDensityER4Cube"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::calculateElectronDensity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4NK8Avogadro4Core16GaussianSetTools24calculateElectronDensityERK7Vector3"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::calculateElectronDensity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4NK8Avogadro4Core16GaussianSetTools20calculateSpinDensityER4Cube"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::calculateSpinDensity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4NK8Avogadro4Core16GaussianSetTools20calculateSpinDensityERK7Vector3"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::calculateSpinDensity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_gaussian_set_tools.html#_CPPv4NK8Avogadro4Core16GaussianSetTools7isValidEv"><code class="docutils literal notranslate"><span class="pre">GaussianSetTools::isValid()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html">Class Avogadro::Core::Graph</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5GraphE"><code class="docutils literal notranslate"><span class="pre">Graph</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph5GraphEv"><code class="docutils literal notranslate"><span class="pre">Graph::Graph()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph5GraphE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::Graph()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5GraphD0Ev"><code class="docutils literal notranslate"><span class="pre">Graph::~Graph()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph7setSizeE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::setSize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph4sizeEv"><code class="docutils literal notranslate"><span class="pre">Graph::size()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph7isEmptyEv"><code class="docutils literal notranslate"><span class="pre">Graph::isEmpty()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph5clearEv"><code class="docutils literal notranslate"><span class="pre">Graph::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph9addVertexEv"><code class="docutils literal notranslate"><span class="pre">Graph::addVertex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph12removeVertexE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::removeVertex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph17swapVertexIndicesE6size_t6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::swapVertexIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph11vertexCountEv"><code class="docutils literal notranslate"><span class="pre">Graph::vertexCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph7addEdgeE6size_t6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::addEdge()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph10removeEdgeE6size_t6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::removeEdge()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph10removeEdgeE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::removeEdge()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph11removeEdgesEv"><code class="docutils literal notranslate"><span class="pre">Graph::removeEdges()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph11removeEdgesE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::removeEdges()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph15editEdgeInPlaceE6size_t6size_t6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::editEdgeInPlace()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4N8Avogadro4Core5Graph15swapEdgeIndicesE6size_t6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::swapEdgeIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph9edgeCountEv"><code class="docutils literal notranslate"><span class="pre">Graph::edgeCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph9neighborsE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::neighbors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph5edgesE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::edges()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph9endpointsE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::endpoints()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph6degreeE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::degree()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph12containsEdgeE6size_t6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::containsEdge()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph9edgePairsEv"><code class="docutils literal notranslate"><span class="pre">Graph::edgePairs()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph19connectedComponentsEv"><code class="docutils literal notranslate"><span class="pre">Graph::connectedComponents()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph18connectedComponentE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::connectedComponent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph14subgraphsCountEv"><code class="docutils literal notranslate"><span class="pre">Graph::subgraphsCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph8subgraphE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::subgraph()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph13subgraphCountE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::subgraphCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_graph.html#_CPPv4NK8Avogadro4Core5Graph14getConnectedIDE6size_t"><code class="docutils literal notranslate"><span class="pre">Graph::getConnectedID()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html">Class Avogadro::Core::Mesh</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4MeshE"><code class="docutils literal notranslate"><span class="pre">Mesh</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh4MeshEv"><code class="docutils literal notranslate"><span class="pre">Mesh::Mesh()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh4MeshERK4Mesh"><code class="docutils literal notranslate"><span class="pre">Mesh::Mesh()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4MeshD0Ev"><code class="docutils literal notranslate"><span class="pre">Mesh::~Mesh()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh7reserveEjb"><code class="docutils literal notranslate"><span class="pre">Mesh::reserve()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh9setStableEb"><code class="docutils literal notranslate"><span class="pre">Mesh::setStable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh6stableEv"><code class="docutils literal notranslate"><span class="pre">Mesh::stable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh11setIsoValueEf"><code class="docutils literal notranslate"><span class="pre">Mesh::setIsoValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh8isoValueEv"><code class="docutils literal notranslate"><span class="pre">Mesh::isoValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh12setOtherMeshEj"><code class="docutils literal notranslate"><span class="pre">Mesh::setOtherMesh()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh9otherMeshEv"><code class="docutils literal notranslate"><span class="pre">Mesh::otherMesh()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh7setCubeEj"><code class="docutils literal notranslate"><span class="pre">Mesh::setCube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh4cubeEv"><code class="docutils literal notranslate"><span class="pre">Mesh::cube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh8verticesEv"><code class="docutils literal notranslate"><span class="pre">Mesh::vertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh11numVerticesEv"><code class="docutils literal notranslate"><span class="pre">Mesh::numVertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh6vertexEi"><code class="docutils literal notranslate"><span class="pre">Mesh::vertex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh11setVerticesERKN4Core5ArrayI8Vector3fEE"><code class="docutils literal notranslate"><span class="pre">Mesh::setVertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh11addVerticesERKN4Core5ArrayI8Vector3fEE"><code class="docutils literal notranslate"><span class="pre">Mesh::addVertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh7normalsEv"><code class="docutils literal notranslate"><span class="pre">Mesh::normals()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh10numNormalsEv"><code class="docutils literal notranslate"><span class="pre">Mesh::numNormals()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh6normalEi"><code class="docutils literal notranslate"><span class="pre">Mesh::normal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh10setNormalsERKN4Core5ArrayI8Vector3fEE"><code class="docutils literal notranslate"><span class="pre">Mesh::setNormals()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh10addNormalsERKN4Core5ArrayI8Vector3fEE"><code class="docutils literal notranslate"><span class="pre">Mesh::addNormals()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh6colorsEv"><code class="docutils literal notranslate"><span class="pre">Mesh::colors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh5colorEi"><code class="docutils literal notranslate"><span class="pre">Mesh::color()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh9setColorsERKN4Core5ArrayI7Color3fEE"><code class="docutils literal notranslate"><span class="pre">Mesh::setColors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh9addColorsERKN4Core5ArrayI7Color3fEE"><code class="docutils literal notranslate"><span class="pre">Mesh::addColors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh5validEv"><code class="docutils literal notranslate"><span class="pre">Mesh::valid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh5clearEv"><code class="docutils literal notranslate"><span class="pre">Mesh::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4MeshaSERK4Mesh"><code class="docutils literal notranslate"><span class="pre">Mesh::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh7setNameERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Mesh::setName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh4nameEv"><code class="docutils literal notranslate"><span class="pre">Mesh::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4NK8Avogadro4Core4Mesh4lockEv"><code class="docutils literal notranslate"><span class="pre">Mesh::lock()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mesh.html#_CPPv4N8Avogadro4Core4Mesh6smoothEi"><code class="docutils literal notranslate"><span class="pre">Mesh::smooth()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html">Class Avogadro::Core::Molecule</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">Molecule</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule16customElementMapEv"><code class="docutils literal notranslate"><span class="pre">Molecule::customElementMap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule19setCustomElementMapERK16CustomElementMap"><code class="docutils literal notranslate"><span class="pre">Molecule::setCustomElementMap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule7addBondE5Index5Indexh"><code class="docutils literal notranslate"><span class="pre">Molecule::addBond()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule10frozenAtomE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::frozenAtom()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule14frozenAtomMaskEv"><code class="docutils literal notranslate"><span class="pre">Molecule::frozenAtomMask()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule11compositionEv"><code class="docutils literal notranslate"><span class="pre">Molecule::composition()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule12getAtomBondsE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::getAtomBonds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule13getAtomOrdersE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::getAtomOrders()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule11removeBondsE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::removeBonds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule8addBondsERK5ArrayINSt4pairI5Index5IndexEEERK5ArrayIhE"><code class="docutils literal notranslate"><span class="pre">Molecule::addBonds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule8swapBondE5Index5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::swapBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule8swapAtomE5Index5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::swapAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule15getAtomsAtLayerE6size_t"><code class="docutils literal notranslate"><span class="pre">Molecule::getAtomsAtLayer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule5layerEv"><code class="docutils literal notranslate"><span class="pre">Molecule::layer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule5layerEv"><code class="docutils literal notranslate"><span class="pre">Molecule::layer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4NK8Avogadro4Core8Molecule11boundingBoxER7Vector3R7Vector3Kd"><code class="docutils literal notranslate"><span class="pre">Molecule::boundingBox()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule12bestFitPlaneERK5ArrayI7Vector3E"><code class="docutils literal notranslate"><span class="pre">Molecule::bestFitPlane()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule12makeBondPairERK5IndexRK5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::makeBondPair()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule6m_dataE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_data</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule16m_partialChargesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_partialCharges</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule9m_spectraE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_spectra</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule18m_customElementMapE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_customElementMap</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule10m_elementsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_elements</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule13m_positions2dE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_positions2d</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule13m_positions3dE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_positions3d</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule12m_atomLabelsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_atomLabels</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule12m_bondLabelsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_bondLabels</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule15m_coordinates3dE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_coordinates3d</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule11m_timestepsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_timesteps</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule16m_hybridizationsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_hybridizations</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule15m_formalChargesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_formalCharges</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule14m_forceVectorsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_forceVectors</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule8m_colorsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_colors</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule22m_vibrationFrequenciesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_vibrationFrequencies</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule24m_vibrationIRIntensitiesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_vibrationIRIntensities</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule27m_vibrationRamanIntensitiesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_vibrationRamanIntensities</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule13m_vibrationLxE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_vibrationLx</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule15m_selectedAtomsE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_selectedAtoms</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule8m_meshesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_meshes</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule7m_cubesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_cubes</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule10m_basisSetE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_basisSet</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule10m_unitCellE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_unitCell</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule10m_residuesE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_residues</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule12m_hallNumberE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_hallNumber</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule.html#_CPPv4N8Avogadro4Core8Molecule16m_frozenAtomMaskE"><code class="docutils literal notranslate"><span class="pre">Molecule::m_frozenAtomMask</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule_deserializer.html">Class Avogadro::Core::MoleculeDeserializer</a></li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_molecule_serializer.html">Class Avogadro::Core::MoleculeSerializer</a></li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mutex.html">Class Avogadro::Core::Mutex</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mutex.html#_CPPv4N8Avogadro4Core5MutexE"><code class="docutils literal notranslate"><span class="pre">Mutex</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mutex.html#_CPPv4N8Avogadro4Core5Mutex5MutexEv"><code class="docutils literal notranslate"><span class="pre">Mutex::Mutex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mutex.html#_CPPv4N8Avogadro4Core5MutexD0Ev"><code class="docutils literal notranslate"><span class="pre">Mutex::~Mutex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mutex.html#_CPPv4N8Avogadro4Core5Mutex4lockEv"><code class="docutils literal notranslate"><span class="pre">Mutex::lock()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mutex.html#_CPPv4N8Avogadro4Core5Mutex7tryLockEv"><code class="docutils literal notranslate"><span class="pre">Mutex::tryLock()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_mutex.html#_CPPv4N8Avogadro4Core5Mutex6unlockEv"><code class="docutils literal notranslate"><span class="pre">Mutex::unlock()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_name_atom_typer.html">Class Avogadro::Core::NameAtomTyper</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_name_atom_typer.html#_CPPv4N8Avogadro4Core13NameAtomTyperE"><code class="docutils literal notranslate"><span class="pre">NameAtomTyper</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_name_atom_typer.html#_CPPv4N8Avogadro4Core13NameAtomTyper13NameAtomTyperEPK8Molecule"><code class="docutils literal notranslate"><span class="pre">NameAtomTyper::NameAtomTyper()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_name_atom_typer.html#_CPPv4N8Avogadro4Core13NameAtomTyperD0Ev"><code class="docutils literal notranslate"><span class="pre">NameAtomTyper::~NameAtomTyper()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_name_atom_typer.html#_CPPv4N8Avogadro4Core13NameAtomTyper4typeERK4Atom"><code class="docutils literal notranslate"><span class="pre">NameAtomTyper::type()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html">Class Avogadro::Core::Residue</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7ResidueE"><code class="docutils literal notranslate"><span class="pre">Residue</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructureE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure7piHelixE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::piHelix</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure4bendE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::bend</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure10alphaHelixE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::alphaHelix</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure9betaSheetE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::betaSheet</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure8helix310E"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::helix310</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure10betaBridgeE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::betaBridge</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure4turnE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::turn</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure4coilE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::coil</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure9maybeBetaE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::maybeBeta</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue18SecondaryStructure9undefinedE"><code class="docutils literal notranslate"><span class="pre">Residue::SecondaryStructure::undefined</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue11AtomNameMapE"><code class="docutils literal notranslate"><span class="pre">Residue::AtomNameMap</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue7ResidueEv"><code class="docutils literal notranslate"><span class="pre">Residue::Residue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue7ResidueERNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Residue::Residue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue7ResidueERNSt6stringER5Index"><code class="docutils literal notranslate"><span class="pre">Residue::Residue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue7ResidueERNSt6stringER5IndexRc"><code class="docutils literal notranslate"><span class="pre">Residue::Residue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue7ResidueERK7Residue"><code class="docutils literal notranslate"><span class="pre">Residue::Residue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7ResidueaSE7Residue"><code class="docutils literal notranslate"><span class="pre">Residue::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7ResidueD0Ev"><code class="docutils literal notranslate"><span class="pre">Residue::~Residue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue11residueNameEv"><code class="docutils literal notranslate"><span class="pre">Residue::residueName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue14setResidueNameERNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Residue::setResidueName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue9residueIdEv"><code class="docutils literal notranslate"><span class="pre">Residue::residueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue12setResidueIdER5Index"><code class="docutils literal notranslate"><span class="pre">Residue::setResidueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue7chainIdEv"><code class="docutils literal notranslate"><span class="pre">Residue::chainId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue10setChainIdERKc"><code class="docutils literal notranslate"><span class="pre">Residue::setChainId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue18secondaryStructureEv"><code class="docutils literal notranslate"><span class="pre">Residue::secondaryStructure()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue21setSecondaryStructureERK18SecondaryStructure"><code class="docutils literal notranslate"><span class="pre">Residue::setSecondaryStructure()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue14addResidueAtomERKNSt6stringERK4Atom"><code class="docutils literal notranslate"><span class="pre">Residue::addResidueAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue12residueAtomsEv"><code class="docutils literal notranslate"><span class="pre">Residue::residueAtoms()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue11atomNameMapEv"><code class="docutils literal notranslate"><span class="pre">Residue::atomNameMap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue19resolveResidueBondsER8Molecule"><code class="docutils literal notranslate"><span class="pre">Residue::resolveResidueBonds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue13getAtomByNameENSt6stringE"><code class="docutils literal notranslate"><span class="pre">Residue::getAtomByName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue15getAtomicNumberENSt6stringE"><code class="docutils literal notranslate"><span class="pre">Residue::getAtomicNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue11getAtomNameEK4Atom"><code class="docutils literal notranslate"><span class="pre">Residue::getAtomName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue11getAtomNameEK5Index"><code class="docutils literal notranslate"><span class="pre">Residue::getAtomName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue14hasAtomByIndexE5Index"><code class="docutils literal notranslate"><span class="pre">Residue::hasAtomByIndex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue12setHeterogenEb"><code class="docutils literal notranslate"><span class="pre">Residue::setHeterogen()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue11isHeterogenEv"><code class="docutils literal notranslate"><span class="pre">Residue::isHeterogen()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue8setColorEK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">Residue::setColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4NK8Avogadro4Core7Residue5colorEv"><code class="docutils literal notranslate"><span class="pre">Residue::color()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue13m_residueNameE"><code class="docutils literal notranslate"><span class="pre">Residue::m_residueName</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue11m_residueIdE"><code class="docutils literal notranslate"><span class="pre">Residue::m_residueId</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue9m_chainIdE"><code class="docutils literal notranslate"><span class="pre">Residue::m_chainId</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue13m_atomNameMapE"><code class="docutils literal notranslate"><span class="pre">Residue::m_atomNameMap</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue11m_heterogenE"><code class="docutils literal notranslate"><span class="pre">Residue::m_heterogen</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue7m_colorE"><code class="docutils literal notranslate"><span class="pre">Residue::m_color</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue16m_customColorSetE"><code class="docutils literal notranslate"><span class="pre">Residue::m_customColorSet</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue.html#_CPPv4N8Avogadro4Core7Residue20m_secondaryStructureE"><code class="docutils literal notranslate"><span class="pre">Residue::m_secondaryStructure</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html">Class Avogadro::Core::ResidueData</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueDataE"><code class="docutils literal notranslate"><span class="pre">ResidueData</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueData11ResidueDataEv"><code class="docutils literal notranslate"><span class="pre">ResidueData::ResidueData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueData11ResidueDataENSt6stringENSt3mapINSt6stringEiEENSt6vectorINSt4pairINSt6stringENSt6stringEEEEENSt6vectorINSt4pairINSt6stringENSt6stringEEEEE"><code class="docutils literal notranslate"><span class="pre">ResidueData::ResidueData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueData11ResidueDataERK11ResidueData"><code class="docutils literal notranslate"><span class="pre">ResidueData::ResidueData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueDataaSE11ResidueData"><code class="docutils literal notranslate"><span class="pre">ResidueData::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueData12residueAtomsEv"><code class="docutils literal notranslate"><span class="pre">ResidueData::residueAtoms()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueData18residueSingleBondsEv"><code class="docutils literal notranslate"><span class="pre">ResidueData::residueSingleBonds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_residue_data.html#_CPPv4N8Avogadro4Core11ResidueData18residueDoubleBondsEv"><code class="docutils literal notranslate"><span class="pre">ResidueData::residueDoubleBonds()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_ring_perceiver.html">Class Avogadro::Core::RingPerceiver</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_ring_perceiver.html#_CPPv4N8Avogadro4Core13RingPerceiverE"><code class="docutils literal notranslate"><span class="pre">RingPerceiver</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_ring_perceiver.html#_CPPv4N8Avogadro4Core13RingPerceiver13RingPerceiverEPK8Molecule"><code class="docutils literal notranslate"><span class="pre">RingPerceiver::RingPerceiver()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_ring_perceiver.html#_CPPv4N8Avogadro4Core13RingPerceiverD0Ev"><code class="docutils literal notranslate"><span class="pre">RingPerceiver::~RingPerceiver()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_ring_perceiver.html#_CPPv4N8Avogadro4Core13RingPerceiver11setMoleculeEPK8Molecule"><code class="docutils literal notranslate"><span class="pre">RingPerceiver::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_ring_perceiver.html#_CPPv4NK8Avogadro4Core13RingPerceiver8moleculeEv"><code class="docutils literal notranslate"><span class="pre">RingPerceiver::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_ring_perceiver.html#_CPPv4N8Avogadro4Core13RingPerceiver5ringsEv"><code class="docutils literal notranslate"><span class="pre">RingPerceiver::rings()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html">Class Avogadro::Core::SharedMutex</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutexE"><code class="docutils literal notranslate"><span class="pre">SharedMutex</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutex11SharedMutexEv"><code class="docutils literal notranslate"><span class="pre">SharedMutex::SharedMutex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutexD0Ev"><code class="docutils literal notranslate"><span class="pre">SharedMutex::~SharedMutex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutex11lockForReadEv"><code class="docutils literal notranslate"><span class="pre">SharedMutex::lockForRead()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutex14tryLockForReadEv"><code class="docutils literal notranslate"><span class="pre">SharedMutex::tryLockForRead()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutex13unlockForReadEv"><code class="docutils literal notranslate"><span class="pre">SharedMutex::unlockForRead()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutex12lockForWriteEv"><code class="docutils literal notranslate"><span class="pre">SharedMutex::lockForWrite()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutex15tryLockForWriteEv"><code class="docutils literal notranslate"><span class="pre">SharedMutex::tryLockForWrite()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_shared_mutex.html#_CPPv4N8Avogadro4Core11SharedMutex14unlockForWriteEv"><code class="docutils literal notranslate"><span class="pre">SharedMutex::unlockForWrite()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html">Class Avogadro::Core::SlaterSet</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSetE"><code class="docutils literal notranslate"><span class="pre">SlaterSet</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slaterE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater1SE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::S</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2PXE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::PX</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2PYE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::PY</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2PZE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::PZ</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2X2E"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::X2</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2XZE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::XZ</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2Z2E"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::Z2</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2YZE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::YZ</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2XYE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::XY</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet6slater2UUE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slater::UU</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet9SlaterSetEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::SlaterSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSetD0Ev"><code class="docutils literal notranslate"><span class="pre">SlaterSet::~SlaterSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4NK8Avogadro4Core9SlaterSet5cloneEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::clone()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet16addSlaterIndicesERKNSt6vectorIiEE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::addSlaterIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet14addSlaterTypesERKNSt6vectorIiEE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::addSlaterTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet8addZetasERKNSt6vectorIdEE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::addZetas()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet7addPQNsERKNSt6vectorIiEE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::addPQNs()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet16addOverlapMatrixERKN5Eigen8MatrixXdE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::addOverlapMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet15addEigenVectorsERKN5Eigen8MatrixXdE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::addEigenVectors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet16addDensityMatrixERKN5Eigen8MatrixXdE"><code class="docutils literal notranslate"><span class="pre">SlaterSet::addDensityMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet21molecularOrbitalCountE12ElectronType"><code class="docutils literal notranslate"><span class="pre">SlaterSet::molecularOrbitalCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet7isValidEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet15initCalculationEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::initCalculation()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet13slaterIndicesEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slaterIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet11slaterTypesEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::slaterTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet5zetasEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::zetas()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet7factorsEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::factors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet4PQNsEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::PQNs()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet16normalizedMatrixEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::normalizedMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet13densityMatrixEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::densityMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set.html#_CPPv4N8Avogadro4Core9SlaterSet9outputAllEv"><code class="docutils literal notranslate"><span class="pre">SlaterSet::outputAll()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html">Class Avogadro::Core::SlaterSetTools</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html#_CPPv4N8Avogadro4Core14SlaterSetToolsE"><code class="docutils literal notranslate"><span class="pre">SlaterSetTools</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html#_CPPv4N8Avogadro4Core14SlaterSetTools14SlaterSetToolsEP8Molecule"><code class="docutils literal notranslate"><span class="pre">SlaterSetTools::SlaterSetTools()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html#_CPPv4N8Avogadro4Core14SlaterSetToolsD0Ev"><code class="docutils literal notranslate"><span class="pre">SlaterSetTools::~SlaterSetTools()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html#_CPPv4NK8Avogadro4Core14SlaterSetTools25calculateMolecularOrbitalERK7Vector3i"><code class="docutils literal notranslate"><span class="pre">SlaterSetTools::calculateMolecularOrbital()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html#_CPPv4NK8Avogadro4Core14SlaterSetTools24calculateElectronDensityERK7Vector3"><code class="docutils literal notranslate"><span class="pre">SlaterSetTools::calculateElectronDensity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html#_CPPv4NK8Avogadro4Core14SlaterSetTools20calculateSpinDensityERK7Vector3"><code class="docutils literal notranslate"><span class="pre">SlaterSetTools::calculateSpinDensity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_slater_set_tools.html#_CPPv4NK8Avogadro4Core14SlaterSetTools7isValidEv"><code class="docutils literal notranslate"><span class="pre">SlaterSetTools::isValid()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html">Class Avogadro::Core::SpaceGroups</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroupsE"><code class="docutils literal notranslate"><span class="pre">SpaceGroups</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups11SpaceGroupsEv"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::SpaceGroups()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroupsD0Ev"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::~SpaceGroups()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups10hallNumberERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::hallNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups13crystalSystemEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::crystalSystem()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups19internationalNumberEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::internationalNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups11schoenfliesEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::schoenflies()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups10hallSymbolEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::hallSymbol()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups13internationalEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::international()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups17internationalFullEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::internationalFull()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups18internationalShortEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::internationalShort()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups7settingEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::setting()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups15transformsCountEt"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::transformsCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups13getTransformsEtRK7Vector3"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::getTransforms()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups12fillUnitCellER8Moleculetdbb"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::fillUnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_space_groups.html#_CPPv4N8Avogadro4Core11SpaceGroups22reduceToAsymmetricUnitER8Moleculetd"><code class="docutils literal notranslate"><span class="pre">SpaceGroups::reduceToAsymmetricUnit()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_symbol_atom_typer.html">Class Avogadro::Core::SymbolAtomTyper</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_symbol_atom_typer.html#_CPPv4N8Avogadro4Core15SymbolAtomTyperE"><code class="docutils literal notranslate"><span class="pre">SymbolAtomTyper</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_symbol_atom_typer.html#_CPPv4N8Avogadro4Core15SymbolAtomTyper15SymbolAtomTyperEPK8Molecule"><code class="docutils literal notranslate"><span class="pre">SymbolAtomTyper::SymbolAtomTyper()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_symbol_atom_typer.html#_CPPv4N8Avogadro4Core15SymbolAtomTyperD0Ev"><code class="docutils literal notranslate"><span class="pre">SymbolAtomTyper::~SymbolAtomTyper()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_symbol_atom_typer.html#_CPPv4N8Avogadro4Core15SymbolAtomTyper4typeERK4Atom"><code class="docutils literal notranslate"><span class="pre">SymbolAtomTyper::type()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html">Class Avogadro::Core::UnitCell</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCellE"><code class="docutils literal notranslate"><span class="pre">UnitCell</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell7aVectorEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::aVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell7bVectorEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::bVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell7cVectorEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::cVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell10setAVectorERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::setAVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell10setBVectorERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::setBVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell10setCVectorERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::setCVector()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell1aEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::a()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell1bEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::b()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell1cEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::c()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell10cellMatrixEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::cellMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell13setCellMatrixERK7Matrix3"><code class="docutils literal notranslate"><span class="pre">UnitCell::setCellMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell12toFractionalERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::toFractional()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell12toFractionalERK7Vector3R7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::toFractional()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell11toCartesianERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::toCartesian()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell11toCartesianERK7Vector3R7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::toCartesian()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell14wrapFractionalERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::wrapFractional()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell14wrapFractionalERK7Vector3R7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::wrapFractional()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell13wrapCartesianERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::wrapCartesian()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell13wrapCartesianERK7Vector3R7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::wrapCartesian()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell8UnitCellEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::UnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell8UnitCellE4Real4Real4Real4Real4Real4Real"><code class="docutils literal notranslate"><span class="pre">UnitCell::UnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell8UnitCellERK7Vector3RK7Vector3RK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::UnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell8UnitCellERK7Matrix3"><code class="docutils literal notranslate"><span class="pre">UnitCell::UnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell8UnitCellERK8UnitCell"><code class="docutils literal notranslate"><span class="pre">UnitCell::UnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCellD0Ev"><code class="docutils literal notranslate"><span class="pre">UnitCell::~UnitCell()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCellaSE8UnitCell"><code class="docutils literal notranslate"><span class="pre">UnitCell::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell5alphaEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::alpha()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell4betaEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::beta()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell5gammaEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::gamma()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell17setCellParametersE4Real4Real4Real4Real4Real4Real"><code class="docutils literal notranslate"><span class="pre">UnitCell::setCellParameters()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell6volumeEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::volume()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell11imageOffsetEiii"><code class="docutils literal notranslate"><span class="pre">UnitCell::imageOffset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell16fractionalMatrixEv"><code class="docutils literal notranslate"><span class="pre">UnitCell::fractionalMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell19setFractionalMatrixERK7Matrix3"><code class="docutils literal notranslate"><span class="pre">UnitCell::setFractionalMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell12minimumImageERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::minimumImage()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4NK8Avogadro4Core8UnitCell8distanceERK7Vector3RK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::distance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell22minimumImageFractionalERK7Vector3"><code class="docutils literal notranslate"><span class="pre">UnitCell::minimumImageFractional()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_unit_cell.html#_CPPv4N8Avogadro4Core8UnitCell4swapER8UnitCellR8UnitCell"><code class="docutils literal notranslate"><span class="pre">UnitCell::swap()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html">Class Avogadro::Core::Variant</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7VariantE"><code class="docutils literal notranslate"><span class="pre">Variant</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4TypeE"><code class="docutils literal notranslate"><span class="pre">Variant::Type</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type4NullE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Null</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type4BoolE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Bool</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type3IntE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Int</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type4LongE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Long</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type5FloatE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Float</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type6DoubleE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Double</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type7PointerE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Pointer</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type6StringE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::String</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4Type6MatrixE"><code class="docutils literal notranslate"><span class="pre">Variant::Type::Matrix</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant7VariantEv"><code class="docutils literal notranslate"><span class="pre">Variant::Variant()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4I0EN8Avogadro4Core7Variant7VariantE1T"><code class="docutils literal notranslate"><span class="pre">Variant::Variant()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant7VariantERK7Variant"><code class="docutils literal notranslate"><span class="pre">Variant::Variant()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7VariantD0Ev"><code class="docutils literal notranslate"><span class="pre">Variant::~Variant()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant4typeEv"><code class="docutils literal notranslate"><span class="pre">Variant::type()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant6isNullEv"><code class="docutils literal notranslate"><span class="pre">Variant::isNull()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4I0EN8Avogadro4Core7Variant8setValueEb1T"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4I0ENK8Avogadro4Core7Variant5valueE1Tv"><code class="docutils literal notranslate"><span class="pre">Variant::value()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant5clearEv"><code class="docutils literal notranslate"><span class="pre">Variant::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant6toBoolEv"><code class="docutils literal notranslate"><span class="pre">Variant::toBool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant6toCharEv"><code class="docutils literal notranslate"><span class="pre">Variant::toChar()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant7toUCharEv"><code class="docutils literal notranslate"><span class="pre">Variant::toUChar()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant7toShortEv"><code class="docutils literal notranslate"><span class="pre">Variant::toShort()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant8toUShortEv"><code class="docutils literal notranslate"><span class="pre">Variant::toUShort()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant5toIntEv"><code class="docutils literal notranslate"><span class="pre">Variant::toInt()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant6toUIntEv"><code class="docutils literal notranslate"><span class="pre">Variant::toUInt()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant6toLongEv"><code class="docutils literal notranslate"><span class="pre">Variant::toLong()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant7toULongEv"><code class="docutils literal notranslate"><span class="pre">Variant::toULong()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant7toFloatEv"><code class="docutils literal notranslate"><span class="pre">Variant::toFloat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant8toDoubleEv"><code class="docutils literal notranslate"><span class="pre">Variant::toDouble()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant6toRealEv"><code class="docutils literal notranslate"><span class="pre">Variant::toReal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant9toPointerEv"><code class="docutils literal notranslate"><span class="pre">Variant::toPointer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant8toStringEv"><code class="docutils literal notranslate"><span class="pre">Variant::toString()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant8toMatrixEv"><code class="docutils literal notranslate"><span class="pre">Variant::toMatrix()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4NK8Avogadro4Core7Variant11toMatrixRefEv"><code class="docutils literal notranslate"><span class="pre">Variant::toMatrixRef()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7VariantaSERK7Variant"><code class="docutils literal notranslate"><span class="pre">Variant::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant7VariantEPKc"><code class="docutils literal notranslate"><span class="pre">Variant::Variant()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant7VariantERK8MatrixXf"><code class="docutils literal notranslate"><span class="pre">Variant::Variant()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbb"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbc"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbs"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbi"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbl"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbf"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbd"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbPKc"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEbPv"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IEN8Avogadro4Core7Variant8setValueEb7MatrixX"><code class="docutils literal notranslate"><span class="pre">Variant::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4IENK8Avogadro4Core7Variant5valueEbv"><code class="docutils literal notranslate"><span class="pre">Variant::value()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant5_boolE"><code class="docutils literal notranslate"><span class="pre">Variant::_bool</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant5_charE"><code class="docutils literal notranslate"><span class="pre">Variant::_char</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant4_intE"><code class="docutils literal notranslate"><span class="pre">Variant::_int</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant5_longE"><code class="docutils literal notranslate"><span class="pre">Variant::_long</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant6_floatE"><code class="docutils literal notranslate"><span class="pre">Variant::_float</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant7_doubleE"><code class="docutils literal notranslate"><span class="pre">Variant::_double</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant7pointerE"><code class="docutils literal notranslate"><span class="pre">Variant::pointer</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant6stringE"><code class="docutils literal notranslate"><span class="pre">Variant::string</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant.html#_CPPv4N8Avogadro4Core7Variant6matrixE"><code class="docutils literal notranslate"><span class="pre">Variant::matrix</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html">Class Avogadro::Core::VariantMap</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMapE"><code class="docutils literal notranslate"><span class="pre">VariantMap</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMap8iteratorE"><code class="docutils literal notranslate"><span class="pre">VariantMap::iterator</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMap14const_iteratorE"><code class="docutils literal notranslate"><span class="pre">VariantMap::const_iterator</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMap10VariantMapEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::VariantMap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMapD0Ev"><code class="docutils literal notranslate"><span class="pre">VariantMap::~VariantMap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap4sizeEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::size()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap7isEmptyEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::isEmpty()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap5namesEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::names()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMap8setValueERKNSt6stringERK7Variant"><code class="docutils literal notranslate"><span class="pre">VariantMap::setValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap5valueERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">VariantMap::value()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap8hasValueERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">VariantMap::hasValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMap5clearEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMap5beginEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::begin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap5beginEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::begin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap10constBeginEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::constBegin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4N8Avogadro4Core10VariantMap3endEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::end()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap3endEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::end()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_variant_map.html#_CPPv4NK8Avogadro4Core10VariantMap8constEndEv"><code class="docutils literal notranslate"><span class="pre">VariantMap::constEnd()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html">Class Avogadro::Core::internal::ArrayRefContainer</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4I0EN8Avogadro4Core8internal17ArrayRefContainerE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer9ValueTypeE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::ValueType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer6ParentE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::Parent</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer10value_typeE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::value_type</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer14allocator_typeE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::allocator_type</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer9referenceE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::reference</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer15const_referenceE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::const_reference</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer7pointerE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::pointer</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer13const_pointerE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::const_pointer</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer8iteratorE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::iterator</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer14const_iteratorE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::const_iterator</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer16reverse_iteratorE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::reverse_iterator</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer22const_reverse_iteratorE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::const_reverse_iterator</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer15difference_typeE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::difference_type</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer9size_typeE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::size_type</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer17ArrayRefContainerEv"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::ArrayRefContainer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer17ArrayRefContainerEK6size_tRK9ValueType"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::ArrayRefContainer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer17ArrayRefContainerERK17ArrayRefContainer"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::ArrayRefContainer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4I0EN8Avogadro4Core8internal17ArrayRefContainer17ArrayRefContainerE13InputIterator13InputIterator"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::ArrayRefContainer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer5rerefEv"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::reref()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer5derefEv"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::deref()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4NK8Avogadro4Core8internal17ArrayRefContainer3refEv"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::ref()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer5m_refE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::m_ref</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1internal_1_1_array_ref_container.html#_CPPv4N8Avogadro4Core8internal17ArrayRefContainer4dataE"><code class="docutils literal notranslate"><span class="pre">ArrayRefContainer::data</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits.html">Class Avogadro::TypeTraits</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits.html#_CPPv4I0EN8Avogadro10TypeTraitsE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits.html#_CPPv4N8Avogadro10TypeTraitsUt1_0E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;0</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits.html#_CPPv4N8Avogadro10TypeTraitsUt1_09EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;0::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits.html#_CPPv4N8Avogadro10TypeTraits4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01char_01_4.html">Class Avogadro::TypeTraits&lt; char &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01char_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsIcEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01char_01_4.html#_CPPv4N8Avogadro10TypeTraitsIcEUt1_1E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;1</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01char_01_4.html#_CPPv4N8Avogadro10TypeTraitsIcEUt1_19EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;1::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01char_01_4.html#_CPPv4N8Avogadro10TypeTraitsIcE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01double_01_4.html">Class Avogadro::TypeTraits&lt; double &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01double_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsIdEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01double_01_4.html#_CPPv4N8Avogadro10TypeTraitsIdEUt1_8E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;8</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01double_01_4.html#_CPPv4N8Avogadro10TypeTraitsIdEUt1_89EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;8::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01double_01_4.html#_CPPv4N8Avogadro10TypeTraitsIdE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01float_01_4.html">Class Avogadro::TypeTraits&lt; float &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01float_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsIfEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01float_01_4.html#_CPPv4N8Avogadro10TypeTraitsIfEUt1_7E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;7</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01float_01_4.html#_CPPv4N8Avogadro10TypeTraitsIfEUt1_79EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;7::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01float_01_4.html#_CPPv4N8Avogadro10TypeTraitsIfE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01int_01_4.html">Class Avogadro::TypeTraits&lt; int &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01int_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsIiEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01int_01_4.html#_CPPv4N8Avogadro10TypeTraitsIiEUt1_5E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;5</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01int_01_4.html#_CPPv4N8Avogadro10TypeTraitsIiEUt1_59EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;5::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01int_01_4.html#_CPPv4N8Avogadro10TypeTraitsIiE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01short_01_4.html">Class Avogadro::TypeTraits&lt; short &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01short_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsIsEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01short_01_4.html#_CPPv4N8Avogadro10TypeTraitsIsEUt1_3E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;3</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01short_01_4.html#_CPPv4N8Avogadro10TypeTraitsIsEUt1_39EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;3::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01short_01_4.html#_CPPv4N8Avogadro10TypeTraitsIsE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01char_01_4.html">Class Avogadro::TypeTraits&lt; unsigned char &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01char_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsIhEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01char_01_4.html#_CPPv4N8Avogadro10TypeTraitsIhEUt1_2E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;2</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01char_01_4.html#_CPPv4N8Avogadro10TypeTraitsIhEUt1_29EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;2::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01char_01_4.html#_CPPv4N8Avogadro10TypeTraitsIhE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01int_01_4.html">Class Avogadro::TypeTraits&lt; unsigned int &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01int_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsIjEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01int_01_4.html#_CPPv4N8Avogadro10TypeTraitsIjEUt1_6E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;6</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01int_01_4.html#_CPPv4N8Avogadro10TypeTraitsIjEUt1_69EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;6::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01int_01_4.html#_CPPv4N8Avogadro10TypeTraitsIjE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html">Class Avogadro::TypeTraits&lt; unsigned short &gt;</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html#_CPPv4IEN8Avogadro10TypeTraitsItEE"><code class="docutils literal notranslate"><span class="pre">TypeTraits</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html#_CPPv4N8Avogadro10TypeTraitsItEUt1_4E"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;4</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html#_CPPv4N8Avogadro10TypeTraitsItEUt1_49EnumValueE"><code class="docutils literal notranslate"><span class="pre">TypeTraits::&#64;4::EnumValue</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_type_traits_3_01unsigned_01short_01_4.html#_CPPv4N8Avogadro10TypeTraitsItE4nameEv"><code class="docutils literal notranslate"><span class="pre">TypeTraits::name()</span></code></a></li>
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-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l1"><a class="reference internal" href="io.html">IO Classes</a><ul>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html">Class Avogadro::Io::CjsonFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4N8Avogadro2Io11CjsonFormatE"><code class="docutils literal notranslate"><span class="pre">CjsonFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4N8Avogadro2Io11CjsonFormat11CjsonFormatEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::CjsonFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4N8Avogadro2Io11CjsonFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::~CjsonFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4NK8Avogadro2Io11CjsonFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4N8Avogadro2Io11CjsonFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4N8Avogadro2Io11CjsonFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::write()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4N8Avogadro2Io11CjsonFormat11deserializeERNSt7istreamERN4Core8MoleculeEb"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::deserialize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cjson_format.html#_CPPv4N8Avogadro2Io11CjsonFormat9serializeERNSt7ostreamERKN4Core8MoleculeEb"><code class="docutils literal notranslate"><span class="pre">CjsonFormat::serialize()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html">Class Avogadro::Io::CmlFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4N8Avogadro2Io9CmlFormatE"><code class="docutils literal notranslate"><span class="pre">CmlFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4N8Avogadro2Io9CmlFormat9CmlFormatEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::CmlFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4N8Avogadro2Io9CmlFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">CmlFormat::~CmlFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4NK8Avogadro2Io9CmlFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">CmlFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4N8Avogadro2Io9CmlFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">CmlFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_cml_format.html#_CPPv4N8Avogadro2Io9CmlFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">CmlFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html">Class Avogadro::Io::DcdFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4N8Avogadro2Io9DcdFormatE"><code class="docutils literal notranslate"><span class="pre">DcdFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4N8Avogadro2Io9DcdFormat9DcdFormatEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::DcdFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4N8Avogadro2Io9DcdFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">DcdFormat::~DcdFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4NK8Avogadro2Io9DcdFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">DcdFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4N8Avogadro2Io9DcdFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">DcdFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_dcd_format.html#_CPPv4N8Avogadro2Io9DcdFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">DcdFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html">Class Avogadro::Io::FileFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormatE"><code class="docutils literal notranslate"><span class="pre">FileFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9OperationE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation4NoneE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::None</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation4ReadE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::Read</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation5WriteE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::Write</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation9ReadWriteE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::ReadWrite</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation13MultiMoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::MultiMolecule</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation6StreamE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::Stream</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation6StringE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::String</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation4FileE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::File</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9Operation3AllE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operation::All</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormat::Operations</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat10FileFormatEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::FileFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">FileFormat::~FileFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat4openERKNSt6stringE9Operation"><code class="docutils literal notranslate"><span class="pre">FileFormat::open()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat4modeEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::mode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat6isModeE9Operation"><code class="docutils literal notranslate"><span class="pre">FileFormat::isMode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat5closeEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::close()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat12readMoleculeERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::readMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat13writeMoleculeERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::writeMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::write()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat8readFileERKNSt6stringERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::readFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat9writeFileERKNSt6stringERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::writeFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat10readStringERKNSt6stringERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::readString()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat11writeStringERNSt6stringERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">FileFormat::writeString()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat5errorEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::error()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat8fileNameEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::fileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat10setOptionsERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormat::setOptions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat7optionsEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::options()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat5clearEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4NK8Avogadro2Io10FileFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">FileFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat16validateFileNameERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormat::validateFileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format.html#_CPPv4N8Avogadro2Io10FileFormat11appendErrorERKNSt6stringEb"><code class="docutils literal notranslate"><span class="pre">FileFormat::appendError()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html">Class Avogadro::Io::FileFormatManager</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4N8Avogadro2Io17FileFormatManagerE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager8readFileERN4Core8MoleculeERKNSt6stringERKNSt6stringERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::readFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager9writeFileERKN4Core8MoleculeERKNSt6stringERKNSt6stringERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::writeFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager10readStringERN4Core8MoleculeERKNSt6stringERKNSt6stringERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::readString()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager11writeStringERKN4Core8MoleculeERNSt6stringERKNSt6stringERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::writeString()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4N8Avogadro2Io17FileFormatManager9addFormatEP10FileFormat"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::addFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4N8Avogadro2Io17FileFormatManager12removeFormatERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::removeFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager23newFormatFromIdentifierERKNSt6stringEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::newFormatFromIdentifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager21newFormatFromMimeTypeERKNSt6stringEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::newFormatFromMimeType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager26newFormatFromFileExtensionERKNSt6stringEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::newFormatFromFileExtension()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager11identifiersEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::identifiers()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager9mimeTypesEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager14fileExtensionsEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager11fileFormatsEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::fileFormats()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager23fileFormatsFromMimeTypeERKNSt6stringEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::fileFormatsFromMimeType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager28fileFormatsFromFileExtensionERKNSt6stringEN10FileFormat10OperationsE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::fileFormatsFromFileExtension()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4NK8Avogadro2Io17FileFormatManager5errorEv"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::error()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4N8Avogadro2Io17FileFormatManager8instanceEv"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::instance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4N8Avogadro2Io17FileFormatManager14registerFormatEP10FileFormat"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::registerFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_file_format_manager.html#_CPPv4N8Avogadro2Io17FileFormatManager16unregisterFormatERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">FileFormatManager::unregisterFormat()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html">Class Avogadro::Io::GromacsFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4N8Avogadro2Io13GromacsFormatE"><code class="docutils literal notranslate"><span class="pre">GromacsFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4N8Avogadro2Io13GromacsFormat13GromacsFormatEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::GromacsFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4N8Avogadro2Io13GromacsFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::~GromacsFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4NK8Avogadro2Io13GromacsFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4N8Avogadro2Io13GromacsFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_gromacs_format.html#_CPPv4N8Avogadro2Io13GromacsFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GromacsFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html">Class Avogadro::Io::Hdf5DataFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormatE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat8OpenModeE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::OpenMode</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat8OpenMode8ReadOnlyE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::OpenMode::ReadOnly</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat8OpenMode17ReadWriteTruncateE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::OpenMode::ReadWriteTruncate</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat8OpenMode15ReadWriteAppendE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::OpenMode::ReadWriteAppend</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat14Hdf5DataFormatEv"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::Hdf5DataFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::~Hdf5DataFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat6isOpenEv"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::isOpen()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat8openFileERKNSt6stringE8OpenMode"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::openFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat8filenameEv"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::filename()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat9closeFileEv"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::closeFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4N8Avogadro2Io14Hdf5DataFormat12setThresholdE6size_t"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::setThreshold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat9thresholdEv"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::threshold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat16exceedsThresholdE6size_t"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::exceedsThreshold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat16exceedsThresholdERK7MatrixX"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::exceedsThreshold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat16exceedsThresholdERKNSt6vectorIdEE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::exceedsThreshold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat16exceedsThresholdERKN4Core5ArrayIdEE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::exceedsThreshold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat13datasetExistsERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::datasetExists()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat13removeDatasetERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::removeDataset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat17datasetDimensionsERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::datasetDimensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat12writeDatasetERKNSt6stringERK7MatrixX"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::writeDataset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat12writeDatasetERKNSt6stringERKNSt6vectorIdEEiP6size_t"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::writeDataset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat12writeDatasetERKNSt6stringERKN4Core5ArrayIdEEiP6size_t"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::writeDataset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat11readDatasetERKNSt6stringER7MatrixX"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::readDataset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat11readDatasetERKNSt6stringERNSt6vectorIdEE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::readDataset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat11readDatasetERKNSt6stringERN4Core5ArrayIdEE"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::readDataset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_hdf5_data_format.html#_CPPv4NK8Avogadro2Io14Hdf5DataFormat8datasetsEv"><code class="docutils literal notranslate"><span class="pre">Hdf5DataFormat::datasets()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html">Class Avogadro::Io::LammpsDataFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4N8Avogadro2Io16LammpsDataFormatE"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4N8Avogadro2Io16LammpsDataFormat16LammpsDataFormatEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::LammpsDataFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4N8Avogadro2Io16LammpsDataFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::~LammpsDataFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4NK8Avogadro2Io16LammpsDataFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4N8Avogadro2Io16LammpsDataFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_data_format.html#_CPPv4N8Avogadro2Io16LammpsDataFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">LammpsDataFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html">Class Avogadro::Io::LammpsTrajectoryFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4N8Avogadro2Io22LammpsTrajectoryFormatE"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4N8Avogadro2Io22LammpsTrajectoryFormat22LammpsTrajectoryFormatEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::LammpsTrajectoryFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4N8Avogadro2Io22LammpsTrajectoryFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::~LammpsTrajectoryFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4NK8Avogadro2Io22LammpsTrajectoryFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4N8Avogadro2Io22LammpsTrajectoryFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_lammps_trajectory_format.html#_CPPv4N8Avogadro2Io22LammpsTrajectoryFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">LammpsTrajectoryFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html">Class Avogadro::Io::MMTFFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4N8Avogadro2Io10MMTFFormatE"><code class="docutils literal notranslate"><span class="pre">MMTFFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4N8Avogadro2Io10MMTFFormat10MMTFFormatEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::MMTFFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4N8Avogadro2Io10MMTFFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::~MMTFFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4NK8Avogadro2Io10MMTFFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4N8Avogadro2Io10MMTFFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_m_m_t_f_format.html#_CPPv4N8Avogadro2Io10MMTFFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MMTFFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html">Class Avogadro::Io::MdlFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4N8Avogadro2Io9MdlFormatE"><code class="docutils literal notranslate"><span class="pre">MdlFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4N8Avogadro2Io9MdlFormat9MdlFormatEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::MdlFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4N8Avogadro2Io9MdlFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">MdlFormat::~MdlFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4NK8Avogadro2Io9MdlFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">MdlFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4N8Avogadro2Io9MdlFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MdlFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_mdl_format.html#_CPPv4N8Avogadro2Io9MdlFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MdlFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html">Class Avogadro::Io::OutcarFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4N8Avogadro2Io12OutcarFormatE"><code class="docutils literal notranslate"><span class="pre">OutcarFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4N8Avogadro2Io12OutcarFormat12OutcarFormatEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::OutcarFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4N8Avogadro2Io12OutcarFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::~OutcarFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4NK8Avogadro2Io12OutcarFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4N8Avogadro2Io12OutcarFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_outcar_format.html#_CPPv4N8Avogadro2Io12OutcarFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">OutcarFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html">Class Avogadro::Io::PdbFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4N8Avogadro2Io9PdbFormatE"><code class="docutils literal notranslate"><span class="pre">PdbFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4N8Avogadro2Io9PdbFormat9PdbFormatEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::PdbFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4N8Avogadro2Io9PdbFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">PdbFormat::~PdbFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4NK8Avogadro2Io9PdbFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">PdbFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4N8Avogadro2Io9PdbFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">PdbFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4N8Avogadro2Io9PdbFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">PdbFormat::write()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_pdb_format.html#_CPPv4N8Avogadro2Io9PdbFormat26perceiveSubstitutedCationsERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">PdbFormat::perceiveSubstitutedCations()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html">Class Avogadro::Io::PoscarFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4N8Avogadro2Io12PoscarFormatE"><code class="docutils literal notranslate"><span class="pre">PoscarFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4N8Avogadro2Io12PoscarFormat12PoscarFormatEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::PoscarFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4N8Avogadro2Io12PoscarFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::~PoscarFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4NK8Avogadro2Io12PoscarFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4N8Avogadro2Io12PoscarFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_poscar_format.html#_CPPv4N8Avogadro2Io12PoscarFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">PoscarFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html">Class Avogadro::Io::TrrFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4N8Avogadro2Io9TrrFormatE"><code class="docutils literal notranslate"><span class="pre">TrrFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4N8Avogadro2Io9TrrFormat9TrrFormatEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::TrrFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4N8Avogadro2Io9TrrFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">TrrFormat::~TrrFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4NK8Avogadro2Io9TrrFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">TrrFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4N8Avogadro2Io9TrrFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">TrrFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_trr_format.html#_CPPv4N8Avogadro2Io9TrrFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">TrrFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html">Class Avogadro::Io::XyzFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4N8Avogadro2Io9XyzFormatE"><code class="docutils literal notranslate"><span class="pre">XyzFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4N8Avogadro2Io9XyzFormat9XyzFormatEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::XyzFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4N8Avogadro2Io9XyzFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">XyzFormat::~XyzFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat10identifierEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat4nameEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat11descriptionEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4NK8Avogadro2Io9XyzFormat9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">XyzFormat::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4N8Avogadro2Io9XyzFormat4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">XyzFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_io_1_1_xyz_format.html#_CPPv4N8Avogadro2Io9XyzFormat5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">XyzFormat::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html">Class Avogadro::QuantumIO::GAMESSUSOutput</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4N8Avogadro9QuantumIO14GAMESSUSOutputE"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4N8Avogadro9QuantumIO14GAMESSUSOutput14GAMESSUSOutputEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::GAMESSUSOutput()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4N8Avogadro9QuantumIO14GAMESSUSOutputD0Ev"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::~GAMESSUSOutput()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput10identifierEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput4nameEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput11descriptionEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4NK8Avogadro9QuantumIO14GAMESSUSOutput9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4N8Avogadro9QuantumIO14GAMESSUSOutput4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_a_m_e_s_s_u_s_output.html#_CPPv4N8Avogadro9QuantumIO14GAMESSUSOutput5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GAMESSUSOutput::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html">Class Avogadro::QuantumIO::GUKBasisSet</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSetE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet11GUKBasisSetEv"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::GUKBasisSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSetD0Ev"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::~GUKBasisSet()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet11outputCoordEv"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::outputCoord()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet11outputBasisEv"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::outputBasis()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet10labelIndexENSt6stringE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::labelIndex()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet19shellTypeFromStringENSt6stringE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::shellTypeFromString()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet10atomLabelsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::atomLabels</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet11coordinatesE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::coordinates</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet11shellLabelsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::shellLabels</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet6shellsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::shells</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet11gtoIndiciesE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::gtoIndicies</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet12gtoExponentsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::gtoExponents</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet15gtoCoefficientsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::gtoCoefficients</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet10moEnergiesE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::moEnergies</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet9moVectorsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::moVectors</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet6nShellE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::nShell</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet15nBasisFunctionsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::nBasisFunctions</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_g_u_k_basis_set.html#_CPPv4N8Avogadro9QuantumIO11GUKBasisSet10nElectronsE"><code class="docutils literal notranslate"><span class="pre">GUKBasisSet::nElectrons</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gamessuk_out.html">Class Avogadro::QuantumIO::GamessukOut</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gamessuk_out.html#_CPPv4N8Avogadro9QuantumIO11GamessukOutE"><code class="docutils literal notranslate"><span class="pre">GamessukOut</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gamessuk_out.html#_CPPv4N8Avogadro9QuantumIO11GamessukOut11GamessukOutERK7QStringP11GaussianSet"><code class="docutils literal notranslate"><span class="pre">GamessukOut::GamessukOut()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gamessuk_out.html#_CPPv4N8Avogadro9QuantumIO11GamessukOutD0Ev"><code class="docutils literal notranslate"><span class="pre">GamessukOut::~GamessukOut()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gamessuk_out.html#_CPPv4N8Avogadro9QuantumIO11GamessukOut15GamessukOutNoQtERKNSt6stringEP11GaussianSet"><code class="docutils literal notranslate"><span class="pre">GamessukOut::GamessukOutNoQt()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gamessuk_out.html#_CPPv4N8Avogadro9QuantumIO11GamessukOut16outputParsedDataEv"><code class="docutils literal notranslate"><span class="pre">GamessukOut::outputParsedData()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html">Class Avogadro::QuantumIO::GaussianCube</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4N8Avogadro9QuantumIO12GaussianCubeE"><code class="docutils literal notranslate"><span class="pre">GaussianCube</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4N8Avogadro9QuantumIO12GaussianCube12GaussianCubeEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::GaussianCube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4N8Avogadro9QuantumIO12GaussianCubeD0Ev"><code class="docutils literal notranslate"><span class="pre">GaussianCube::~GaussianCube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube10identifierEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube4nameEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube11descriptionEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4NK8Avogadro9QuantumIO12GaussianCube9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">GaussianCube::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4N8Avogadro9QuantumIO12GaussianCube4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GaussianCube::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_cube.html#_CPPv4N8Avogadro9QuantumIO12GaussianCube5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GaussianCube::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html">Class Avogadro::QuantumIO::GaussianFchk</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4N8Avogadro9QuantumIO12GaussianFchkE"><code class="docutils literal notranslate"><span class="pre">GaussianFchk</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4N8Avogadro9QuantumIO12GaussianFchk12GaussianFchkEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::GaussianFchk()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4N8Avogadro9QuantumIO12GaussianFchkD0Ev"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::~GaussianFchk()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk10identifierEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk4nameEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk11descriptionEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4NK8Avogadro9QuantumIO12GaussianFchk9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4N8Avogadro9QuantumIO12GaussianFchk4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4N8Avogadro9QuantumIO12GaussianFchk5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::write()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_gaussian_fchk.html#_CPPv4N8Avogadro9QuantumIO12GaussianFchk9outputAllEv"><code class="docutils literal notranslate"><span class="pre">GaussianFchk::outputAll()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html">Class Avogadro::QuantumIO::MoldenFile</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4N8Avogadro9QuantumIO10MoldenFileE"><code class="docutils literal notranslate"><span class="pre">MoldenFile</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4N8Avogadro9QuantumIO10MoldenFile10MoldenFileEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::MoldenFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4N8Avogadro9QuantumIO10MoldenFileD0Ev"><code class="docutils literal notranslate"><span class="pre">MoldenFile::~MoldenFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile10identifierEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile4nameEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile11descriptionEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4NK8Avogadro9QuantumIO10MoldenFile9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">MoldenFile::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4N8Avogadro9QuantumIO10MoldenFile4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MoldenFile::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_molden_file.html#_CPPv4N8Avogadro9QuantumIO10MoldenFile5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MoldenFile::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html">Class Avogadro::QuantumIO::MopacAux</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4N8Avogadro9QuantumIO8MopacAuxE"><code class="docutils literal notranslate"><span class="pre">MopacAux</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4N8Avogadro9QuantumIO8MopacAux8MopacAuxEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::MopacAux()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4N8Avogadro9QuantumIO8MopacAuxD0Ev"><code class="docutils literal notranslate"><span class="pre">MopacAux::~MopacAux()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4N8Avogadro9QuantumIO8MopacAux9outputAllEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::outputAll()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux10identifierEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux4nameEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux11descriptionEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4NK8Avogadro9QuantumIO8MopacAux9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">MopacAux::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4N8Avogadro9QuantumIO8MopacAux4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MopacAux::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_mopac_aux.html#_CPPv4N8Avogadro9QuantumIO8MopacAux5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MopacAux::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html">Class Avogadro::QuantumIO::NWChemJson</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4N8Avogadro9QuantumIO10NWChemJsonE"><code class="docutils literal notranslate"><span class="pre">NWChemJson</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4N8Avogadro9QuantumIO10NWChemJson10NWChemJsonEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::NWChemJson()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4N8Avogadro9QuantumIO10NWChemJsonD0Ev"><code class="docutils literal notranslate"><span class="pre">NWChemJson::~NWChemJson()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson10identifierEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson4nameEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson11descriptionEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4NK8Avogadro9QuantumIO10NWChemJson9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">NWChemJson::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4N8Avogadro9QuantumIO10NWChemJson4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">NWChemJson::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_json.html#_CPPv4N8Avogadro9QuantumIO10NWChemJson5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">NWChemJson::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html">Class Avogadro::QuantumIO::NWChemLog</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4N8Avogadro9QuantumIO9NWChemLogE"><code class="docutils literal notranslate"><span class="pre">NWChemLog</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4N8Avogadro9QuantumIO9NWChemLog9NWChemLogEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::NWChemLog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4N8Avogadro9QuantumIO9NWChemLogD0Ev"><code class="docutils literal notranslate"><span class="pre">NWChemLog::~NWChemLog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4N8Avogadro9QuantumIO9NWChemLog9outputAllEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::outputAll()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog19supportedOperationsEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::supportedOperations()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog10identifierEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog4nameEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog11descriptionEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog16specificationUrlEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::specificationUrl()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog14fileExtensionsEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::fileExtensions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4NK8Avogadro9QuantumIO9NWChemLog9mimeTypesEv"><code class="docutils literal notranslate"><span class="pre">NWChemLog::mimeTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4N8Avogadro9QuantumIO9NWChemLog4readERNSt7istreamERN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">NWChemLog::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html#_CPPv4N8Avogadro9QuantumIO9NWChemLog5writeERNSt7ostreamERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">NWChemLog::write()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l1"><a class="reference internal" href="molequeue.html">MoleQueue Classes</a><ul>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html">Class Avogadro::MoleQueue::BatchJob</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJobE"><code class="docutils literal notranslate"><span class="pre">BatchJob</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob24setInputGeneratorOptionsERK11QJsonObject"><code class="docutils literal notranslate"><span class="pre">BatchJob::setInputGeneratorOptions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob21inputGeneratorOptionsEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::inputGeneratorOptions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob19setMoleQueueOptionsERK11QJsonObject"><code class="docutils literal notranslate"><span class="pre">BatchJob::setMoleQueueOptions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob16moleQueueOptionsEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::moleQueueOptions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob20moleQueueJobTemplateEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::moleQueueJobTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob14inputGeneratorEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::inputGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob14inputGeneratorEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::inputGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobStateE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState8RejectedE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::Rejected</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState7UnknownE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::Unknown</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState4NoneE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::None</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState8AcceptedE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::Accepted</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState11QueuedLocalE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::QueuedLocal</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState9SubmittedE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::Submitted</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState12QueuedRemoteE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::QueuedRemote</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState12RunningLocalE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::RunningLocal</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState13RunningRemoteE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::RunningRemote</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState8FinishedE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::Finished</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState8CanceledE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::Canceled</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8JobState5ErrorE"><code class="docutils literal notranslate"><span class="pre">BatchJob::JobState::Error</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob7BatchIdE"><code class="docutils literal notranslate"><span class="pre">BatchJob::BatchId</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob9RequestIdE"><code class="docutils literal notranslate"><span class="pre">BatchJob::RequestId</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8ServerIdE"><code class="docutils literal notranslate"><span class="pre">BatchJob::ServerId</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8BatchJobEP7QObject"><code class="docutils literal notranslate"><span class="pre">BatchJob::BatchJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob8BatchJobERK7QStringP7QObject"><code class="docutils literal notranslate"><span class="pre">BatchJob::BatchJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJobD0Ev"><code class="docutils literal notranslate"><span class="pre">BatchJob::~BatchJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob11descriptionEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob8jobStateE7BatchId"><code class="docutils literal notranslate"><span class="pre">BatchJob::jobState()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob8serverIdE7BatchId"><code class="docutils literal notranslate"><span class="pre">BatchJob::serverId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob9jobObjectE7BatchId"><code class="docutils literal notranslate"><span class="pre">BatchJob::jobObject()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob17hasUnfinishedJobsEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::hasUnfinishedJobs()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob18unfinishedJobCountEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::unfinishedJobCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob16finishedJobCountEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::finishedJobCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4NK8Avogadro9MoleQueue8BatchJob8jobCountEv"><code class="docutils literal notranslate"><span class="pre">BatchJob::jobCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob13submitNextJobERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">BatchJob::submitNextJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob9lookupJobE7BatchId"><code class="docutils literal notranslate"><span class="pre">BatchJob::lookupJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob10jobUpdatedEN8Avogadro9MoleQueue8BatchJob7BatchIdEb"><code class="docutils literal notranslate"><span class="pre">BatchJob::jobUpdated()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob12jobCompletedEN8Avogadro9MoleQueue8BatchJob7BatchIdEN8Avogadro9MoleQueue8BatchJob8JobStateE"><code class="docutils literal notranslate"><span class="pre">BatchJob::jobCompleted()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob10isTerminalE8JobState"><code class="docutils literal notranslate"><span class="pre">BatchJob::isTerminal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob14InvalidBatchIdE"><code class="docutils literal notranslate"><span class="pre">BatchJob::InvalidBatchId</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob16InvalidRequestIdE"><code class="docutils literal notranslate"><span class="pre">BatchJob::InvalidRequestId</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_batch_job.html#_CPPv4N8Avogadro9MoleQueue8BatchJob15InvalidServerIdE"><code class="docutils literal notranslate"><span class="pre">BatchJob::InvalidServerId</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html">Class Avogadro::MoleQueue::InputGenerator</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGeneratorE"><code class="docutils literal notranslate"><span class="pre">InputGenerator</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGenerator14InputGeneratorERK7QStringP7QObject"><code class="docutils literal notranslate"><span class="pre">InputGenerator::InputGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGenerator14InputGeneratorEP7QObject"><code class="docutils literal notranslate"><span class="pre">InputGenerator::InputGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGeneratorD0Ev"><code class="docutils literal notranslate"><span class="pre">InputGenerator::~InputGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator5debugEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::debug()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator7isValidEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator7optionsEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::options()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator11displayNameEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::displayName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator14scriptFilePathEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::scriptFilePath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGenerator17setScriptFilePathERK7QString"><code class="docutils literal notranslate"><span class="pre">InputGenerator::setScriptFilePath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGenerator5resetEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::reset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGenerator13generateInputERK11QJsonObjectRKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">InputGenerator::generateInput()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator18numberOfInputFilesEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::numberOfInputFiles()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator9fileNamesEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::fileNames()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator12mainFileNameEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::mainFileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator12fileContentsERK7QString"><code class="docutils literal notranslate"><span class="pre">InputGenerator::fileContents()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator21createFileHighlighterERK7QString"><code class="docutils literal notranslate"><span class="pre">InputGenerator::createFileHighlighter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator9hasErrorsEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::hasErrors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGenerator11clearErrorsEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::clearErrors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator9errorListEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::errorList()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4NK8Avogadro9MoleQueue14InputGenerator11warningListEv"><code class="docutils literal notranslate"><span class="pre">InputGenerator::warningList()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator.html#_CPPv4N8Avogadro9MoleQueue14InputGenerator8setDebugEb"><code class="docutils literal notranslate"><span class="pre">InputGenerator::setDebug()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html">Class Avogadro::MoleQueue::InputGeneratorDialog</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialogE"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialog6widgetEv"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::widget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4NK8Avogadro9MoleQueue20InputGeneratorDialog6widgetEv"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::widget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialog20InputGeneratorDialogEP7QWidget"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::InputGeneratorDialog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialog20InputGeneratorDialogERK7QStringP7QWidget"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::InputGeneratorDialog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialogD0Ev"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::~InputGeneratorDialog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialog23setInputGeneratorScriptERK7QString"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::setInputGeneratorScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialog17configureBatchJobER8BatchJob"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::configureBatchJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_dialog.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorDialog11setMoleculeEPN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">InputGeneratorDialog::setMolecule()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html">Class Avogadro::MoleQueue::InputGeneratorWidget</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidgetE"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4NK8Avogadro9MoleQueue20InputGeneratorWidget14inputGeneratorEv"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::inputGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4NK8Avogadro9MoleQueue20InputGeneratorWidget9batchModeEv"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::batchMode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4NK8Avogadro9MoleQueue20InputGeneratorWidget17configureBatchJobER8BatchJob"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::configureBatchJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget11setMoleculeEPN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget12setBatchModeEb"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::setBatchMode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget12closeClickedEv"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::closeClicked()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget13openJobOutputERK9JobObject"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::openJobOutput()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget9showEventEP10QShowEvent"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::showEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget13updateOptionsEv"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::updateOptions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget20InputGeneratorWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::InputGeneratorWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidgetD0Ev"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::~InputGeneratorWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_input_generator_widget.html#_CPPv4N8Avogadro9MoleQueue20InputGeneratorWidget23setInputGeneratorScriptERK7QString"><code class="docutils literal notranslate"><span class="pre">InputGeneratorWidget::setInputGeneratorScript()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html">Class Avogadro::MoleQueue::MoleQueueDialog</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialogE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog6widgetEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::widget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueDialog6widgetEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::widget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitOptionE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitOption</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitOption25WaitForSubmissionResponseE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitOption::WaitForSubmissionResponse</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitOption25SelectProgramFromTemplateE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitOption::SelectProgramFromTemplate</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitStatusE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitStatus</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitStatus20SubmissionSuccessfulE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitStatus::SubmissionSuccessful</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitStatus16SubmissionFailedE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitStatus::SubmissionFailed</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitStatus19SubmissionAttemptedE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitStatus::SubmissionAttempted</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitStatus17SubmissionAbortedE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitStatus::SubmissionAborted</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitStatus9JobFailedE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitStatus::JobFailed</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog12SubmitStatus11JobFinishedE"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::SubmitStatus::JobFinished</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog15MoleQueueDialogEP7QWidget"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::MoleQueueDialog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialogD0Ev"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::~MoleQueueDialog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog4doneEi"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::done()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog9submitJobEP7QWidgetRK7QStringR9JobObject13SubmitOptionsPjPi"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::submitJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_dialog.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueDialog19promptForJobOptionsEP7QWidgetRK7QStringR9JobObject"><code class="docutils literal notranslate"><span class="pre">MoleQueueDialog::promptForJobOptions()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html">Class Avogadro::MoleQueue::MoleQueueManager</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManagerE"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManager6clientEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::client()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4NK8Avogadro9MoleQueue16MoleQueueManager6clientEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::client()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManager16MoleQueueManagerEP7QObject"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::MoleQueueManager()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManagerD0Ev"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::~MoleQueueManager()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManager15connectIfNeededEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::connectIfNeeded()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManager14queueListModelEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::queueListModel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManager16requestQueueListEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::requestQueueList()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManager16queueListUpdatedEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::queueListUpdated()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_manager.html#_CPPv4N8Avogadro9MoleQueue16MoleQueueManager8instanceEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueManager::instance()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html">Class Avogadro::MoleQueue::MoleQueueQueueListModel</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4N8Avogadro9MoleQueue23MoleQueueQueueListModelE"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4N8Avogadro9MoleQueue23MoleQueueQueueListModelD0Ev"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::~MoleQueueQueueListModel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel6queuesEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::queues()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel8programsERK7QString"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::programs()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel16findQueueIndicesERK7QString"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::findQueueIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel18findProgramIndicesERK7QStringRK7QString"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::findProgramIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel13lookupProgramERK11QModelIndexR7QStringR7QString"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::lookupProgram()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel4dataERK11QModelIndexi"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel5flagsERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::flags()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel10headerDataEiN2Qt11OrientationEi"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::headerData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel5indexEiiRK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::index()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel6parentERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::parent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel8rowCountERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::rowCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4NK8Avogadro9MoleQueue23MoleQueueQueueListModel11columnCountERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::columnCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4N8Avogadro9MoleQueue23MoleQueueQueueListModelUt2_10E"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::&#64;10</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4N8Avogadro9MoleQueue23MoleQueueQueueListModelUt2_1016QueueProgramRoleE"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::&#64;10::QueueProgramRole</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4N8Avogadro9MoleQueue23MoleQueueQueueListModel23MoleQueueQueueListModelEP7QObject"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::MoleQueueQueueListModel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_queue_list_model.html#_CPPv4N8Avogadro9MoleQueue23MoleQueueQueueListModel12setQueueListE5QListI7QStringE5QListI11QStringListE"><code class="docutils literal notranslate"><span class="pre">MoleQueueQueueListModel::setQueueList()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html">Class Avogadro::MoleQueue::MoleQueueWidget</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidgetE"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget11jobTemplateEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget11jobTemplateEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget14setJobTemplateERK9JobObject"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::setJobTemplate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget15MoleQueueWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::MoleQueueWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidgetD0Ev"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::~MoleQueueWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget20showAndSelectProgramERK7QString"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::showAndSelectProgram()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget17submissionSuccessEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::submissionSuccess()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget8jobStateEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobState()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget12jobCompletedEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobCompleted()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget10jobSuccessEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobSuccess()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget9requestIdEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::requestId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget11moleQueueIdEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::moleQueueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget15submissionErrorEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::submissionError()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget10openOutputEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::openOutput()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget16requestJobLookupEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::requestJobLookup()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget12setBatchModeEb"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::setBatchMode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget9batchModeEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::batchMode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget15programSelectedEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::programSelected()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4NK8Avogadro9MoleQueue15MoleQueueWidget13configuredJobEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::configuredJob()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget15refreshProgramsEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::refreshPrograms()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget16submitJobRequestEv"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::submitJobRequest()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget12jobSubmittedEb"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobSubmitted()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget11jobFinishedEb"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobFinished()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget10jobUpdatedERK9JobObject"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::jobUpdated()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_mole_queue_1_1_mole_queue_widget.html#_CPPv4N8Avogadro9MoleQueue15MoleQueueWidget18InvalidMoleQueueIdE"><code class="docutils literal notranslate"><span class="pre">MoleQueueWidget::InvalidMoleQueueId</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
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-<li class="toctree-l1"><a class="reference internal" href="qtgui.html">QtGui Classes</a><ul>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html">Class Avogadro::QtGui::BackgroundFileFormat</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormatE"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormat11setMoleculeEPN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4NK8Avogadro5QtGui20BackgroundFileFormat8moleculeEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormat11setFileNameERK7QString"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::setFileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4NK8Avogadro5QtGui20BackgroundFileFormat8fileNameEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::fileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormat20BackgroundFileFormatEPN2Io10FileFormatEP7QObject"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::BackgroundFileFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormatD0Ev"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::~BackgroundFileFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4NK8Avogadro5QtGui20BackgroundFileFormat10fileFormatEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::fileFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4NK8Avogadro5QtGui20BackgroundFileFormat7successEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::success()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4NK8Avogadro5QtGui20BackgroundFileFormat5errorEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::error()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormat4readEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::read()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormat5writeEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::write()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html#_CPPv4N8Avogadro5QtGui20BackgroundFileFormat8finishedEv"><code class="docutils literal notranslate"><span class="pre">BackgroundFileFormat::finished()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html">Class Avogadro::QtGui::ContainerWidget</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidgetE"><code class="docutils literal notranslate"><span class="pre">ContainerWidget</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidget15ContainerWidgetEP7QWidgetN2Qt11WindowFlagsE"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::ContainerWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidgetD0Ev"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::~ContainerWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidget13setViewWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::setViewWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidget10viewWidgetEv"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::viewWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidget9setActiveEb"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::setActive()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4NK8Avogadro5QtGui15ContainerWidget8isActiveEv"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::isActive()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidget13splitVerticalEv"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::splitVertical()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidget15splitHorizontalEv"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::splitHorizontal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_container_widget.html#_CPPv4N8Avogadro5QtGui15ContainerWidget9closeViewEv"><code class="docutils literal notranslate"><span class="pre">ContainerWidget::closeView()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_custom_element_dialog.html">Class Avogadro::QtGui::CustomElementDialog</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_custom_element_dialog.html#_CPPv4N8Avogadro5QtGui19CustomElementDialogE"><code class="docutils literal notranslate"><span class="pre">CustomElementDialog</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_custom_element_dialog.html#_CPPv4N8Avogadro5QtGui19CustomElementDialog19CustomElementDialogER8MoleculeP7QWidget"><code class="docutils literal notranslate"><span class="pre">CustomElementDialog::CustomElementDialog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_custom_element_dialog.html#_CPPv4N8Avogadro5QtGui19CustomElementDialogD0Ev"><code class="docutils literal notranslate"><span class="pre">CustomElementDialog::~CustomElementDialog()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_custom_element_dialog.html#_CPPv4N8Avogadro5QtGui19CustomElementDialog5applyEv"><code class="docutils literal notranslate"><span class="pre">CustomElementDialog::apply()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_custom_element_dialog.html#_CPPv4N8Avogadro5QtGui19CustomElementDialog7resolveEP7QWidgetR8Molecule"><code class="docutils literal notranslate"><span class="pre">CustomElementDialog::resolve()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_detail.html">Class Avogadro::QtGui::ElementDetail</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_detail.html#_CPPv4N8Avogadro5QtGui13ElementDetailE"><code class="docutils literal notranslate"><span class="pre">ElementDetail</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_detail.html#_CPPv4N8Avogadro5QtGui13ElementDetail13ElementDetailEi"><code class="docutils literal notranslate"><span class="pre">ElementDetail::ElementDetail()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_detail.html#_CPPv4NK8Avogadro5QtGui13ElementDetail12boundingRectEv"><code class="docutils literal notranslate"><span class="pre">ElementDetail::boundingRect()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_detail.html#_CPPv4NK8Avogadro5QtGui13ElementDetail5shapeEv"><code class="docutils literal notranslate"><span class="pre">ElementDetail::shape()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_detail.html#_CPPv4N8Avogadro5QtGui13ElementDetail5paintEP8QPainterPK24QStyleOptionGraphicsItemP7QWidget"><code class="docutils literal notranslate"><span class="pre">ElementDetail::paint()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_detail.html#_CPPv4N8Avogadro5QtGui13ElementDetail10setElementEi"><code class="docutils literal notranslate"><span class="pre">ElementDetail::setElement()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_item.html">Class Avogadro::QtGui::ElementItem</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_item.html#_CPPv4N8Avogadro5QtGui11ElementItemE"><code class="docutils literal notranslate"><span class="pre">ElementItem</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_item.html#_CPPv4N8Avogadro5QtGui11ElementItem11ElementItemEi"><code class="docutils literal notranslate"><span class="pre">ElementItem::ElementItem()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_item.html#_CPPv4N8Avogadro5QtGui11ElementItemD0Ev"><code class="docutils literal notranslate"><span class="pre">ElementItem::~ElementItem()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_item.html#_CPPv4NK8Avogadro5QtGui11ElementItem12boundingRectEv"><code class="docutils literal notranslate"><span class="pre">ElementItem::boundingRect()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_item.html#_CPPv4NK8Avogadro5QtGui11ElementItem5shapeEv"><code class="docutils literal notranslate"><span class="pre">ElementItem::shape()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_item.html#_CPPv4N8Avogadro5QtGui11ElementItem5paintEP8QPainterPK24QStyleOptionGraphicsItemP7QWidget"><code class="docutils literal notranslate"><span class="pre">ElementItem::paint()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_translator.html">Class Avogadro::QtGui::ElementTranslator</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_translator.html#_CPPv4N8Avogadro5QtGui17ElementTranslatorE"><code class="docutils literal notranslate"><span class="pre">ElementTranslator</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_translator.html#_CPPv4N8Avogadro5QtGui17ElementTranslator17ElementTranslatorEv"><code class="docutils literal notranslate"><span class="pre">ElementTranslator::ElementTranslator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_translator.html#_CPPv4N8Avogadro5QtGui17ElementTranslator4nameEi"><code class="docutils literal notranslate"><span class="pre">ElementTranslator::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_element_translator.html#_CPPv4N8Avogadro5QtGui17ElementTranslator16numberOfElementsEv"><code class="docutils literal notranslate"><span class="pre">ElementTranslator::numberOfElements()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html">Class Avogadro::QtGui::ExtensionPlugin</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPluginE"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin15ExtensionPluginEP7QObject"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::ExtensionPlugin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPluginD0Ev"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::~ExtensionPlugin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4NK8Avogadro5QtGui15ExtensionPlugin4nameEv"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4NK8Avogadro5QtGui15ExtensionPlugin11descriptionEv"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4NK8Avogadro5QtGui15ExtensionPlugin7actionsEv"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::actions()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4NK8Avogadro5QtGui15ExtensionPlugin8menuPathEP7QAction"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::menuPath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4NK8Avogadro5QtGui15ExtensionPlugin11fileFormatsEv"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::fileFormats()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin16registerCommandsEv"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::registerCommands()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin11setMoleculeEPN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin12readMoleculeERN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::readMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin8setSceneEPN9Rendering5SceneE"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::setScene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin9setCameraEPN9Rendering6CameraE"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::setCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin15setActiveWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::setActiveWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin13handleCommandERK7QStringRK11QVariantMap"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::handleCommand()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin13moleculeReadyEi"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::moleculeReady()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin16fileFormatsReadyEv"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::fileFormatsReady()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin17requestActiveToolE7QString"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::requestActiveTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin25requestActiveDisplayTypesE11QStringList"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::requestActiveDisplayTypes()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin.html#_CPPv4N8Avogadro5QtGui15ExtensionPlugin15registerCommandE7QString7QString"><code class="docutils literal notranslate"><span class="pre">ExtensionPlugin::registerCommand()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin_factory.html">Class Avogadro::QtGui::ExtensionPluginFactory</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin_factory.html#_CPPv4N8Avogadro5QtGui22ExtensionPluginFactoryE"><code class="docutils literal notranslate"><span class="pre">ExtensionPluginFactory</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_extension_plugin_factory.html#_CPPv4N8Avogadro5QtGui22ExtensionPluginFactoryD0Ev"><code class="docutils literal notranslate"><span class="pre">ExtensionPluginFactory::~ExtensionPluginFactory()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html">Class Avogadro::QtGui::FileBrowseWidget</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidgetE"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget4ModeE"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::Mode</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget4Mode12ExistingFileE"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::Mode::ExistingFile</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget4Mode14ExecutableFileE"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::Mode::ExecutableFile</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget16FileBrowseWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::FileBrowseWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidgetD0Ev"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::~FileBrowseWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4NK8Avogadro5QtGui16FileBrowseWidget8fileNameEv"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::fileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4NK8Avogadro5QtGui16FileBrowseWidget13validFileNameEv"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::validFileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4NK8Avogadro5QtGui16FileBrowseWidget12browseButtonEv"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::browseButton()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4NK8Avogadro5QtGui16FileBrowseWidget8lineEditEv"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::lineEdit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget7setModeE4Mode"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::setMode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4NK8Avogadro5QtGui16FileBrowseWidget4modeEv"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::mode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget11setFileNameERK7QString"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::setFileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget15fileNameChangedERK7QString"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::fileNameChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget23searchSystemPathForFileERK7QString"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::searchSystemPathForFile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_browse_widget.html#_CPPv4N8Avogadro5QtGui16FileBrowseWidget24searchSystemPathForFilesERK11QStringList"><code class="docutils literal notranslate"><span class="pre">FileBrowseWidget::searchSystemPathForFiles()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html">Class Avogadro::QtGui::FileFormatDialog</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialogE"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog18FilterStringOptionE"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::FilterStringOption</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog18FilterStringOption20NoFilterStringOptionE"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::FilterStringOption::NoFilterStringOption</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog18FilterStringOption10AllFormatsE"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::FilterStringOption::AllFormats</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog18FilterStringOption8AllFilesE"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::FilterStringOption::AllFiles</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog18FilterStringOption12WriteFormatsE"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::FilterStringOption::WriteFormats</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog14FormatFilePairE"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::FormatFilePair</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog10fileToReadEP7QWidgetRK7QStringRK7QStringRK7QString"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::fileToRead()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog11fileToWriteEP7QWidgetRK7QStringRK7QStringRK7QString"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::fileToWrite()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_file_format_dialog.html#_CPPv4N8Avogadro5QtGui16FileFormatDialog14findFileFormatEP7QWidgetRK7QStringRK7QStringKN2Io10FileFormat10OperationsERK7QString"><code class="docutils literal notranslate"><span class="pre">FileFormatDialog::findFileFormat()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html">Class Avogadro::QtGui::GenericHighlighter</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighterE"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter18GenericHighlighterEP7QObject"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::GenericHighlighter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighterD0Ev"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::~GenericHighlighter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter18GenericHighlighterERK18GenericHighlighter"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::GenericHighlighter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighteraSE18GenericHighlighter"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighterpLERK18GenericHighlighter"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::operator+=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter7addRuleEv"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::addRule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4NK8Avogadro5QtGui18GenericHighlighter9ruleCountEv"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::ruleCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4ruleEi"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::rule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4NK8Avogadro5QtGui18GenericHighlighter4ruleEi"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::rule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4NK8Avogadro5QtGui18GenericHighlighter5rulesEv"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::rules()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter14highlightBlockERK7QString"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::highlightBlock()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4swapER18GenericHighlighterR18GenericHighlighter"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::swap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4RuleE"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::Rule</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule4RuleEv"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::Rule::Rule()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4RuleD0Ev"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::Rule::~Rule()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule10addPatternERK7QRegExp"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::Rule::addPattern()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule9setFormatERK15QTextCharFormat"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::Rule::setFormat()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule5applyERK7QStringR18GenericHighlighter"><code class="docutils literal notranslate"><span class="pre">GenericHighlighter::Rule::apply()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter_1_1_rule.html">Class Avogadro::QtGui::GenericHighlighter::Rule</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter_1_1_rule.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4RuleE"><code class="docutils literal notranslate"><span class="pre">Rule</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter_1_1_rule.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule4RuleEv"><code class="docutils literal notranslate"><span class="pre">Rule::Rule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter_1_1_rule.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4RuleD0Ev"><code class="docutils literal notranslate"><span class="pre">Rule::~Rule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter_1_1_rule.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule10addPatternERK7QRegExp"><code class="docutils literal notranslate"><span class="pre">Rule::addPattern()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter_1_1_rule.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule9setFormatERK15QTextCharFormat"><code class="docutils literal notranslate"><span class="pre">Rule::setFormat()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_generic_highlighter_1_1_rule.html#_CPPv4N8Avogadro5QtGui18GenericHighlighter4Rule5applyERK7QStringR18GenericHighlighter"><code class="docutils literal notranslate"><span class="pre">Rule::apply()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html">Class Avogadro::QtGui::HydrogenTools</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenToolsE"><code class="docutils literal notranslate"><span class="pre">HydrogenTools</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools10AdjustmentE"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::Adjustment</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools10Adjustment3AddE"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::Adjustment::Add</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools10Adjustment6RemoveE"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::Adjustment::Remove</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools10Adjustment12AddAndRemoveE"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::Adjustment::AddAndRemove</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools18removeAllHydrogensER10RWMolecule"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::removeAllHydrogens()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools15adjustHydrogensER10RWMolecule10Adjustment"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::adjustHydrogens()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools15adjustHydrogensER6RWAtom10Adjustment"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::adjustHydrogens()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools17valencyAdjustmentERK6RWAtom"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::valencyAdjustment()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools20extraHydrogenIndicesERK6RWAtomiRNSt6vectorI6size_tEE"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::extraHydrogenIndices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_hydrogen_tools.html#_CPPv4N8Avogadro5QtGui13HydrogenTools28generateNewHydrogenPositionsERK6RWAtomiRNSt6vectorI7Vector3EE"><code class="docutils literal notranslate"><span class="pre">HydrogenTools::generateNewHydrogenPositions()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html">Class Avogadro::QtGui::InterfaceScript</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScriptE"><code class="docutils literal notranslate"><span class="pre">InterfaceScript</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript15InterfaceScriptERK7QStringP7QObject"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::InterfaceScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript15InterfaceScriptEP7QObject"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::InterfaceScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScriptD0Ev"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::~InterfaceScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript5debugEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::debug()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript7isValidEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript7optionsEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::options()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript11displayNameEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::displayName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript8menuPathEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::menuPath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript14scriptFilePathEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::scriptFilePath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript17setScriptFilePathERK7QString"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::setScriptFilePath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript5resetEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::reset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript10runCommandERK11QJsonObjectPN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::runCommand()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript14processCommandEPN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::processCommand()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript13generateInputERK11QJsonObjectRKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::generateInput()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript18numberOfInputFilesEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::numberOfInputFiles()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript9fileNamesEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::fileNames()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript12mainFileNameEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::mainFileName()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript12fileContentsERK7QString"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::fileContents()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript21createFileHighlighterERK7QString"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::createFileHighlighter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript9hasErrorsEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::hasErrors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript11clearErrorsEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::clearErrors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript9errorListEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::errorList()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4NK8Avogadro5QtGui15InterfaceScript11warningListEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::warningList()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript8setDebugEb"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::setDebug()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript15commandFinishedEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::commandFinished()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_script.html#_CPPv4N8Avogadro5QtGui15InterfaceScript8finishedEv"><code class="docutils literal notranslate"><span class="pre">InterfaceScript::finished()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_widget.html">Class Avogadro::QtGui::InterfaceWidget</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_widget.html#_CPPv4N8Avogadro5QtGui15InterfaceWidgetE"><code class="docutils literal notranslate"><span class="pre">InterfaceWidget</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_widget.html#_CPPv4N8Avogadro5QtGui15InterfaceWidget15InterfaceWidgetERK7QStringP7QWidget"><code class="docutils literal notranslate"><span class="pre">InterfaceWidget::InterfaceWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_widget.html#_CPPv4N8Avogadro5QtGui15InterfaceWidgetD0Ev"><code class="docutils literal notranslate"><span class="pre">InterfaceWidget::~InterfaceWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_widget.html#_CPPv4N8Avogadro5QtGui15InterfaceWidget18setInterfaceScriptERK7QString"><code class="docutils literal notranslate"><span class="pre">InterfaceWidget::setInterfaceScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_interface_widget.html#_CPPv4NK8Avogadro5QtGui15InterfaceWidget15interfaceScriptEv"><code class="docutils literal notranslate"><span class="pre">InterfaceWidget::interfaceScript()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html">Class Avogadro::QtGui::MeshGenerator</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGeneratorE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator13MeshGeneratorEP7QObject"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::MeshGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator13MeshGeneratorEPKN4Core4CubeEPN4Core4MeshEfibP7QObject"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::MeshGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGeneratorD0Ev"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::~MeshGenerator()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator10initializeEPKN4Core4CubeEPN4Core4MeshEfib"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::initialize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator3runEv"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::run()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4NK8Avogadro5QtGui13MeshGenerator4cubeEv"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::cube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4NK8Avogadro5QtGui13MeshGenerator4meshEv"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::mesh()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator5clearEv"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator15progressMinimumEv"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::progressMinimum()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator15progressMaximumEv"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::progressMaximum()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator20progressValueChangedEi"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::progressValueChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator6normalERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::normal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator6offsetEff"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::offset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator9duplicateERK8Vector3iRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::duplicate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator12marchingCubeERK8Vector3i"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::marchingCube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator5m_isoE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_iso</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator8m_passesE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_passes</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator16m_reverseWindingE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_reverseWinding</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator6m_cubeE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_cube</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator6m_meshE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_mesh</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator10m_stepSizeE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_stepSize</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator5m_minE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_min</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator5m_dimE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_dim</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator10m_verticesE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_vertices</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator9m_normalsE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_normals</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator9m_indicesE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_indices</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator9m_progminE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_progmin</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator9m_progmaxE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::m_progmax</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator15a2fVertexOffsetE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2fVertexOffset</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator15a2iVertexOffsetE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2iVertexOffset</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator17a2iEdgeConnectionE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2iEdgeConnection</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator16a2fEdgeDirectionE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2fEdgeDirection</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator28a2iTetrahedronEdgeConnectionE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2iTetrahedronEdgeConnection</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator22a2iTetrahedronsInACubeE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2iTetrahedronsInACube</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator22aiTetrahedronEdgeFlagsE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::aiTetrahedronEdgeFlags</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator23a2iTetrahedronTrianglesE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2iTetrahedronTriangles</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator15aiCubeEdgeFlagsE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::aiCubeEdgeFlags</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_mesh_generator.html#_CPPv4N8Avogadro5QtGui13MeshGenerator26a2iTriangleConnectionTableE"><code class="docutils literal notranslate"><span class="pre">MeshGenerator::a2iTriangleConnectionTable</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html">Class Avogadro::QtGui::Molecule</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">Molecule</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4NK8Avogadro5QtGui8Molecule12atomUniqueIdERK8AtomType"><code class="docutils literal notranslate"><span class="pre">Molecule::atomUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4NK8Avogadro5QtGui8Molecule12atomUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::atomUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule10removeBondERK8AtomTypeRK8AtomType"><code class="docutils literal notranslate"><span class="pre">Molecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule10removeBondE5Index5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4NK8Avogadro5QtGui8Molecule12bondUniqueIdERK8BondType"><code class="docutils literal notranslate"><span class="pre">Molecule::bondUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4NK8Avogadro5QtGui8Molecule12bondUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::bondUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChangeE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange8NoChangeE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::NoChange</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange5AtomsE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Atoms</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange5BondsE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Bonds</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange8UnitCellE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::UnitCell</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange9SelectionE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Selection</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange6LayersE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Layers</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange10PropertiesE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Properties</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange5AddedE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Added</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange7RemovedE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Removed</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14MoleculeChange8ModifiedE"><code class="docutils literal notranslate"><span class="pre">Molecule::MoleculeChange::Modified</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8AtomTypeE"><code class="docutils literal notranslate"><span class="pre">Molecule::AtomType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule18PersistentAtomTypeE"><code class="docutils literal notranslate"><span class="pre">Molecule::PersistentAtomType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8BondTypeE"><code class="docutils literal notranslate"><span class="pre">Molecule::BondType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule18PersistentBondTypeE"><code class="docutils literal notranslate"><span class="pre">Molecule::PersistentBondType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8MoleculeEP7QObject"><code class="docutils literal notranslate"><span class="pre">Molecule::Molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8MoleculeD0Ev"><code class="docutils literal notranslate"><span class="pre">Molecule::~Molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8MoleculeERK8Molecule"><code class="docutils literal notranslate"><span class="pre">Molecule::Molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8MoleculeERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">Molecule::Molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8MoleculeaSERK8Molecule"><code class="docutils literal notranslate"><span class="pre">Molecule::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8MoleculeaSERKN4Core8MoleculeE"><code class="docutils literal notranslate"><span class="pre">Molecule::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7addAtomEh"><code class="docutils literal notranslate"><span class="pre">Molecule::addAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7addAtomEh5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::addAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7addAtomEh7Vector35Index"><code class="docutils literal notranslate"><span class="pre">Molecule::addAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule10removeAtomE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::removeAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule10removeAtomERK8AtomType"><code class="docutils literal notranslate"><span class="pre">Molecule::removeAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14atomByUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::atomByUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule13atomUniqueIdsEv"><code class="docutils literal notranslate"><span class="pre">Molecule::atomUniqueIds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7addBondERK8AtomTypeRK8AtomTypeh"><code class="docutils literal notranslate"><span class="pre">Molecule::addBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7addBondE5Index5Indexh"><code class="docutils literal notranslate"><span class="pre">Molecule::addBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8addBondsERKN4Core5ArrayINSt4pairI5Index5IndexEEEERKN4Core5ArrayIhEE"><code class="docutils literal notranslate"><span class="pre">Molecule::addBonds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7addBondERK8AtomTypeRK8AtomTypeh5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::addBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7addBondE5Index5Indexh5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::addBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule10removeBondE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule10removeBondERK8BondType"><code class="docutils literal notranslate"><span class="pre">Molecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule14bondByUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::bondByUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule13bondUniqueIdsEv"><code class="docutils literal notranslate"><span class="pre">Molecule::bondUniqueIds()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4NK8Avogadro5QtGui8Molecule16findAtomUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::findAtomUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4NK8Avogadro5QtGui8Molecule16findBondUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::findBondUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule12undoMoleculeEv"><code class="docutils literal notranslate"><span class="pre">Molecule::undoMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8swapBondE5Index5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::swapBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule8swapAtomE5Index5Index"><code class="docutils literal notranslate"><span class="pre">Molecule::swapAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule11emitChangedEj"><code class="docutils literal notranslate"><span class="pre">Molecule::emitChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule.html#_CPPv4N8Avogadro5QtGui8Molecule7changedEj"><code class="docutils literal notranslate"><span class="pre">Molecule::changed()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html">Class Avogadro::QtGui::MoleculeModel</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModelE"><code class="docutils literal notranslate"><span class="pre">MoleculeModel</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel13MoleculeModelEP7QObject"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::MoleculeModel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel6parentERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::parent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel8rowCountERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::rowCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel11columnCountERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::columnCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel5flagsERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::flags()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel7setDataERK11QModelIndexRK8QVarianti"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::setData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel4dataERK11QModelIndexi"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel5indexEiiRK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::index()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel5clearEv"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel9moleculesEv"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::molecules()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel15activeMoleculesEv"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::activeMolecules()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4NK8Avogadro5QtGui13MoleculeModel14activeMoleculeEv"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::activeMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel17setActiveMoleculeEP7QObject"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::setActiveMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel7addItemEPN8Avogadro5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::addItem()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel10removeItemEPN8Avogadro5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::removeItem()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel11itemChangedEv"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::itemChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_molecule_model.html#_CPPv4N8Avogadro5QtGui13MoleculeModel20moleculeStateChangedEPN8Avogadro5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">MoleculeModel::moleculeStateChanged()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html">Class Avogadro::QtGui::MultiViewWidget</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidgetE"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget15MultiViewWidgetEP7QWidgetN2Qt11WindowFlagsE"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::MultiViewWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidgetD0Ev"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::~MultiViewWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget9addWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::addWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget12activeWidgetEv"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::activeWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget15setActiveWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::setActiveWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget10setFactoryEP11ViewFactory"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::setFactory()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget14setDefaultViewERK7QString"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::setDefaultView()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget15splitHorizontalEv"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::splitHorizontal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget13splitVerticalEv"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::splitVertical()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget10createViewEv"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::createView()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget10removeViewEv"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::removeView()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_multi_view_widget.html#_CPPv4N8Avogadro5QtGui15MultiViewWidget19activeWidgetChangedEP7QWidget"><code class="docutils literal notranslate"><span class="pre">MultiViewWidget::activeWidgetChanged()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_scene.html">Class Avogadro::QtGui::PeriodicTableScene</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_scene.html#_CPPv4N8Avogadro5QtGui18PeriodicTableSceneE"><code class="docutils literal notranslate"><span class="pre">PeriodicTableScene</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_scene.html#_CPPv4N8Avogadro5QtGui18PeriodicTableScene18PeriodicTableSceneEP7QObject"><code class="docutils literal notranslate"><span class="pre">PeriodicTableScene::PeriodicTableScene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_scene.html#_CPPv4N8Avogadro5QtGui18PeriodicTableScene13changeElementEi"><code class="docutils literal notranslate"><span class="pre">PeriodicTableScene::changeElement()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_scene.html#_CPPv4N8Avogadro5QtGui18PeriodicTableScene14elementChangedEi"><code class="docutils literal notranslate"><span class="pre">PeriodicTableScene::elementChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_scene.html#_CPPv4N8Avogadro5QtGui18PeriodicTableScene15mousePressEventEP24QGraphicsSceneMouseEvent"><code class="docutils literal notranslate"><span class="pre">PeriodicTableScene::mousePressEvent()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html">Class Avogadro::QtGui::PeriodicTableView</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableViewE"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableView17PeriodicTableViewEP7QWidget"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::PeriodicTableView()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableViewD0Ev"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::~PeriodicTableView()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4NK8Avogadro5QtGui17PeriodicTableView7elementEv"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::element()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableView10setElementEi"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::setElement()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableView19clearKeyPressBufferEv"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::clearKeyPressBuffer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableView14elementChangedEi"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::elementChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableView21mouseDoubleClickEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::mouseDoubleClickEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableView13keyPressEventEP9QKeyEvent"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::keyPressEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_periodic_table_view.html#_CPPv4N8Avogadro5QtGui17PeriodicTableView11resizeEventEP12QResizeEvent"><code class="docutils literal notranslate"><span class="pre">PeriodicTableView::resizeEvent()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html">Class Avogadro::QtGui::PersistentAtom</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4I0EN8Avogadro5QtGui14PersistentAtomE"><code class="docutils literal notranslate"><span class="pre">PersistentAtom</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4N8Avogadro5QtGui14PersistentAtom12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::MoleculeType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4N8Avogadro5QtGui14PersistentAtom8AtomTypeE"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::AtomType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4N8Avogadro5QtGui14PersistentAtom14PersistentAtomEP12MoleculeType5Index"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::PersistentAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4N8Avogadro5QtGui14PersistentAtom14PersistentAtomERK8AtomType"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::PersistentAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4N8Avogadro5QtGui14PersistentAtom3setEP12MoleculeType5Index"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::set()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4N8Avogadro5QtGui14PersistentAtom3setERK8AtomType"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::set()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4N8Avogadro5QtGui14PersistentAtom5resetEv"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::reset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4NK8Avogadro5QtGui14PersistentAtom7isValidEv"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4NK8Avogadro5QtGui14PersistentAtom8moleculeEv"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4NK8Avogadro5QtGui14PersistentAtom16uniqueIdentifierEv"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::uniqueIdentifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_atom.html#_CPPv4NK8Avogadro5QtGui14PersistentAtom4atomEv"><code class="docutils literal notranslate"><span class="pre">PersistentAtom::atom()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html">Class Avogadro::QtGui::PersistentBond</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4I0EN8Avogadro5QtGui14PersistentBondE"><code class="docutils literal notranslate"><span class="pre">PersistentBond</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4N8Avogadro5QtGui14PersistentBond12MoleculeTypeE"><code class="docutils literal notranslate"><span class="pre">PersistentBond::MoleculeType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4N8Avogadro5QtGui14PersistentBond8BondTypeE"><code class="docutils literal notranslate"><span class="pre">PersistentBond::BondType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4N8Avogadro5QtGui14PersistentBond14PersistentBondEP12MoleculeType5Index"><code class="docutils literal notranslate"><span class="pre">PersistentBond::PersistentBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4N8Avogadro5QtGui14PersistentBond14PersistentBondERK8BondType"><code class="docutils literal notranslate"><span class="pre">PersistentBond::PersistentBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4N8Avogadro5QtGui14PersistentBond3setEP12MoleculeType5Index"><code class="docutils literal notranslate"><span class="pre">PersistentBond::set()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4N8Avogadro5QtGui14PersistentBond3setERK8BondType"><code class="docutils literal notranslate"><span class="pre">PersistentBond::set()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4N8Avogadro5QtGui14PersistentBond5resetEv"><code class="docutils literal notranslate"><span class="pre">PersistentBond::reset()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4NK8Avogadro5QtGui14PersistentBond7isValidEv"><code class="docutils literal notranslate"><span class="pre">PersistentBond::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4NK8Avogadro5QtGui14PersistentBond8moleculeEv"><code class="docutils literal notranslate"><span class="pre">PersistentBond::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4NK8Avogadro5QtGui14PersistentBond16uniqueIdentifierEv"><code class="docutils literal notranslate"><span class="pre">PersistentBond::uniqueIdentifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_persistent_bond.html#_CPPv4NK8Avogadro5QtGui14PersistentBond4bondEv"><code class="docutils literal notranslate"><span class="pre">PersistentBond::bond()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html">Class Avogadro::QtGui::PythonScript</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScriptE"><code class="docutils literal notranslate"><span class="pre">PythonScript</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript12PythonScriptERK7QStringP7QObject"><code class="docutils literal notranslate"><span class="pre">PythonScript::PythonScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript12PythonScriptEP7QObject"><code class="docutils literal notranslate"><span class="pre">PythonScript::PythonScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScriptD0Ev"><code class="docutils literal notranslate"><span class="pre">PythonScript::~PythonScript()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4NK8Avogadro5QtGui12PythonScript5debugEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::debug()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4NK8Avogadro5QtGui12PythonScript14scriptFilePathEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::scriptFilePath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript17setScriptFilePathERK7QString"><code class="docutils literal notranslate"><span class="pre">PythonScript::setScriptFilePath()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4NK8Avogadro5QtGui12PythonScript9hasErrorsEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::hasErrors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript11clearErrorsEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::clearErrors()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4NK8Avogadro5QtGui12PythonScript9errorListEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::errorList()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript27setDefaultPythonInterpreterEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::setDefaultPythonInterpreter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript7executeERK11QStringListRK10QByteArray"><code class="docutils literal notranslate"><span class="pre">PythonScript::execute()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript12asyncExecuteERK11QStringListRK10QByteArray"><code class="docutils literal notranslate"><span class="pre">PythonScript::asyncExecute()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript21asyncWriteAndResponseE10QByteArray"><code class="docutils literal notranslate"><span class="pre">PythonScript::asyncWriteAndResponse()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript14asyncTerminateEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::asyncTerminate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript13asyncResponseEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::asyncResponse()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript8setDebugEb"><code class="docutils literal notranslate"><span class="pre">PythonScript::setDebug()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript15processFinishedEiN8QProcess10ExitStatusE"><code class="docutils literal notranslate"><span class="pre">PythonScript::processFinished()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript8finishedEv"><code class="docutils literal notranslate"><span class="pre">PythonScript::finished()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript7m_debugE"><code class="docutils literal notranslate"><span class="pre">PythonScript::m_debug</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript19m_pythonInterpreterE"><code class="docutils literal notranslate"><span class="pre">PythonScript::m_pythonInterpreter</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript16m_scriptFilePathE"><code class="docutils literal notranslate"><span class="pre">PythonScript::m_scriptFilePath</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript8m_errorsE"><code class="docutils literal notranslate"><span class="pre">PythonScript::m_errors</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_python_script.html#_CPPv4N8Avogadro5QtGui12PythonScript9m_processE"><code class="docutils literal notranslate"><span class="pre">PythonScript::m_process</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_atom.html">Class Avogadro::QtGui::RWAtom</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_atom.html#_CPPv4N8Avogadro5QtGui6RWAtomE"><code class="docutils literal notranslate"><span class="pre">RWAtom</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_atom.html#_CPPv4N8Avogadro5QtGui6RWAtom6RWAtomEv"><code class="docutils literal notranslate"><span class="pre">RWAtom::RWAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_atom.html#_CPPv4N8Avogadro5QtGui6RWAtom6RWAtomEP10RWMolecule5Index"><code class="docutils literal notranslate"><span class="pre">RWAtom::RWAtom()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_bond.html">Class Avogadro::QtGui::RWBond</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_bond.html#_CPPv4N8Avogadro5QtGui6RWBondE"><code class="docutils literal notranslate"><span class="pre">RWBond</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_bond.html#_CPPv4N8Avogadro5QtGui6RWBond6RWBondEv"><code class="docutils literal notranslate"><span class="pre">RWBond::RWBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_bond.html#_CPPv4N8Avogadro5QtGui6RWBond6RWBondEP10RWMolecule5Index"><code class="docutils literal notranslate"><span class="pre">RWBond::RWBond()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html">Class Avogadro::QtGui::RWMolecule</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMoleculeE"><code class="docutils literal notranslate"><span class="pre">RWMolecule</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule12atomUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule12atomUniqueIdERK8AtomType"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10removeAtomE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::removeAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10removeAtomERK8AtomType"><code class="docutils literal notranslate"><span class="pre">RWMolecule::removeAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule7addBondE5Index5Indexh"><code class="docutils literal notranslate"><span class="pre">RWMolecule::addBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule7addBondERK8AtomTypeRK8AtomTypeh"><code class="docutils literal notranslate"><span class="pre">RWMolecule::addBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10removeBondE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10removeBondERK8BondType"><code class="docutils literal notranslate"><span class="pre">RWMolecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10removeBondE5Index5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10removeBondERK8AtomTypeRK8AtomType"><code class="docutils literal notranslate"><span class="pre">RWMolecule::removeBond()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule9undoStackEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::undoStack()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule9undoStackEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::undoStack()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule8AtomTypeE"><code class="docutils literal notranslate"><span class="pre">RWMolecule::AtomType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule18PersistentAtomTypeE"><code class="docutils literal notranslate"><span class="pre">RWMolecule::PersistentAtomType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule8BondTypeE"><code class="docutils literal notranslate"><span class="pre">RWMolecule::BondType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule18PersistentBondTypeE"><code class="docutils literal notranslate"><span class="pre">RWMolecule::PersistentBondType</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10RWMoleculeER8MoleculeP7QObject"><code class="docutils literal notranslate"><span class="pre">RWMolecule::RWMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMoleculeD0Ev"><code class="docutils literal notranslate"><span class="pre">RWMolecule::~RWMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule8moleculeEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule8moleculeEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule7addAtomEhb"><code class="docutils literal notranslate"><span class="pre">RWMolecule::addAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule7addAtomEhRK7Vector3"><code class="docutils literal notranslate"><span class="pre">RWMolecule::addAtom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule4atomE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atom()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule14atomByUniqueIdE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomByUniqueId()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule9atomCountEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule9atomCountEh"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule10clearAtomsEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::clearAtoms()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule15adjustHydrogensE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::adjustHydrogens()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule15adjustHydrogensERKN4Core5ArrayI5IndexEE"><code class="docutils literal notranslate"><span class="pre">RWMolecule::adjustHydrogens()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule13atomicNumbersEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomicNumbers()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule12atomicNumberE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomicNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule16setAtomicNumbersERKN4Core5ArrayIhEE"><code class="docutils literal notranslate"><span class="pre">RWMolecule::setAtomicNumbers()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule15setAtomicNumberE5Indexh"><code class="docutils literal notranslate"><span class="pre">RWMolecule::setAtomicNumber()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule15atomPositions3dEv"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomPositions3d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule14atomPosition3dE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomPosition3d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule18setAtomPositions3dERKN4Core5ArrayI7Vector3EERK7QString"><code class="docutils literal notranslate"><span class="pre">RWMolecule::setAtomPositions3d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule17setAtomPosition3dE5IndexRK7Vector3RK7QString"><code class="docutils literal notranslate"><span class="pre">RWMolecule::setAtomPosition3d()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule9atomLabelE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomLabel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule12setAtomLabelE5IndexRKNSt6stringERK7QString"><code class="docutils literal notranslate"><span class="pre">RWMolecule::setAtomLabel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule15setAtomSelectedE5IndexbRK7QString"><code class="docutils literal notranslate"><span class="pre">RWMolecule::setAtomSelected()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4NK8Avogadro5QtGui10RWMolecule12atomSelectedE5Index"><code class="docutils literal notranslate"><span class="pre">RWMolecule::atomSelected()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_r_w_molecule.html#_CPPv4N8Avogadro5QtGui10RWMolecule17setAtomPosition2dE5IndexRK7Vector2"><code class="docutils literal notranslate"><span class="pre">RWMolecule::setAtomPosition2d()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4N8Avogadro5QtGui11ScenePlugin15processEditableERK10RWMoleculeRN9Rendering9GroupNodeE"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::processEditable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4NK8Avogadro5QtGui11ScenePlugin4nameEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4NK8Avogadro5QtGui11ScenePlugin11descriptionEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4NK8Avogadro5QtGui11ScenePlugin9isEnabledEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::isEnabled()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4NK8Avogadro5QtGui11ScenePlugin20isActiveLayerEnabledEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::isActiveLayerEnabled()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4N8Avogadro5QtGui11ScenePlugin10setEnabledEb"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::setEnabled()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4N8Avogadro5QtGui11ScenePlugin11setupWidgetEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::setupWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4NK8Avogadro5QtGui11ScenePlugin14hasSetupWidgetEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::hasSetupWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4NK8Avogadro5QtGui11ScenePlugin15defaultBehaviorEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::defaultBehavior()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4N8Avogadro5QtGui11ScenePlugin16drawablesChangedEv"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::drawablesChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin.html#_CPPv4N8Avogadro5QtGui11ScenePlugin14m_layerManagerE"><code class="docutils literal notranslate"><span class="pre">ScenePlugin::m_layerManager</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_factory.html">Class Avogadro::QtGui::ScenePluginFactory</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_factory.html#_CPPv4N8Avogadro5QtGui18ScenePluginFactoryE"><code class="docutils literal notranslate"><span class="pre">ScenePluginFactory</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_factory.html#_CPPv4N8Avogadro5QtGui18ScenePluginFactoryD0Ev"><code class="docutils literal notranslate"><span class="pre">ScenePluginFactory::~ScenePluginFactory()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html">Class Avogadro::QtGui::ScenePluginModel</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModelE"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel16ScenePluginModelEP7QObject"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::ScenePluginModel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel6parentERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::parent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel8rowCountERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::rowCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel11columnCountERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::columnCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel5flagsERK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::flags()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel7setDataERK11QModelIndexRK8QVarianti"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::setData()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel4dataERK11QModelIndexi"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::data()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel5indexEiiRK11QModelIndex"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::index()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel5clearEv"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel12scenePluginsEv"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::scenePlugins()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4NK8Avogadro5QtGui16ScenePluginModel18activeScenePluginsEv"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::activeScenePlugins()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel7addItemEPN8Avogadro5QtGui11ScenePluginE"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::addItem()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel10removeItemEPN8Avogadro5QtGui11ScenePluginE"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::removeItem()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel11itemChangedEv"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::itemChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel18pluginStateChangedEPN8Avogadro5QtGui11ScenePluginE"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::pluginStateChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_scene_plugin_model.html#_CPPv4N8Avogadro5QtGui16ScenePluginModel19pluginConfigChangedEv"><code class="docutils literal notranslate"><span class="pre">ScenePluginModel::pluginConfigChanged()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_script_loader.html">Class Avogadro::QtGui::ScriptLoader</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_script_loader.html#_CPPv4N8Avogadro5QtGui12ScriptLoaderE"><code class="docutils literal notranslate"><span class="pre">ScriptLoader</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_script_loader.html#_CPPv4N8Avogadro5QtGui12ScriptLoader12ScriptLoaderEP7QObject"><code class="docutils literal notranslate"><span class="pre">ScriptLoader::ScriptLoader()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_script_loader.html#_CPPv4N8Avogadro5QtGui12ScriptLoaderD0Ev"><code class="docutils literal notranslate"><span class="pre">ScriptLoader::~ScriptLoader()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_script_loader.html#_CPPv4N8Avogadro5QtGui12ScriptLoader10scriptListERK7QString"><code class="docutils literal notranslate"><span class="pre">ScriptLoader::scriptList()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_script_loader.html#_CPPv4N8Avogadro5QtGui12ScriptLoader16queryProgramNameERK7QStringR7QString"><code class="docutils literal notranslate"><span class="pre">ScriptLoader::queryProgramName()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html">Class Avogadro::QtGui::ToolPlugin</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPluginE"><code class="docutils literal notranslate"><span class="pre">ToolPlugin</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin15mousePressEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::mousePressEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin17mouseReleaseEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::mouseReleaseEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin14mouseMoveEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::mouseMoveEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin21mouseDoubleClickEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::mouseDoubleClickEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin10wheelEventEP11QWheelEvent"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::wheelEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin13keyPressEventEP9QKeyEvent"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::keyPressEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin15keyReleaseEventEP9QKeyEvent"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::keyReleaseEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin10ToolPluginEP7QObject"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::ToolPlugin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPluginD0Ev"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::~ToolPlugin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4NK8Avogadro5QtGui10ToolPlugin4nameEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::name()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4NK8Avogadro5QtGui10ToolPlugin11descriptionEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::description()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4NK8Avogadro5QtGui10ToolPlugin8priorityEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::priority()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4NK8Avogadro5QtGui10ToolPlugin14activateActionEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::activateAction()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin7setIconEb"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::setIcon()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4NK8Avogadro5QtGui10ToolPlugin10toolWidgetEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::toolWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin4drawERN9Rendering9GroupNodeE"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::draw()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin13handleCommandERK7QStringRK11QVariantMap"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::handleCommand()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin16registerCommandsEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::registerCommands()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin11setMoleculeEPN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin15setEditMoleculeEPN5QtGui10RWMoleculeE"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::setEditMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin11setGLWidgetEPN8QtOpenGL8GLWidgetE"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::setGLWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin15setActiveWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::setActiveWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin13setGLRendererEPN9Rendering10GLRendererE"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::setGLRenderer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin16drawablesChangedEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::drawablesChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin15updateRequestedEv"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::updateRequested()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin15registerCommandE7QString7QString"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::registerCommand()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin.html#_CPPv4N8Avogadro5QtGui10ToolPlugin25requestActiveDisplayTypesE11QStringList"><code class="docutils literal notranslate"><span class="pre">ToolPlugin::requestActiveDisplayTypes()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin_factory.html">Class Avogadro::QtGui::ToolPluginFactory</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin_factory.html#_CPPv4N8Avogadro5QtGui17ToolPluginFactoryE"><code class="docutils literal notranslate"><span class="pre">ToolPluginFactory</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin_factory.html#_CPPv4N8Avogadro5QtGui17ToolPluginFactoryD0Ev"><code class="docutils literal notranslate"><span class="pre">ToolPluginFactory::~ToolPluginFactory()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin_factory.html#_CPPv4N8Avogadro5QtGui17ToolPluginFactory14createInstanceEP7QObject"><code class="docutils literal notranslate"><span class="pre">ToolPluginFactory::createInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_tool_plugin_factory.html#_CPPv4NK8Avogadro5QtGui17ToolPluginFactory10identifierEv"><code class="docutils literal notranslate"><span class="pre">ToolPluginFactory::identifier()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_view_factory.html">Class Avogadro::QtGui::ViewFactory</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_view_factory.html#_CPPv4N8Avogadro5QtGui11ViewFactoryE"><code class="docutils literal notranslate"><span class="pre">ViewFactory</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_view_factory.html#_CPPv4N8Avogadro5QtGui11ViewFactory11ViewFactoryEv"><code class="docutils literal notranslate"><span class="pre">ViewFactory::ViewFactory()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_view_factory.html#_CPPv4N8Avogadro5QtGui11ViewFactoryD0Ev"><code class="docutils literal notranslate"><span class="pre">ViewFactory::~ViewFactory()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_view_factory.html#_CPPv4NK8Avogadro5QtGui11ViewFactory5viewsEv"><code class="docutils literal notranslate"><span class="pre">ViewFactory::views()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_view_factory.html#_CPPv4N8Avogadro5QtGui11ViewFactory10createViewERK7QString"><code class="docutils literal notranslate"><span class="pre">ViewFactory::createView()</span></code></a></li>
-</ul>
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-</ul>
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-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html">Class Avogadro::QtOpenGL::ActiveObjects</a><ul>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4NK8Avogadro8QtOpenGL13ActiveObjects14activeGLWidgetEv"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::activeGLWidget()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4NK8Avogadro8QtOpenGL13ActiveObjects14activeMoleculeEv"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::activeMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4N8Avogadro8QtOpenGL13ActiveObjects17setActiveGLWidgetEP8GLWidget"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::setActiveGLWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4N8Avogadro8QtOpenGL13ActiveObjects15setActiveWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::setActiveWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4N8Avogadro8QtOpenGL13ActiveObjects17setActiveMoleculeEPN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::setActiveMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4N8Avogadro8QtOpenGL13ActiveObjects21activeGLWidgetChangedEP8GLWidget"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::activeGLWidgetChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4N8Avogadro8QtOpenGL13ActiveObjects19activeWidgetChangedEP7QWidget"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::activeWidgetChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4N8Avogadro8QtOpenGL13ActiveObjects21activeMoleculeChangedEPN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::activeMoleculeChanged()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_active_objects.html#_CPPv4N8Avogadro8QtOpenGL13ActiveObjects8instanceEv"><code class="docutils literal notranslate"><span class="pre">ActiveObjects::instance()</span></code></a></li>
-</ul>
-</li>
-</ul>
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-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html">Class Avogadro::QtOpenGL::GLWidget</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidgetE"><code class="docutils literal notranslate"><span class="pre">GLWidget</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget8moleculeEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4NK8Avogadro8QtOpenGL8GLWidget8moleculeEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::molecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget10sceneModelEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::sceneModel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4NK8Avogadro8QtOpenGL8GLWidget10sceneModelEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::sceneModel()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget13setActiveToolERK7QString"><code class="docutils literal notranslate"><span class="pre">GLWidget::setActiveTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget13setActiveToolEPN5QtGui10ToolPluginE"><code class="docutils literal notranslate"><span class="pre">GLWidget::setActiveTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget14setDefaultToolERK7QString"><code class="docutils literal notranslate"><span class="pre">GLWidget::setDefaultTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget14setDefaultToolEPN5QtGui10ToolPluginE"><code class="docutils literal notranslate"><span class="pre">GLWidget::setDefaultTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget21mouseDoubleClickEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">GLWidget::mouseDoubleClickEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget15mousePressEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">GLWidget::mousePressEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget14mouseMoveEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">GLWidget::mouseMoveEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget17mouseReleaseEventEP11QMouseEvent"><code class="docutils literal notranslate"><span class="pre">GLWidget::mouseReleaseEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget10wheelEventEP11QWheelEvent"><code class="docutils literal notranslate"><span class="pre">GLWidget::wheelEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget13keyPressEventEP9QKeyEvent"><code class="docutils literal notranslate"><span class="pre">GLWidget::keyPressEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget15keyReleaseEventEP9QKeyEvent"><code class="docutils literal notranslate"><span class="pre">GLWidget::keyReleaseEvent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget8GLWidgetEP7QWidget"><code class="docutils literal notranslate"><span class="pre">GLWidget::GLWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidgetD0Ev"><code class="docutils literal notranslate"><span class="pre">GLWidget::~GLWidget()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget11setMoleculeEPN5QtGui8MoleculeE"><code class="docutils literal notranslate"><span class="pre">GLWidget::setMolecule()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget8rendererEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::renderer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4NK8Avogadro8QtOpenGL8GLWidget5toolsEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::tools()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4NK8Avogadro8QtOpenGL8GLWidget10activeToolEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::activeTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4NK8Avogadro8QtOpenGL8GLWidget11defaultToolEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::defaultTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4NK8Avogadro8QtOpenGL8GLWidget7isValidEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4NK8Avogadro8QtOpenGL8GLWidget5errorEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::error()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget11updateSceneEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::updateScene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget10clearSceneEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::clearScene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget11resetCameraEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::resetCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget13resetGeometryEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::resetGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget8setToolsERK5QListIPN5QtGui10ToolPluginEE"><code class="docutils literal notranslate"><span class="pre">GLWidget::setTools()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget7addToolEPN5QtGui10ToolPluginE"><code class="docutils literal notranslate"><span class="pre">GLWidget::addTool()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget13requestUpdateEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::requestUpdate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget15rendererInvalidEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::rendererInvalid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget12initializeGLEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::initializeGL()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget8resizeGLEii"><code class="docutils literal notranslate"><span class="pre">GLWidget::resizeGL()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget7paintGLEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::paintGL()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_g_l_widget.html#_CPPv4N8Avogadro8QtOpenGL8GLWidget13updateTimeoutEv"><code class="docutils literal notranslate"><span class="pre">GLWidget::updateTimeout()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html">Class Avogadro::QtOpenGL::QtTextRenderStrategy</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4N8Avogadro8QtOpenGL20QtTextRenderStrategyE"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4NK8Avogadro8QtOpenGL20QtTextRenderStrategy12preserveArgbEv"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy::preserveArgb()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4N8Avogadro8QtOpenGL20QtTextRenderStrategy15setPreserveArgbEb"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy::setPreserveArgb()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4N8Avogadro8QtOpenGL20QtTextRenderStrategy20QtTextRenderStrategyEv"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy::QtTextRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4N8Avogadro8QtOpenGL20QtTextRenderStrategyD0Ev"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy::~QtTextRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4NK8Avogadro8QtOpenGL20QtTextRenderStrategy11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4NK8Avogadro8QtOpenGL20QtTextRenderStrategy11boundingBoxERKNSt6stringERKN9Rendering14TextPropertiesEAL4E_i"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy::boundingBox()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_qt_open_g_l_1_1_qt_text_render_strategy.html#_CPPv4NK8Avogadro8QtOpenGL20QtTextRenderStrategy6renderERKNSt6stringERKN9Rendering14TextPropertiesEPhRK8Vector2i"><code class="docutils literal notranslate"><span class="pre">QtTextRenderStrategy::render()</span></code></a></li>
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-<li class="toctree-l1"><a class="reference internal" href="rendering.html">Rendering Classes</a><ul>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html">Class Avogadro::Rendering::AmbientOcclusionSphereGeometry</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometryE"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry30AmbientOcclusionSphereGeometryEv"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::AmbientOcclusionSphereGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry30AmbientOcclusionSphereGeometryERK30AmbientOcclusionSphereGeometry"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::AmbientOcclusionSphereGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometryD0Ev"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::~AmbientOcclusionSphereGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometryaSE30AmbientOcclusionSphereGeometry"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry6updateEv"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::update()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4NK8Avogadro9Rendering30AmbientOcclusionSphereGeometry4hitsERK8Vector3fRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::hits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry9addSphereERK8Vector3fRK9Vector3ubf6size_t"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::addSphere()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry7spheresEv"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::spheres()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4NK8Avogadro9Rendering30AmbientOcclusionSphereGeometry7spheresEv"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::spheres()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry5clearEv"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4NK8Avogadro9Rendering30AmbientOcclusionSphereGeometry4sizeEv"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::size()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html#_CPPv4N8Avogadro9Rendering30AmbientOcclusionSphereGeometry4swapER30AmbientOcclusionSphereGeometryR30AmbientOcclusionSphereGeometry"><code class="docutils literal notranslate"><span class="pre">AmbientOcclusionSphereGeometry::swap()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html">Class Avogadro::Rendering::ArrowGeometry</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometryE"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry14addSingleArrowERK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::addSingleArrow()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry13ArrowGeometryEv"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::ArrowGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry13ArrowGeometryERK13ArrowGeometry"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::ArrowGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometryD0Ev"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::~ArrowGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometryaSE13ArrowGeometry"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry5clearEv"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry8drawLineERK8Vector3fRK8Vector3fd"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::drawLine()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry8drawConeERK8Vector3fRK8Vector3fdd"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::drawCone()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4NK8Avogadro9Rendering13ArrowGeometry8verticesEv"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::vertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry12InvalidIndexE"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::InvalidIndex</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_arrow_geometry.html#_CPPv4N8Avogadro9Rendering13ArrowGeometry4swapER13ArrowGeometryR13ArrowGeometry"><code class="docutils literal notranslate"><span class="pre">ArrowGeometry::swap()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html">Class Avogadro::Rendering::BufferObject</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObjectE"><code class="docutils literal notranslate"><span class="pre">BufferObject</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObject10ObjectTypeE"><code class="docutils literal notranslate"><span class="pre">BufferObject::ObjectType</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObject10ObjectType11ArrayBufferE"><code class="docutils literal notranslate"><span class="pre">BufferObject::ObjectType::ArrayBuffer</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObject10ObjectType18ElementArrayBufferE"><code class="docutils literal notranslate"><span class="pre">BufferObject::ObjectType::ElementArrayBuffer</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObject12BufferObjectE10ObjectType"><code class="docutils literal notranslate"><span class="pre">BufferObject::BufferObject()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObjectD0Ev"><code class="docutils literal notranslate"><span class="pre">BufferObject::~BufferObject()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4NK8Avogadro9Rendering12BufferObject4typeEv"><code class="docutils literal notranslate"><span class="pre">BufferObject::type()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4NK8Avogadro9Rendering12BufferObject6handleEv"><code class="docutils literal notranslate"><span class="pre">BufferObject::handle()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4NK8Avogadro9Rendering12BufferObject5readyEv"><code class="docutils literal notranslate"><span class="pre">BufferObject::ready()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4I0EN8Avogadro9Rendering12BufferObject6uploadEbRK10ContainerT10ObjectType"><code class="docutils literal notranslate"><span class="pre">BufferObject::upload()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObject4bindEv"><code class="docutils literal notranslate"><span class="pre">BufferObject::bind()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4N8Avogadro9Rendering12BufferObject7releaseEv"><code class="docutils literal notranslate"><span class="pre">BufferObject::release()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html#_CPPv4NK8Avogadro9Rendering12BufferObject5errorEv"><code class="docutils literal notranslate"><span class="pre">BufferObject::error()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html">Class Avogadro::Rendering::Camera</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6CameraE"><code class="docutils literal notranslate"><span class="pre">Camera</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera6CameraEv"><code class="docutils literal notranslate"><span class="pre">Camera::Camera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera6CameraERK6Camera"><code class="docutils literal notranslate"><span class="pre">Camera::Camera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6CameraaSERK6Camera"><code class="docutils literal notranslate"><span class="pre">Camera::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6CameraD0Ev"><code class="docutils literal notranslate"><span class="pre">Camera::~Camera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera9translateERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::translate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera12preTranslateERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::preTranslate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera6rotateEfRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::rotate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera9preRotateEfRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::preRotate()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera5scaleEf"><code class="docutils literal notranslate"><span class="pre">Camera::scale()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera6lookAtERK8Vector3fRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::lookAt()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera8distanceERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::distance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera7projectERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::project()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera9unProjectERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::unProject()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera9unProjectERK8Vector2fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Camera::unProject()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera20calculatePerspectiveEffff"><code class="docutils literal notranslate"><span class="pre">Camera::calculatePerspective()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera20calculatePerspectiveEfff"><code class="docutils literal notranslate"><span class="pre">Camera::calculatePerspective()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera20calculatePerspectiveEffffff"><code class="docutils literal notranslate"><span class="pre">Camera::calculatePerspective()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera21calculateOrthographicEffffff"><code class="docutils literal notranslate"><span class="pre">Camera::calculateOrthographic()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera11setViewportEii"><code class="docutils literal notranslate"><span class="pre">Camera::setViewport()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera5widthEv"><code class="docutils literal notranslate"><span class="pre">Camera::width()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera6heightEv"><code class="docutils literal notranslate"><span class="pre">Camera::height()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera11setIdentityEv"><code class="docutils literal notranslate"><span class="pre">Camera::setIdentity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera13setProjectionERKN5Eigen8Affine3fE"><code class="docutils literal notranslate"><span class="pre">Camera::setProjection()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera10projectionEv"><code class="docutils literal notranslate"><span class="pre">Camera::projection()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera12setModelViewERKN5Eigen8Affine3fE"><code class="docutils literal notranslate"><span class="pre">Camera::setModelView()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera9modelViewEv"><code class="docutils literal notranslate"><span class="pre">Camera::modelView()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera17setProjectionTypeE10Projection"><code class="docutils literal notranslate"><span class="pre">Camera::setProjectionType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera14projectionTypeEv"><code class="docutils literal notranslate"><span class="pre">Camera::projectionType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera20setOrthographicScaleEf"><code class="docutils literal notranslate"><span class="pre">Camera::setOrthographicScale()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera17orthographicScaleEv"><code class="docutils literal notranslate"><span class="pre">Camera::orthographicScale()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4N8Avogadro9Rendering6Camera8setFocusERKN5Eigen8Vector3fE"><code class="docutils literal notranslate"><span class="pre">Camera::setFocus()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_camera.html#_CPPv4NK8Avogadro9Rendering6Camera5focusEv"><code class="docutils literal notranslate"><span class="pre">Camera::focus()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html">Class Avogadro::Rendering::Cylinder</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4N8Avogadro9Rendering8CylinderE"><code class="docutils literal notranslate"><span class="pre">Cylinder</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4N8Avogadro9Rendering8Cylinder8CylinderERK8Vector3fRK8Vector3fffN9Primitive10IdentifierERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">Cylinder::Cylinder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4NK8Avogadro9Rendering8Cylinder8positionEv"><code class="docutils literal notranslate"><span class="pre">Cylinder::position()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4N8Avogadro9Rendering8Cylinder11setPositionERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Cylinder::setPosition()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4NK8Avogadro9Rendering8Cylinder9directionEv"><code class="docutils literal notranslate"><span class="pre">Cylinder::direction()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4N8Avogadro9Rendering8Cylinder12setDirectionERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Cylinder::setDirection()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4NK8Avogadro9Rendering8Cylinder6lengthEv"><code class="docutils literal notranslate"><span class="pre">Cylinder::length()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4N8Avogadro9Rendering8Cylinder9setLengthEf"><code class="docutils literal notranslate"><span class="pre">Cylinder::setLength()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4NK8Avogadro9Rendering8Cylinder6radiusEv"><code class="docutils literal notranslate"><span class="pre">Cylinder::radius()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder.html#_CPPv4N8Avogadro9Rendering8Cylinder9setRadiusEf"><code class="docutils literal notranslate"><span class="pre">Cylinder::setRadius()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html">Class Avogadro::Rendering::CylinderGeometry</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometryE"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry16CylinderGeometryEv"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::CylinderGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry16CylinderGeometryERK16CylinderGeometry"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::CylinderGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometryD0Ev"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::~CylinderGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometryaSE16CylinderGeometry"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry6updateEv"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::update()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4NK8Avogadro9Rendering16CylinderGeometry4hitsERK8Vector3fRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::hits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry11addCylinderERK8Vector3fRK8Vector3ffRK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::addCylinder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry11addCylinderERK8Vector3fRK8Vector3ffRK9Vector3ubRK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::addCylinder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry11addCylinderERK8Vector3fRK8Vector3ffRK9Vector3ub6size_t"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::addCylinder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry11addCylinderERK8Vector3fRK8Vector3ffRK9Vector3ubRK9Vector3ub6size_t"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::addCylinder()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry9cylindersEv"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::cylinders()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4NK8Avogadro9Rendering16CylinderGeometry9cylindersEv"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::cylinders()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry5clearEv"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4NK8Avogadro9Rendering16CylinderGeometry4sizeEv"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::size()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_cylinder_geometry.html#_CPPv4N8Avogadro9Rendering16CylinderGeometry4swapER16CylinderGeometryR16CylinderGeometry"><code class="docutils literal notranslate"><span class="pre">CylinderGeometry::swap()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html">Class Avogadro::Rendering::Drawable</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8DrawableE"><code class="docutils literal notranslate"><span class="pre">Drawable</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable13setRenderPassE10RenderPass"><code class="docutils literal notranslate"><span class="pre">Drawable::setRenderPass()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4NK8Avogadro9Rendering8Drawable10renderPassEv"><code class="docutils literal notranslate"><span class="pre">Drawable::renderPass()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable8DrawableEv"><code class="docutils literal notranslate"><span class="pre">Drawable::Drawable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable8DrawableERK8Drawable"><code class="docutils literal notranslate"><span class="pre">Drawable::Drawable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8DrawableD0Ev"><code class="docutils literal notranslate"><span class="pre">Drawable::~Drawable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8DrawableaSE8Drawable"><code class="docutils literal notranslate"><span class="pre">Drawable::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">Drawable::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4NK8Avogadro9Rendering8Drawable6parentEv"><code class="docutils literal notranslate"><span class="pre">Drawable::parent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable6parentEv"><code class="docutils literal notranslate"><span class="pre">Drawable::parent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable10setVisibleEb"><code class="docutils literal notranslate"><span class="pre">Drawable::setVisible()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4NK8Avogadro9Rendering8Drawable9isVisibleEv"><code class="docutils literal notranslate"><span class="pre">Drawable::isVisible()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">Drawable::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable10identifierEv"><code class="docutils literal notranslate"><span class="pre">Drawable::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4NK8Avogadro9Rendering8Drawable10identifierEv"><code class="docutils literal notranslate"><span class="pre">Drawable::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4NK8Avogadro9Rendering8Drawable4hitsERK8Vector3fRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Drawable::hits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4NK8Avogadro9Rendering8Drawable8areaHitsERK8Frustrum"><code class="docutils literal notranslate"><span class="pre">Drawable::areaHits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable5clearEv"><code class="docutils literal notranslate"><span class="pre">Drawable::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable9setParentEP12GeometryNode"><code class="docutils literal notranslate"><span class="pre">Drawable::setParent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable8m_parentE"><code class="docutils literal notranslate"><span class="pre">Drawable::m_parent</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable9m_visibleE"><code class="docutils literal notranslate"><span class="pre">Drawable::m_visible</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable12m_renderPassE"><code class="docutils literal notranslate"><span class="pre">Drawable::m_renderPass</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable12m_identifierE"><code class="docutils literal notranslate"><span class="pre">Drawable::m_identifier</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_drawable.html#_CPPv4N8Avogadro9Rendering8Drawable4swapER8DrawableR8Drawable"><code class="docutils literal notranslate"><span class="pre">Drawable::swap()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html">Class Avogadro::Rendering::GLRenderVisitor</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitorE"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor13setRenderPassE10RenderPass"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::setRenderPass()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4NK8Avogadro9Rendering15GLRenderVisitor10renderPassEv"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::renderPass()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor21setTextRenderStrategyEP18TextRenderStrategy"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::setTextRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4NK8Avogadro9Rendering15GLRenderVisitor18textRenderStrategyEv"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::textRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor15GLRenderVisitorERK6CameraPK18TextRenderStrategy"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::GLRenderVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitorD0Ev"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::~GLRenderVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER4Node"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER9GroupNode"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER12GeometryNode"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER8Drawable"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER30AmbientOcclusionSphereGeometry"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER13CurveGeometry"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER16CylinderGeometry"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER11TextLabel2D"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER11TextLabel3D"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor5visitER17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4N8Avogadro9Rendering15GLRenderVisitor9setCameraERK6Camera"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::setCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_render_visitor.html#_CPPv4NK8Avogadro9Rendering15GLRenderVisitor6cameraEv"><code class="docutils literal notranslate"><span class="pre">GLRenderVisitor::camera()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html">Class Avogadro::Rendering::GLRenderer</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRendererE"><code class="docutils literal notranslate"><span class="pre">GLRenderer</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer18textRenderStrategyEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::textRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer18textRenderStrategyEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::textRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer21setTextRenderStrategyEP18TextRenderStrategy"><code class="docutils literal notranslate"><span class="pre">GLRenderer::setTextRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer10GLRendererEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::GLRenderer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRendererD0Ev"><code class="docutils literal notranslate"><span class="pre">GLRenderer::~GLRenderer()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer10initializeEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::initialize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer6resizeEii"><code class="docutils literal notranslate"><span class="pre">GLRenderer::resize()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer13setPixelRatioEf"><code class="docutils literal notranslate"><span class="pre">GLRenderer::setPixelRatio()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer6renderEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer11resetCameraEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::resetCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer13resetGeometryEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::resetGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer4hitsEii"><code class="docutils literal notranslate"><span class="pre">GLRenderer::hits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer3hitEii"><code class="docutils literal notranslate"><span class="pre">GLRenderer::hit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer3hitERK8Vector3fRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">GLRenderer::hit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer4hitsEiiii"><code class="docutils literal notranslate"><span class="pre">GLRenderer::hits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer7isValidEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::isValid()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer5errorEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::error()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer6cameraEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::camera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer6cameraEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::camera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer13overlayCameraEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::overlayCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer13overlayCameraEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::overlayCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer5sceneEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::scene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer5sceneEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::scene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4NK8Avogadro9Rendering10GLRenderer13solidPipelineEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::solidPipeline()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer13solidPipelineEv"><code class="docutils literal notranslate"><span class="pre">GLRenderer::solidPipeline()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer20m_perspectiveFrustumE"><code class="docutils literal notranslate"><span class="pre">GLRenderer::m_perspectiveFrustum</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_g_l_renderer.html#_CPPv4N8Avogadro9Rendering10GLRenderer21m_orthographicFrustumE"><code class="docutils literal notranslate"><span class="pre">GLRenderer::m_orthographicFrustum</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html">Class Avogadro::Rendering::GeometryNode</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNodeE"><code class="docutils literal notranslate"><span class="pre">GeometryNode</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode12GeometryNodeEv"><code class="docutils literal notranslate"><span class="pre">GeometryNode::GeometryNode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNodeD0Ev"><code class="docutils literal notranslate"><span class="pre">GeometryNode::~GeometryNode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">GeometryNode::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode11addDrawableEP8Drawable"><code class="docutils literal notranslate"><span class="pre">GeometryNode::addDrawable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode14removeDrawableEP8Drawable"><code class="docutils literal notranslate"><span class="pre">GeometryNode::removeDrawable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode8drawableE6size_t"><code class="docutils literal notranslate"><span class="pre">GeometryNode::drawable()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode9drawablesEv"><code class="docutils literal notranslate"><span class="pre">GeometryNode::drawables()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4NK8Avogadro9Rendering12GeometryNode9drawablesEv"><code class="docutils literal notranslate"><span class="pre">GeometryNode::drawables()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode14clearDrawablesEv"><code class="docutils literal notranslate"><span class="pre">GeometryNode::clearDrawables()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">GeometryNode::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4NK8Avogadro9Rendering12GeometryNode4hitsERK8Vector3fRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">GeometryNode::hits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4NK8Avogadro9Rendering12GeometryNode8areaHitsERK8Frustrum"><code class="docutils literal notranslate"><span class="pre">GeometryNode::areaHits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_node.html#_CPPv4N8Avogadro9Rendering12GeometryNode11m_drawablesE"><code class="docutils literal notranslate"><span class="pre">GeometryNode::m_drawables</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html">Class Avogadro::Rendering::GeometryVisitor</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitorE"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor15GeometryVisitorEv"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::GeometryVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitorD0Ev"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::~GeometryVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER4Node"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER9GroupNode"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER12GeometryNode"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER8Drawable"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER30AmbientOcclusionSphereGeometry"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER13CurveGeometry"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER16CylinderGeometry"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER11TextLabel2D"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER11TextLabel3D"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5visitER17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor5clearEv"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor6centerEv"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::center()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_geometry_visitor.html#_CPPv4N8Avogadro9Rendering15GeometryVisitor6radiusEv"><code class="docutils literal notranslate"><span class="pre">GeometryVisitor::radius()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html">Class Avogadro::Rendering::GroupNode</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNodeE"><code class="docutils literal notranslate"><span class="pre">GroupNode</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeTypeE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeType</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeType3ALLE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeType::ALL</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeType4NONEE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeType::NONE</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeType2UIE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeType::UI</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeType8GEOMETRYE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeType::GEOMETRY</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode9GroupNodeEP9GroupNode"><code class="docutils literal notranslate"><span class="pre">GroupNode::GroupNode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNodeD0Ev"><code class="docutils literal notranslate"><span class="pre">GroupNode::~GroupNode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">GroupNode::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8addChildEP4Node8NodeType"><code class="docutils literal notranslate"><span class="pre">GroupNode::addChild()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode10addUIChildEP4Node"><code class="docutils literal notranslate"><span class="pre">GroupNode::addUIChild()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode11removeChildEP4Node"><code class="docutils literal notranslate"><span class="pre">GroupNode::removeChild()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode5childE6size_t"><code class="docutils literal notranslate"><span class="pre">GroupNode::child()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4NK8Avogadro9Rendering9GroupNode8hasChildEP4Node"><code class="docutils literal notranslate"><span class="pre">GroupNode::hasChild()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4NK8Avogadro9Rendering9GroupNode10childCountEv"><code class="docutils literal notranslate"><span class="pre">GroupNode::childCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8childrenEv"><code class="docutils literal notranslate"><span class="pre">GroupNode::children()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4NK8Avogadro9Rendering9GroupNode8childrenEv"><code class="docutils literal notranslate"><span class="pre">GroupNode::children()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode5clearEv"><code class="docutils literal notranslate"><span class="pre">GroupNode::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode7clearUIEv"><code class="docutils literal notranslate"><span class="pre">GroupNode::clearUI()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode5clearE8NodeType"><code class="docutils literal notranslate"><span class="pre">GroupNode::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode10m_childrenE"><code class="docutils literal notranslate"><span class="pre">GroupNode::m_children</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeInfoE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeInfo</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeInfo8NodeInfoEv"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeInfo::NodeInfo()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeInfo8NodeInfoEP4Node8NodeType"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeInfo::NodeInfo()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeInfo2uiE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeInfo::ui</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_group_node.html#_CPPv4N8Avogadro9Rendering9GroupNode8NodeInfo4nodeE"><code class="docutils literal notranslate"><span class="pre">GroupNode::NodeInfo::node</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html">Class Avogadro::Rendering::LineStripGeometry</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometryE"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12addLineStripERKN4Core5ArrayI8Vector3fEERKN4Core5ArrayI9Vector4ubEEf"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::addLineStrip()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12addLineStripERKN4Core5ArrayI8Vector3fEERKN4Core5ArrayI9Vector3ubEEf"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::addLineStrip()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12addLineStripERKN4Core5ArrayI8Vector3fEERK9Vector3ubf"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::addLineStrip()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12addLineStripERKN4Core5ArrayI8Vector3fEEf"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::addLineStrip()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry8setColorERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::setColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4NK8Avogadro9Rendering17LineStripGeometry5colorEv"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::color()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry10setOpacityEh"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::setOpacity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4NK8Avogadro9Rendering17LineStripGeometry7opacityEv"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::opacity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry17LineStripGeometryEv"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::LineStripGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry17LineStripGeometryERK17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::LineStripGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometryD0Ev"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::~LineStripGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometryaSE17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry5clearEv"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4NK8Avogadro9Rendering17LineStripGeometry8verticesEv"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::vertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12InvalidIndexE"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::InvalidIndex</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry4swapER17LineStripGeometryR17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::swap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12PackedVertexE"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::PackedVertex</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12PackedVertex12PackedVertexERK8Vector3fRK9Vector4ub"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::PackedVertex::PackedVertex()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12PackedVertex6vertexE"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::PackedVertex::vertex</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12PackedVertex5colorE"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::PackedVertex::color</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12PackedVertex12vertexOffsetEv"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::PackedVertex::vertexOffset()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_line_strip_geometry.html#_CPPv4N8Avogadro9Rendering17LineStripGeometry12PackedVertex11colorOffsetEv"><code class="docutils literal notranslate"><span class="pre">LineStripGeometry::PackedVertex::colorOffset()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html">Class Avogadro::Rendering::MeshGeometry</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometryE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry11addVerticesERKN4Core5ArrayI8Vector3fEERKN4Core5ArrayI8Vector3fEERKN4Core5ArrayI9Vector4ubEE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::addVertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry11addVerticesERKN4Core5ArrayI8Vector3fEERKN4Core5ArrayI8Vector3fEERKN4Core5ArrayI9Vector3ubEE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::addVertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry11addVerticesERKN4Core5ArrayI8Vector3fEERKN4Core5ArrayI8Vector3fEE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::addVertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry11addTriangleEjjj"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::addTriangle()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12addTrianglesERKN4Core5ArrayIjEE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::addTriangles()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry8setColorERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::setColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4NK8Avogadro9Rendering12MeshGeometry5colorEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::color()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry10setOpacityEh"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::setOpacity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4NK8Avogadro9Rendering12MeshGeometry7opacityEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::opacity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12MeshGeometryEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::MeshGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12MeshGeometryERK12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::MeshGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometryD0Ev"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::~MeshGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometryaSE12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry5clearEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4NK8Avogadro9Rendering12MeshGeometry11vertexCountEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::vertexCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4NK8Avogadro9Rendering12MeshGeometry10indexCountEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::indexCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4NK8Avogadro9Rendering12MeshGeometry13triangleCountEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::triangleCount()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry8verticesEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::vertices()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry9trianglesEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::triangles()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12InvalidIndexE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::InvalidIndex</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry4swapER12MeshGeometryR12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::swap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertexE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex12PackedVertexERK9Vector4ubRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::PackedVertex()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex5colorE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::color</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex6normalE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::normal</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex6vertexE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::vertex</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex7paddingE"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::padding</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex11colorOffsetEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::colorOffset()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex12normalOffsetEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::normalOffset()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_mesh_geometry.html#_CPPv4N8Avogadro9Rendering12MeshGeometry12PackedVertex12vertexOffsetEv"><code class="docutils literal notranslate"><span class="pre">MeshGeometry::PackedVertex::vertexOffset()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html">Class Avogadro::Rendering::Node</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4NodeE"><code class="docutils literal notranslate"><span class="pre">Node</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4Node4NodeEv"><code class="docutils literal notranslate"><span class="pre">Node::Node()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4NodeD0Ev"><code class="docutils literal notranslate"><span class="pre">Node::~Node()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4Node6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">Node::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4NK8Avogadro9Rendering4Node6parentEv"><code class="docutils literal notranslate"><span class="pre">Node::parent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4Node6parentEv"><code class="docutils literal notranslate"><span class="pre">Node::parent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4Node10setVisibleEb"><code class="docutils literal notranslate"><span class="pre">Node::setVisible()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4NK8Avogadro9Rendering4Node9isVisibleEv"><code class="docutils literal notranslate"><span class="pre">Node::isVisible()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4I0EN8Avogadro9Rendering4Node4castEP1Tv"><code class="docutils literal notranslate"><span class="pre">Node::cast()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4I0ENK8Avogadro9Rendering4Node4castEPK1Tv"><code class="docutils literal notranslate"><span class="pre">Node::cast()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4Node9setParentEP9GroupNode"><code class="docutils literal notranslate"><span class="pre">Node::setParent()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4Node8m_parentE"><code class="docutils literal notranslate"><span class="pre">Node::m_parent</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_node.html#_CPPv4N8Avogadro9Rendering4Node9m_visibleE"><code class="docutils literal notranslate"><span class="pre">Node::m_visible</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html">Class Avogadro::Rendering::POVRayVisitor</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitorE"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor13POVRayVisitorERK6Camera"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::POVRayVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitorD0Ev"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::~POVRayVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5beginEv"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::begin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor3endEv"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::end()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER4Node"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER9GroupNode"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER12GeometryNode"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER8Drawable"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER30AmbientOcclusionSphereGeometry"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER13CurveGeometry"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER16CylinderGeometry"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER11TextLabel2D"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER11TextLabel3D"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor5visitER17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor9setCameraERK6Camera"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::setCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4NK8Avogadro9Rendering13POVRayVisitor6cameraEv"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::camera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor18setBackgroundColorERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::setBackgroundColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor15setAmbientColorERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::setAmbientColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_p_o_v_ray_visitor.html#_CPPv4N8Avogadro9Rendering13POVRayVisitor14setAspectRatioEf"><code class="docutils literal notranslate"><span class="pre">POVRayVisitor::setAspectRatio()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html">Class Avogadro::Rendering::Primitive</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9PrimitiveE"><code class="docutils literal notranslate"><span class="pre">Primitive</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive4TypeE"><code class="docutils literal notranslate"><span class="pre">Primitive::Type</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive4Type7InvalidE"><code class="docutils literal notranslate"><span class="pre">Primitive::Type::Invalid</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive4Type4AtomE"><code class="docutils literal notranslate"><span class="pre">Primitive::Type::Atom</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive4Type4BondE"><code class="docutils literal notranslate"><span class="pre">Primitive::Type::Bond</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive9PrimitiveE10IdentifierRK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">Primitive::Primitive()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4NK8Avogadro9Rendering9Primitive10identifierEv"><code class="docutils literal notranslate"><span class="pre">Primitive::identifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive13setIdentifierE10Identifier"><code class="docutils literal notranslate"><span class="pre">Primitive::setIdentifier()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4NK8Avogadro9Rendering9Primitive5colorEv"><code class="docutils literal notranslate"><span class="pre">Primitive::color()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive8setColorERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">Primitive::setColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive10IdentifierE"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive10Identifier10IdentifierEv"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier::Identifier()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4NK8Avogadro9Rendering9Primitive10IdentifiereqERK10Identifier"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier::operator==()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4NK8Avogadro9Rendering9Primitive10IdentifierneERK10Identifier"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier::operator!=()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4NK8Avogadro9Rendering9Primitive10Identifier7isValidEv"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier::isValid()</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive10Identifier8moleculeE"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier::molecule</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive10Identifier4typeE"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier::type</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_primitive.html#_CPPv4N8Avogadro9Rendering9Primitive10Identifier5indexE"><code class="docutils literal notranslate"><span class="pre">Primitive::Identifier::index</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html">Class Avogadro::Rendering::Scene</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5SceneE"><code class="docutils literal notranslate"><span class="pre">Scene</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5Scene5SceneEv"><code class="docutils literal notranslate"><span class="pre">Scene::Scene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5SceneD0Ev"><code class="docutils literal notranslate"><span class="pre">Scene::~Scene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5Scene6centerEv"><code class="docutils literal notranslate"><span class="pre">Scene::center()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5Scene6radiusEv"><code class="docutils literal notranslate"><span class="pre">Scene::radius()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5Scene8rootNodeEv"><code class="docutils literal notranslate"><span class="pre">Scene::rootNode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4NK8Avogadro9Rendering5Scene8rootNodeEv"><code class="docutils literal notranslate"><span class="pre">Scene::rootNode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5Scene18setBackgroundColorERK9Vector4ub"><code class="docutils literal notranslate"><span class="pre">Scene::setBackgroundColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4NK8Avogadro9Rendering5Scene15backgroundColorEv"><code class="docutils literal notranslate"><span class="pre">Scene::backgroundColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5Scene8setDirtyEb"><code class="docutils literal notranslate"><span class="pre">Scene::setDirty()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4NK8Avogadro9Rendering5Scene7isDirtyEv"><code class="docutils literal notranslate"><span class="pre">Scene::isDirty()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_scene.html#_CPPv4N8Avogadro9Rendering5Scene5clearEv"><code class="docutils literal notranslate"><span class="pre">Scene::clear()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html">Class Avogadro::Rendering::Shader</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6ShaderE"><code class="docutils literal notranslate"><span class="pre">Shader</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader4TypeE"><code class="docutils literal notranslate"><span class="pre">Shader::Type</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader4Type6VertexE"><code class="docutils literal notranslate"><span class="pre">Shader::Type::Vertex</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader4Type8FragmentE"><code class="docutils literal notranslate"><span class="pre">Shader::Type::Fragment</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader4Type7UnknownE"><code class="docutils literal notranslate"><span class="pre">Shader::Type::Unknown</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader6ShaderE4TypeRKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Shader::Shader()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6ShaderD0Ev"><code class="docutils literal notranslate"><span class="pre">Shader::~Shader()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader7setTypeE4Type"><code class="docutils literal notranslate"><span class="pre">Shader::setType()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4NK8Avogadro9Rendering6Shader4typeEv"><code class="docutils literal notranslate"><span class="pre">Shader::type()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader9setSourceERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">Shader::setSource()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4NK8Avogadro9Rendering6Shader6sourceEv"><code class="docutils literal notranslate"><span class="pre">Shader::source()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4NK8Avogadro9Rendering6Shader5errorEv"><code class="docutils literal notranslate"><span class="pre">Shader::error()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4NK8Avogadro9Rendering6Shader6handleEv"><code class="docutils literal notranslate"><span class="pre">Shader::handle()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader7compileEv"><code class="docutils literal notranslate"><span class="pre">Shader::compile()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader7cleanupEv"><code class="docutils literal notranslate"><span class="pre">Shader::cleanup()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader6m_typeE"><code class="docutils literal notranslate"><span class="pre">Shader::m_type</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader8m_handleE"><code class="docutils literal notranslate"><span class="pre">Shader::m_handle</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader7m_dirtyE"><code class="docutils literal notranslate"><span class="pre">Shader::m_dirty</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader8m_sourceE"><code class="docutils literal notranslate"><span class="pre">Shader::m_source</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader.html#_CPPv4N8Avogadro9Rendering6Shader7m_errorE"><code class="docutils literal notranslate"><span class="pre">Shader::m_error</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html">Class Avogadro::Rendering::ShaderProgram</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgramE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15setUniformValueERKNSt6stringERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setUniformValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15setUniformValueERKNSt6stringERK8Vector2i"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setUniformValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15setUniformValueERKNSt6stringERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setUniformValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15NormalizeOptionE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::NormalizeOption</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15NormalizeOption9NormalizeE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::NormalizeOption::Normalize</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15NormalizeOption11NoNormalizeE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::NormalizeOption::NoNormalize</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram13ShaderProgramEv"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::ShaderProgram()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgramD0Ev"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::~ShaderProgram()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram12attachShaderERK6Shader"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::attachShader()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram12detachShaderERK6Shader"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::detachShader()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram4linkEv"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::link()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram4bindEv"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::bind()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram7releaseEv"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::release()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4NK8Avogadro9Rendering13ShaderProgram5errorEv"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::error()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram20enableAttributeArrayERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::enableAttributeArray()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram21disableAttributeArrayERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::disableAttributeArray()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram17useAttributeArrayERKNSt6stringEi6size_tN8Avogadro4TypeEi15NormalizeOption"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::useAttributeArray()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4I0EN8Avogadro9Rendering13ShaderProgram17setAttributeArrayEbRKNSt6stringERK10ContainerTi15NormalizeOption"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setAttributeArray()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram17setTextureSamplerERKNSt6stringERK9Texture2D"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setTextureSampler()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15setUniformValueERKNSt6stringEi"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setUniformValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15setUniformValueERKNSt6stringEf"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setUniformValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15setUniformValueERKNSt6stringERKN5Eigen8Matrix3fE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setUniformValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram15setUniformValueERKNSt6stringERKN5Eigen8Matrix4fE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setUniformValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram25setAttributeArrayInternalERKNSt6stringEPvN8Avogadro4TypeEi15NormalizeOption"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::setAttributeArrayInternal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram8m_handleE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_handle</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram14m_vertexShaderE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_vertexShader</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram16m_fragmentShaderE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_fragmentShader</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram8m_linkedE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_linked</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram7m_errorE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_error</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram12m_attributesE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_attributes</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram21m_textureUnitBindingsE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_textureUnitBindings</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_shader_program.html#_CPPv4N8Avogadro9Rendering13ShaderProgram19m_boundTextureUnitsE"><code class="docutils literal notranslate"><span class="pre">ShaderProgram::m_boundTextureUnits</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere.html">Class Avogadro::Rendering::Sphere</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere.html#_CPPv4N8Avogadro9Rendering6SphereE"><code class="docutils literal notranslate"><span class="pre">Sphere</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere.html#_CPPv4N8Avogadro9Rendering6Sphere6SphereERK8Vector3ffN9Primitive10IdentifierERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">Sphere::Sphere()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere.html#_CPPv4NK8Avogadro9Rendering6Sphere8positionEv"><code class="docutils literal notranslate"><span class="pre">Sphere::position()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere.html#_CPPv4N8Avogadro9Rendering6Sphere11setPositionERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">Sphere::setPosition()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere.html#_CPPv4NK8Avogadro9Rendering6Sphere6radiusEv"><code class="docutils literal notranslate"><span class="pre">Sphere::radius()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere.html#_CPPv4N8Avogadro9Rendering6Sphere9setRadiusEf"><code class="docutils literal notranslate"><span class="pre">Sphere::setRadius()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html">Class Avogadro::Rendering::SphereGeometry</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometryE"><code class="docutils literal notranslate"><span class="pre">SphereGeometry</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry14SphereGeometryEv"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::SphereGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry14SphereGeometryERK14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::SphereGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometryD0Ev"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::~SphereGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometryaSE14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::accept()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry6updateEv"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::update()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4NK8Avogadro9Rendering14SphereGeometry4hitsERK8Vector3fRK8Vector3fRK8Vector3f"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::hits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4NK8Avogadro9Rendering14SphereGeometry8areaHitsERK8Frustrum"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::areaHits()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry10setOpacityEf"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::setOpacity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry9addSphereERK8Vector3fRK9Vector3ubf6size_t"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::addSphere()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry7spheresEv"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::spheres()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4NK8Avogadro9Rendering14SphereGeometry7spheresEv"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::spheres()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry5clearEv"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::clear()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4NK8Avogadro9Rendering14SphereGeometry4sizeEv"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::size()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_sphere_geometry.html#_CPPv4N8Avogadro9Rendering14SphereGeometry4swapER14SphereGeometryR14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">SphereGeometry::swap()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label2_d.html">Class Avogadro::Rendering::TextLabel2D</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label2_d.html#_CPPv4N8Avogadro9Rendering11TextLabel2DE"><code class="docutils literal notranslate"><span class="pre">TextLabel2D</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label2_d.html#_CPPv4N8Avogadro9Rendering11TextLabel2D9setAnchorERK8Vector2i"><code class="docutils literal notranslate"><span class="pre">TextLabel2D::setAnchor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label2_d.html#_CPPv4NK8Avogadro9Rendering11TextLabel2D6anchorEv"><code class="docutils literal notranslate"><span class="pre">TextLabel2D::anchor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label2_d.html#_CPPv4N8Avogadro9Rendering11TextLabel2D11TextLabel2DEv"><code class="docutils literal notranslate"><span class="pre">TextLabel2D::TextLabel2D()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label2_d.html#_CPPv4N8Avogadro9Rendering11TextLabel2DD0Ev"><code class="docutils literal notranslate"><span class="pre">TextLabel2D::~TextLabel2D()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label2_d.html#_CPPv4N8Avogadro9Rendering11TextLabel2D6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">TextLabel2D::accept()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html">Class Avogadro::Rendering::TextLabel3D</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4N8Avogadro9Rendering11TextLabel3DE"><code class="docutils literal notranslate"><span class="pre">TextLabel3D</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4N8Avogadro9Rendering11TextLabel3D9setAnchorERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">TextLabel3D::setAnchor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4NK8Avogadro9Rendering11TextLabel3D6anchorEv"><code class="docutils literal notranslate"><span class="pre">TextLabel3D::anchor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4N8Avogadro9Rendering11TextLabel3D9setRadiusEf"><code class="docutils literal notranslate"><span class="pre">TextLabel3D::setRadius()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4NK8Avogadro9Rendering11TextLabel3D6radiusEv"><code class="docutils literal notranslate"><span class="pre">TextLabel3D::radius()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4N8Avogadro9Rendering11TextLabel3D11TextLabel3DEv"><code class="docutils literal notranslate"><span class="pre">TextLabel3D::TextLabel3D()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4N8Avogadro9Rendering11TextLabel3DD0Ev"><code class="docutils literal notranslate"><span class="pre">TextLabel3D::~TextLabel3D()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label3_d.html#_CPPv4N8Avogadro9Rendering11TextLabel3D6acceptER7Visitor"><code class="docutils literal notranslate"><span class="pre">TextLabel3D::accept()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html">Class Avogadro::Rendering::TextLabelBase</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBaseE"><code class="docutils literal notranslate"><span class="pre">TextLabelBase</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase7setTextERKNSt6stringE"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::setText()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4NK8Avogadro9Rendering13TextLabelBase4textEv"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::text()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase17setTextPropertiesERK14TextProperties"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::setTextProperties()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4NK8Avogadro9Rendering13TextLabelBase14textPropertiesEv"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::textProperties()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase13TextLabelBaseEv"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::TextLabelBase()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase13TextLabelBaseERK13TextLabelBase"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::TextLabelBase()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBaseD0Ev"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::~TextLabelBase()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase6renderERK6Camera"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::render()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase12buildTextureERK18TextRenderStrategy"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::buildTexture()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase12resetTextureEv"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::resetTexture()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase17setAnchorInternalERK8Vector3f"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::setAnchorInternal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4NK8Avogadro9Rendering13TextLabelBase17getAnchorInternalEv"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::getAnchorInternal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase17setRadiusInternalEf"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::setRadiusInternal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4NK8Avogadro9Rendering13TextLabelBase17getRadiusInternalEv"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::getRadiusInternal()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase9markDirtyEv"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::markDirty()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase6m_textE"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::m_text</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase16m_textPropertiesE"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::m_textProperties</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase17m_imageDimensionsE"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::m_imageDimensions</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase11m_imageRgbaE"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::m_imageRgba</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_label_base.html#_CPPv4N8Avogadro9Rendering13TextLabelBase4swapER13TextLabelBaseR13TextLabelBase"><code class="docutils literal notranslate"><span class="pre">TextLabelBase::swap()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html">Class Avogadro::Rendering::TextProperties</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextPropertiesE"><code class="docutils literal notranslate"><span class="pre">TextProperties</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties12setColorRgbaEhhhh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setColorRgba()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties12setColorRgbaEAL4E_Kh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setColorRgba()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties12setColorRgbaERK9Vector4ub"><code class="docutils literal notranslate"><span class="pre">TextProperties::setColorRgba()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties9colorRgbaEAL4E_h"><code class="docutils literal notranslate"><span class="pre">TextProperties::colorRgba()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties9colorRgbaEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::colorRgba()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties11setColorRgbEhhh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setColorRgb()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties11setColorRgbEAL3E_Kh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setColorRgb()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties11setColorRgbERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">TextProperties::setColorRgb()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties8colorRgbEAL3E_h"><code class="docutils literal notranslate"><span class="pre">TextProperties::colorRgb()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties8colorRgbEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::colorRgb()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6setRedEh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setRed()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties3redEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::red()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties8setGreenEh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setGreen()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties5greenEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::green()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties7setBlueEh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setBlue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties4blueEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::blue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties8setAlphaEh"><code class="docutils literal notranslate"><span class="pre">TextProperties::setAlpha()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties5alphaEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::alpha()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties10FontFamilyE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontFamily</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties10FontFamily9SansSerifE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontFamily::SansSerif</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties10FontFamily5SerifE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontFamily::Serif</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties10FontFamily4MonoE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontFamily::Mono</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6HAlignE"><code class="docutils literal notranslate"><span class="pre">TextProperties::HAlign</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6HAlign5HLeftE"><code class="docutils literal notranslate"><span class="pre">TextProperties::HAlign::HLeft</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6HAlign7HCenterE"><code class="docutils literal notranslate"><span class="pre">TextProperties::HAlign::HCenter</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6HAlign6HRightE"><code class="docutils literal notranslate"><span class="pre">TextProperties::HAlign::HRight</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6VAlignE"><code class="docutils literal notranslate"><span class="pre">TextProperties::VAlign</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6VAlign4VTopE"><code class="docutils literal notranslate"><span class="pre">TextProperties::VAlign::VTop</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6VAlign7VCenterE"><code class="docutils literal notranslate"><span class="pre">TextProperties::VAlign::VCenter</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties6VAlign7VBottomE"><code class="docutils literal notranslate"><span class="pre">TextProperties::VAlign::VBottom</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9FontStyleE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontStyle</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9FontStyle11NoFontStyleE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontStyle::NoFontStyle</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9FontStyle4BoldE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontStyle::Bold</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9FontStyle6ItalicE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontStyle::Italic</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9FontStyle9UnderlineE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontStyle::Underline</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties10FontStylesE"><code class="docutils literal notranslate"><span class="pre">TextProperties::FontStyles</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties14TextPropertiesEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::TextProperties()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties14TextPropertiesERK14TextProperties"><code class="docutils literal notranslate"><span class="pre">TextProperties::TextProperties()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextPropertiesD0Ev"><code class="docutils literal notranslate"><span class="pre">TextProperties::~TextProperties()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextPropertiesaSE14TextProperties"><code class="docutils literal notranslate"><span class="pre">TextProperties::operator=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties4swapER14TextProperties"><code class="docutils literal notranslate"><span class="pre">TextProperties::swap()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextPropertieseqERK14TextProperties"><code class="docutils literal notranslate"><span class="pre">TextProperties::operator==()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextPropertiesneERK14TextProperties"><code class="docutils literal notranslate"><span class="pre">TextProperties::operator!=()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties14setPixelHeightE6size_t"><code class="docutils literal notranslate"><span class="pre">TextProperties::setPixelHeight()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties11pixelHeightEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::pixelHeight()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9setHAlignE6HAlign"><code class="docutils literal notranslate"><span class="pre">TextProperties::setHAlign()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties6hAlignEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::hAlign()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9setVAlignE6VAlign"><code class="docutils literal notranslate"><span class="pre">TextProperties::setVAlign()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties6vAlignEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::vAlign()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties8setAlignE6HAlign6VAlign"><code class="docutils literal notranslate"><span class="pre">TextProperties::setAlign()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties20setRotationDegreesCWEf"><code class="docutils literal notranslate"><span class="pre">TextProperties::setRotationDegreesCW()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties17rotationDegreesCWEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::rotationDegreesCW()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties13setFontFamilyE10FontFamily"><code class="docutils literal notranslate"><span class="pre">TextProperties::setFontFamily()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties10fontFamilyEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::fontFamily()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties13setFontStylesE10FontStyles"><code class="docutils literal notranslate"><span class="pre">TextProperties::setFontStyles()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties10fontStylesEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::fontStyles()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties7setBoldEb"><code class="docutils literal notranslate"><span class="pre">TextProperties::setBold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties4boldEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::bold()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties9setItalicEb"><code class="docutils literal notranslate"><span class="pre">TextProperties::setItalic()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties6italicEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::italic()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4N8Avogadro9Rendering14TextProperties12setUnderlineEb"><code class="docutils literal notranslate"><span class="pre">TextProperties::setUnderline()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_properties.html#_CPPv4NK8Avogadro9Rendering14TextProperties9underlineEv"><code class="docutils literal notranslate"><span class="pre">TextProperties::underline()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_render_strategy.html">Class Avogadro::Rendering::TextRenderStrategy</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_render_strategy.html#_CPPv4N8Avogadro9Rendering18TextRenderStrategyE"><code class="docutils literal notranslate"><span class="pre">TextRenderStrategy</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_render_strategy.html#_CPPv4N8Avogadro9Rendering18TextRenderStrategy18TextRenderStrategyEv"><code class="docutils literal notranslate"><span class="pre">TextRenderStrategy::TextRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_render_strategy.html#_CPPv4N8Avogadro9Rendering18TextRenderStrategyD0Ev"><code class="docutils literal notranslate"><span class="pre">TextRenderStrategy::~TextRenderStrategy()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_render_strategy.html#_CPPv4NK8Avogadro9Rendering18TextRenderStrategy11newInstanceEv"><code class="docutils literal notranslate"><span class="pre">TextRenderStrategy::newInstance()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_render_strategy.html#_CPPv4NK8Avogadro9Rendering18TextRenderStrategy11boundingBoxERKNSt6stringERK14TextPropertiesAL4E_i"><code class="docutils literal notranslate"><span class="pre">TextRenderStrategy::boundingBox()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_text_render_strategy.html#_CPPv4NK8Avogadro9Rendering18TextRenderStrategy6renderERKNSt6stringERK14TextPropertiesPhRK8Vector2i"><code class="docutils literal notranslate"><span class="pre">TextRenderStrategy::render()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html">Class Avogadro::Rendering::Texture2D</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2DE"><code class="docutils literal notranslate"><span class="pre">Texture2D</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12setWrappingSE14WrappingOption"><code class="docutils literal notranslate"><span class="pre">Texture2D::setWrappingS()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D9wrappingSEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::wrappingS()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12setWrappingTE14WrappingOption"><code class="docutils literal notranslate"><span class="pre">Texture2D::setWrappingT()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D9wrappingTEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::wrappingT()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12FilterOptionE"><code class="docutils literal notranslate"><span class="pre">Texture2D::FilterOption</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12FilterOption13InvalidFilterE"><code class="docutils literal notranslate"><span class="pre">Texture2D::FilterOption::InvalidFilter</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12FilterOption7NearestE"><code class="docutils literal notranslate"><span class="pre">Texture2D::FilterOption::Nearest</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12FilterOption6LinearE"><code class="docutils literal notranslate"><span class="pre">Texture2D::FilterOption::Linear</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14WrappingOptionE"><code class="docutils literal notranslate"><span class="pre">Texture2D::WrappingOption</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14WrappingOption15InvalidWrappingE"><code class="docutils literal notranslate"><span class="pre">Texture2D::WrappingOption::InvalidWrapping</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14WrappingOption11ClampToEdgeE"><code class="docutils literal notranslate"><span class="pre">Texture2D::WrappingOption::ClampToEdge</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14WrappingOption14MirroredRepeatE"><code class="docutils literal notranslate"><span class="pre">Texture2D::WrappingOption::MirroredRepeat</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14WrappingOption6RepeatE"><code class="docutils literal notranslate"><span class="pre">Texture2D::WrappingOption::Repeat</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormatE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormat21InvalidInternalFormatE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat::InvalidInternalFormat</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormat13InternalDepthE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat::InternalDepth</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormat20InternalDepthStencilE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat::InternalDepthStencil</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormat9InternalRE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat::InternalR</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormat10InternalRGE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat::InternalRG</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormat11InternalRGBE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat::InternalRGB</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14InternalFormat12InternalRGBAE"><code class="docutils literal notranslate"><span class="pre">Texture2D::InternalFormat::InternalRGBA</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormatE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat</span></code></a><ul>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat21InvalidIncomingFormatE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::InvalidIncomingFormat</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat9IncomingRE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingR</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat10IncomingRGE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingRG</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat11IncomingRGBE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingRGB</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat11IncomingBGRE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingBGR</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat12IncomingRGBAE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingRGBA</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat12IncomingBGRAE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingBGRA</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat13IncomingDepthE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingDepth</span></code></a></li>
-<li class="toctree-l5"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D14IncomingFormat20IncomingDepthStencilE"><code class="docutils literal notranslate"><span class="pre">Texture2D::IncomingFormat::IncomingDepthStencil</span></code></a></li>
-</ul>
-</li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D9Texture2DEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::Texture2D()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2DD0Ev"><code class="docutils literal notranslate"><span class="pre">Texture2D::~Texture2D()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D6handleEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::handle()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D5readyEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::ready()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12setMinFilterE12FilterOption"><code class="docutils literal notranslate"><span class="pre">Texture2D::setMinFilter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D9minFilterEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::minFilter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4N8Avogadro9Rendering9Texture2D12setMagFilterE12FilterOption"><code class="docutils literal notranslate"><span class="pre">Texture2D::setMagFilter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D9magFilterEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::magFilter()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4I0EN8Avogadro9Rendering9Texture2D6uploadEbRK10ContainerTRK8Vector2i14IncomingFormat14InternalFormat"><code class="docutils literal notranslate"><span class="pre">Texture2D::upload()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D4bindEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::bind()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D7releaseEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::release()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_texture2_d.html#_CPPv4NK8Avogadro9Rendering9Texture2D5errorEv"><code class="docutils literal notranslate"><span class="pre">Texture2D::error()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_transform_node.html">Class Avogadro::Rendering::TransformNode</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_transform_node.html#_CPPv4N8Avogadro9Rendering13TransformNodeE"><code class="docutils literal notranslate"><span class="pre">TransformNode</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_transform_node.html#_CPPv4N8Avogadro9Rendering13TransformNode13TransformNodeEP9GroupNode"><code class="docutils literal notranslate"><span class="pre">TransformNode::TransformNode()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_transform_node.html#_CPPv4N8Avogadro9Rendering13TransformNodeD0Ev"><code class="docutils literal notranslate"><span class="pre">TransformNode::~TransformNode()</span></code></a></li>
-</ul>
-</li>
-</ul>
-</li>
-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html">Class Avogadro::Rendering::VRMLVisitor</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitorE"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor11VRMLVisitorERK6Camera"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::VRMLVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitorD0Ev"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::~VRMLVisitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5beginEv"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::begin()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor3endEv"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::end()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER4Node"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER9GroupNode"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER12GeometryNode"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER8Drawable"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER30AmbientOcclusionSphereGeometry"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER13CurveGeometry"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER16CylinderGeometry"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER11TextLabel2D"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER11TextLabel3D"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor5visitER17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor9setCameraERK6Camera"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::setCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4NK8Avogadro9Rendering11VRMLVisitor6cameraEv"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::camera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor18setBackgroundColorERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::setBackgroundColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor15setAmbientColorERK9Vector3ub"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::setAmbientColor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_v_r_m_l_visitor.html#_CPPv4N8Avogadro9Rendering11VRMLVisitor14setAspectRatioEf"><code class="docutils literal notranslate"><span class="pre">VRMLVisitor::setAspectRatio()</span></code></a></li>
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-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html">Class Avogadro::Rendering::Visitor</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7VisitorE"><code class="docutils literal notranslate"><span class="pre">Visitor</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor7VisitorEv"><code class="docutils literal notranslate"><span class="pre">Visitor::Visitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7VisitorD0Ev"><code class="docutils literal notranslate"><span class="pre">Visitor::~Visitor()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER4Node"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER12GeometryNode"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER8Drawable"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER14SphereGeometry"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER12MeshGeometry"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER11TextLabel2D"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER11TextLabel3D"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_visitor.html#_CPPv4N8Avogadro9Rendering7Visitor5visitER17LineStripGeometry"><code class="docutils literal notranslate"><span class="pre">Visitor::visit()</span></code></a></li>
-</ul>
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-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_volume_geometry.html">Class Avogadro::Rendering::VolumeGeometry</a><ul>
-<li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_volume_geometry.html#_CPPv4N8Avogadro9Rendering14VolumeGeometryE"><code class="docutils literal notranslate"><span class="pre">VolumeGeometry</span></code></a><ul>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_volume_geometry.html#_CPPv4N8Avogadro9Rendering14VolumeGeometry14VolumeGeometryEv"><code class="docutils literal notranslate"><span class="pre">VolumeGeometry::VolumeGeometry()</span></code></a></li>
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-<li class="toctree-l2"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1_vtk_plot.html">Class Avogadro::VTK::VtkPlot</a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4NK8Avogadro3VTK11vtkGLWidget3lutEv"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::lut()</span></code></a></li>
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-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget4cubeEv"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::cube()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget12renderVolumeEb"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::renderVolume()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget16renderIsosurfaceEb"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::renderIsosurface()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget11setIsoValueEd"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::setIsoValue()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget10setOpacityEd"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::setOpacity()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget11updateSceneEv"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::updateScene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget10clearSceneEv"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::clearScene()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget11resetCameraEv"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::resetCamera()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget13resetGeometryEv"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::resetGeometry()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget10cubeVolumeEPN4Core4CubeE"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::cubeVolume()</span></code></a></li>
-<li class="toctree-l4"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html#_CPPv4N8Avogadro3VTK11vtkGLWidget16imageDataUpdatedEv"><code class="docutils literal notranslate"><span class="pre">vtkGLWidget::imageDataUpdated()</span></code></a></li>
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-<li class="toctree-l2"><a class="reference internal" href="class/classvtk_avogadro_actor.html">Class vtkAvogadroActor</a><ul>
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+<li class="toctree-l1"><a class="reference internal" href="core.html">Avogadro::Core</a></li>
+<li class="toctree-l1"><a class="reference internal" href="io.html">Avogadro::IO</a></li>
+<li class="toctree-l1"><a class="reference internal" href="molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l1"><a class="reference internal" href="qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l1"><a class="reference internal" href="rendering.html">Avogadro::Rendering</a></li>
+<li class="toctree-l1"><a class="reference internal" href="vtk.html">VTK Classes</a></li>
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@@ -4163,7 +542,7 @@
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diff --git a/develop/core.html b/develop/core.html
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-    <title>Core Classes &#8212; Avogadro 1.99.0 documentation</title>
+    <title>Avogadro::Core &#8212; Avogadro 1.99.0 documentation</title>
   
   
   
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+<li class="toctree-l2 current active has-children"><a class="current reference internal" href="#">Avogadro::Core</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
 <li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_core_1_1_array.html">Class Avogadro::Core::Array</a></li>
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-<li class="toctree-l2"><a class="reference internal" href="rendering.html">Rendering Classes</a></li>
+<li class="toctree-l2"><a class="reference internal" href="io.html">Avogadro::IO</a></li>
+<li class="toctree-l2"><a class="reference internal" href="molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2"><a class="reference internal" href="qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2"><a class="reference internal" href="rendering.html">Avogadro::Rendering</a></li>
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-    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">Class List</a></li>
+    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">API Documentation</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">Core Classes</li>
+    <li class="breadcrumb-item active" aria-current="page">Avogadro::Core</li>
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+  <section class="tex2jax_ignore mathjax_ignore" id="avogadro-core">
+<span id="develop-core"></span><h1>Avogadro::Core<a class="headerlink" href="#avogadro-core" title="Link to this heading">#</a></h1>
 <div class="toctree-wrapper compound">
 <ul>
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-        <p class="prev-next-title">Class List</p>
+        <p class="prev-next-title">API Documentation</p>
       </div>
     </a>
     <a class="right-next"
diff --git a/develop/index.html b/develop/index.html
index b100be25..b5204914 100644
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@@ -438,7 +438,7 @@
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 <li class="toctree-l1"><a class="reference internal" href="rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="classlist.html">API Documentation</a></li>
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diff --git a/develop/io.html b/develop/io.html
index 74b6d93b..ad373ee0 100644
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-    <title>IO Classes &#8212; Avogadro 1.99.0 documentation</title>
+    <title>Avogadro::IO &#8212; Avogadro 1.99.0 documentation</title>
   
   
   
@@ -438,9 +438,9 @@
 <li class="toctree-l1"><a class="reference internal" href="build.html">Building Source Code</a></li>
 <li class="toctree-l1"><a class="reference internal" href="scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1"><a class="reference internal" href="rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
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-<li class="toctree-l2 current active has-children"><a class="current reference internal" href="#">IO Classes</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
+<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2"><a class="reference internal" href="core.html">Avogadro::Core</a></li>
+<li class="toctree-l2 current active has-children"><a class="current reference internal" href="#">Avogadro::IO</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
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 <li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_quantum_i_o_1_1_n_w_chem_log.html">Class Avogadro::QuantumIO::NWChemLog</a></li>
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-<li class="toctree-l2"><a class="reference internal" href="rendering.html">Rendering Classes</a></li>
+<li class="toctree-l2"><a class="reference internal" href="molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2"><a class="reference internal" href="qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2"><a class="reference internal" href="rendering.html">Avogadro::Rendering</a></li>
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-    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">Class List</a></li>
+    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">API Documentation</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">IO Classes</li>
+    <li class="breadcrumb-item active" aria-current="page">Avogadro::IO</li>
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@@ -534,8 +534,8 @@
 <div id="searchbox"></div>
                 <article class="bd-article">
                   
-  <section class="tex2jax_ignore mathjax_ignore" id="io-classes">
-<span id="develop-io"></span><h1>IO Classes<a class="headerlink" href="#io-classes" title="Link to this heading">#</a></h1>
+  <section class="tex2jax_ignore mathjax_ignore" id="avogadro-io">
+<span id="develop-io"></span><h1>Avogadro::IO<a class="headerlink" href="#avogadro-io" title="Link to this heading">#</a></h1>
 <p>The IO classes handle Avogadro’s native file input/output. Beyond these
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index 5230f7cb..d6850827 100644
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-    <title>MoleQueue Classes &#8212; Avogadro 1.99.0 documentation</title>
+    <title>Avogadro::MoleQueue &#8212; Avogadro 1.99.0 documentation</title>
   
   
   
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-<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
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+<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2"><a class="reference internal" href="core.html">Avogadro::Core</a></li>
+<li class="toctree-l2"><a class="reference internal" href="io.html">Avogadro::IO</a></li>
+<li class="toctree-l2 current active has-children"><a class="current reference internal" href="#">Avogadro::MoleQueue</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
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-<li class="toctree-l2"><a class="reference internal" href="rendering.html">Rendering Classes</a></li>
+<li class="toctree-l2"><a class="reference internal" href="qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2"><a class="reference internal" href="rendering.html">Avogadro::Rendering</a></li>
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-    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">Class List</a></li>
+    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">API Documentation</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">MoleQueue Classes</li>
+    <li class="breadcrumb-item active" aria-current="page">Avogadro::MoleQueue</li>
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@@ -517,11 +517,17 @@
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-  <section class="tex2jax_ignore mathjax_ignore" id="molequeue-classes">
-<span id="develop-molequeue"></span><h1>MoleQueue Classes<a class="headerlink" href="#molequeue-classes" title="Link to this heading">#</a></h1>
+  <section class="tex2jax_ignore mathjax_ignore" id="avogadro-molequeue">
+<span id="develop-molequeue"></span><h1>Avogadro::MoleQueue<a class="headerlink" href="#avogadro-molequeue" title="Link to this heading">#</a></h1>
 <p>MoleQueue classes handle interaction with the MoleQueue queue system
 for submitting calculations to programs and  opening completed output
 files.</p>
+<div class="admonition tip">
+<p class="admonition-title">Tip</p>
+<p>While MoleQueue is not actively developed, some features of Avogadro
+are still handled by this code, including <a class="reference internal" href="rpc.html#develop-rpc"><span class="std std-ref">RPC</span></a> for
+scripting <code class="docutils literal notranslate"><span class="pre">avogadroapp</span></code> and handling scripts for input generator dialogs.</p>
+</div>
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 <ul>
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-    <title>QtGui Classes &#8212; Avogadro 1.99.0 documentation</title>
+    <title>Avogadro::QtGui &#8212; Avogadro 1.99.0 documentation</title>
   
   
   
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-<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
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+<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2"><a class="reference internal" href="core.html">Avogadro::Core</a></li>
+<li class="toctree-l2"><a class="reference internal" href="io.html">Avogadro::IO</a></li>
+<li class="toctree-l2"><a class="reference internal" href="molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2 current active has-children"><a class="current reference internal" href="#">Avogadro::QtGui</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
 <li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html">Class Avogadro::QtGui::BackgroundFileFormat</a></li>
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-<li class="toctree-l2"><a class="reference internal" href="rendering.html">Rendering Classes</a></li>
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@@ -527,9 +527,9 @@
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-    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">Class List</a></li>
+    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">API Documentation</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">QtGui Classes</li>
+    <li class="breadcrumb-item active" aria-current="page">Avogadro::QtGui</li>
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-  <section class="tex2jax_ignore mathjax_ignore" id="qtgui-classes">
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-<p>The QtGui classes handle basic operations with the GUI using Qt widgets and objects.
-Most of the gui is handled through plugins.</p>
+  <section class="tex2jax_ignore mathjax_ignore" id="avogadro-qtgui">
+<span id="develop-qtgui"></span><h1>Avogadro::QtGui<a class="headerlink" href="#avogadro-qtgui" title="Link to this heading">#</a></h1>
+<p>The QtGui classes handle operations with the GUI using Qt widgets
+and objects. Most of the interface is handled through plugins.</p>
+<p>These classes provide individual widgets, dialogs, and interaction
+with plugin scripts, etc.</p>
 <div class="toctree-wrapper compound">
 <ul>
 <li class="toctree-l1"><a class="reference internal" href="class/class_avogadro_1_1_qt_gui_1_1_background_file_format.html">Class Avogadro::QtGui::BackgroundFileFormat</a><ul>
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-    <title>Rendering Classes &#8212; Avogadro 1.99.0 documentation</title>
+    <title>Avogadro::Rendering &#8212; Avogadro 1.99.0 documentation</title>
   
   
   
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+<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2"><a class="reference internal" href="core.html">Avogadro::Core</a></li>
+<li class="toctree-l2"><a class="reference internal" href="io.html">Avogadro::IO</a></li>
+<li class="toctree-l2"><a class="reference internal" href="molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2"><a class="reference internal" href="qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2 current active has-children"><a class="current reference internal" href="#">Avogadro::Rendering</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
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 <li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_buffer_object.html">Class Avogadro::Rendering::BufferObject</a></li>
@@ -522,9 +522,9 @@
     <li class="breadcrumb-item"><a href="index.html" class="nav-link">Develop</a></li>
     
     
-    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">Class List</a></li>
+    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">API Documentation</a></li>
     
-    <li class="breadcrumb-item active" aria-current="page">Rendering Classes</li>
+    <li class="breadcrumb-item active" aria-current="page">Avogadro::Rendering</li>
   </ul>
 </nav>
 </div>
@@ -541,8 +541,11 @@
 <div id="searchbox"></div>
                 <article class="bd-article">
                   
-  <section class="tex2jax_ignore mathjax_ignore" id="rendering-classes">
-<span id="develop-rendering"></span><h1>Rendering Classes<a class="headerlink" href="#rendering-classes" title="Link to this heading">#</a></h1>
+  <section class="tex2jax_ignore mathjax_ignore" id="avogadro-rendering">
+<span id="develop-rendering"></span><h1>Avogadro::Rendering<a class="headerlink" href="#avogadro-rendering" title="Link to this heading">#</a></h1>
+<p>The rendering classes handle 3D graphics including various GLSL
+shader programs for spheres, cylinders (atoms and bonds),
+protein cartoons, meshes, orbitals, etc.</p>
 <div class="toctree-wrapper compound">
 <ul>
 <li class="toctree-l1"><a class="reference internal" href="class/class_avogadro_1_1_rendering_1_1_ambient_occlusion_sphere_geometry.html">Class Avogadro::Rendering::AmbientOcclusionSphereGeometry</a><ul>
diff --git a/develop/rpc.html b/develop/rpc.html
index 0e1a1af6..5189bb73 100644
--- a/develop/rpc.html
+++ b/develop/rpc.html
@@ -55,7 +55,7 @@
     <link rel="canonical" href="https://two.avogadro.cc/develop/rpc.html" />
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
-    <link rel="next" title="Class List" href="classlist.html" />
+    <link rel="next" title="API Documentation" href="classlist.html" />
     <link rel="prev" title="Input Generators" href="scripts/generators.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
@@ -438,7 +438,7 @@
 <li class="toctree-l1"><a class="reference internal" href="build.html">Building Source Code</a></li>
 <li class="toctree-l1"><a class="reference internal" href="scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1 current active"><a class="current reference internal" href="#">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
@@ -582,7 +582,7 @@ <h2>Methods<a class="headerlink" href="#methods" title="Link to this heading">#<
        title="next page">
       <div class="prev-next-info">
         <p class="prev-next-subtitle">next</p>
-        <p class="prev-next-title">Class List</p>
+        <p class="prev-next-title">API Documentation</p>
       </div>
       <i class="fa-solid fa-angle-right"></i>
     </a>
diff --git a/develop/scripts/charges.html b/develop/scripts/charges.html
index 2d24f761..2d262f01 100644
--- a/develop/scripts/charges.html
+++ b/develop/scripts/charges.html
@@ -447,7 +447,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/commands.html b/develop/scripts/commands.html
index 1462ed7e..9ec88b94 100644
--- a/develop/scripts/commands.html
+++ b/develop/scripts/commands.html
@@ -451,7 +451,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/energy.html b/develop/scripts/energy.html
index ad8b8c8f..251d7320 100644
--- a/develop/scripts/energy.html
+++ b/develop/scripts/energy.html
@@ -447,7 +447,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/example1.html b/develop/scripts/example1.html
index 2c639a68..0755c266 100644
--- a/develop/scripts/example1.html
+++ b/develop/scripts/example1.html
@@ -451,7 +451,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/example2.html b/develop/scripts/example2.html
index 60be67e9..0e9cd8fa 100644
--- a/develop/scripts/example2.html
+++ b/develop/scripts/example2.html
@@ -451,7 +451,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/formats.html b/develop/scripts/formats.html
index 23322665..199611be 100644
--- a/develop/scripts/formats.html
+++ b/develop/scripts/formats.html
@@ -447,7 +447,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/generators.html b/develop/scripts/generators.html
index 4f1e7c58..4f0d334f 100644
--- a/develop/scripts/generators.html
+++ b/develop/scripts/generators.html
@@ -447,7 +447,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/index.html b/develop/scripts/index.html
index 265f67f8..82eaf932 100644
--- a/develop/scripts/index.html
+++ b/develop/scripts/index.html
@@ -447,7 +447,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/install.html b/develop/scripts/install.html
index b82b5af0..8e718265 100644
--- a/develop/scripts/install.html
+++ b/develop/scripts/install.html
@@ -447,7 +447,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/scripts/interface.html b/develop/scripts/interface.html
index a4f723ee..4a269f12 100644
--- a/develop/scripts/interface.html
+++ b/develop/scripts/interface.html
@@ -447,7 +447,7 @@
 </ul>
 </details></li>
 <li class="toctree-l1"><a class="reference internal" href="../rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="../classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/structure.html b/develop/structure.html
index b6c77ac6..4ba41781 100644
--- a/develop/structure.html
+++ b/develop/structure.html
@@ -438,7 +438,7 @@
 <li class="toctree-l1"><a class="reference internal" href="build.html">Building Source Code</a></li>
 <li class="toctree-l1"><a class="reference internal" href="scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1"><a class="reference internal" href="rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1"><a class="reference internal" href="classlist.html">Class List</a></li>
+<li class="toctree-l1"><a class="reference internal" href="classlist.html">API Documentation</a></li>
 </ul>
 </div>
 </nav></div>
diff --git a/develop/vtk.html b/develop/vtk.html
index 8d457bf9..55f6d02d 100644
--- a/develop/vtk.html
+++ b/develop/vtk.html
@@ -438,12 +438,12 @@
 <li class="toctree-l1"><a class="reference internal" href="build.html">Building Source Code</a></li>
 <li class="toctree-l1"><a class="reference internal" href="scripts/index.html">Script Plugins</a></li>
 <li class="toctree-l1"><a class="reference internal" href="rpc.html">Avogadro Remote Procedure Call (RPC)</a></li>
-<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">Class List</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
-<li class="toctree-l2"><a class="reference internal" href="core.html">Core Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="io.html">IO Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="molequeue.html">MoleQueue Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="qtgui.html">QtGui Classes</a></li>
-<li class="toctree-l2"><a class="reference internal" href="rendering.html">Rendering Classes</a></li>
+<li class="toctree-l1 current active has-children"><a class="reference internal" href="classlist.html">API Documentation</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul class="current">
+<li class="toctree-l2"><a class="reference internal" href="core.html">Avogadro::Core</a></li>
+<li class="toctree-l2"><a class="reference internal" href="io.html">Avogadro::IO</a></li>
+<li class="toctree-l2"><a class="reference internal" href="molequeue.html">Avogadro::MoleQueue</a></li>
+<li class="toctree-l2"><a class="reference internal" href="qtgui.html">Avogadro::QtGui</a></li>
+<li class="toctree-l2"><a class="reference internal" href="rendering.html">Avogadro::Rendering</a></li>
 <li class="toctree-l2 current active has-children"><a class="current reference internal" href="#">VTK Classes</a><details open="open"><summary><span class="toctree-toggle" role="presentation"><i class="fa-solid fa-chevron-down"></i></span></summary><ul>
 <li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1_vtk_plot.html">Class Avogadro::VTK::VtkPlot</a></li>
 <li class="toctree-l3"><a class="reference internal" href="class/class_avogadro_1_1_v_t_k_1_1vtk_g_l_widget.html">Class Avogadro::VTK::vtkGLWidget</a></li>
@@ -493,7 +493,7 @@
     <li class="breadcrumb-item"><a href="index.html" class="nav-link">Develop</a></li>
     
     
-    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">Class List</a></li>
+    <li class="breadcrumb-item"><a href="classlist.html" class="nav-link">API Documentation</a></li>
     
     <li class="breadcrumb-item active" aria-current="page">VTK Classes</li>
   </ul>
diff --git a/objects.inv b/objects.inv
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diff --git a/searchindex.js b/searchindex.js
index 7a7c993e..e3b3315d 100644
--- a/searchindex.js
+++ b/searchindex.js
@@ -1 +1 @@
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178, 181, 257], "wrong": [1, 3, 239, 290], "www": [53, 196, 219], "x": [1, 8, 21, 23, 24, 29, 30, 125, 171, 174, 175, 185, 209, 217, 219, 223, 240, 242, 247, 262, 263, 267, 270, 285, 294, 306], "x1": 125, "x11": 294, "x2": [39, 125, 161, 162], "x64": 8, "xaa": 25, "xav83": 294, "xavier": [2, 4], "xef": 300, "xmax": 160, "xmin": 160, "xml": [31, 32, 158], "xtalopt": [23, 168], "xtb": [226, 262, 293, 294], "xtc": 270, "xx": [25, 170], "xy": [23, 39, 161, 162, 184, 188, 193], "xyz": [2, 4, 47, 48, 49, 50, 52, 54, 55, 56, 57, 58, 59, 60, 61, 62, 108, 111, 112, 113, 114, 115, 116, 169, 170, 171, 174, 213, 215, 261, 289, 296], "xyzformat": [50, 161, 164], "xz": [8, 39, 161, 162], "y": [1, 8, 21, 24, 30, 120, 125, 171, 175, 209, 217, 219, 223, 240, 242, 247, 267, 270], "y1": 125, "y2": 125, "yaehmop": [262, 289, 294], "yavgech": [2, 4, 289], "year": [8, 260, 299], "yellow": 243, "yeswechem": 299, "yet": [266, 267, 268, 269, 270, 271, 272, 273, 274, 275, 276, 277, 278, 282, 286, 287], "yield": 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"zaryob": 289, "zero": [2, 4, 23, 25, 30, 64, 81, 84, 97, 120, 171, 175, 178, 242, 294], "zeta": [39, 161, 162], "zfar": 120, "zhang": 294, "zhu": [2, 4], "zirconium": 290, "zlib": 8, "zlib1g": 8, "zmax": 160, "zmin": 160, "znear": 120, "zoom": [120, 213, 249, 266, 292, 296], "zulfikar": [2, 4], "zypper": 8, "\u00e5": [184, 188, 189, 190, 225, 244, 248, 262, 304, 307, 308], "\u00e53": 189, "\u00f6mer": [2, 4], "\u010dert\u00edk": [2, 4], "\u03b1": [209, 303], "\u03b2": [209, 303], "\u03b3": 303, "\u03b7": 252, "\u043c\u0430\u043d69\u043a": 293, "\u5218\u97ec": 292}, "titles": ["Contributing Code", "Coding Style (C++)", "&lt;no title&gt;", "Coding Conventions (C++)", "Thanks", "Documenting Code", "Contribute", "Translations", "Building Source Code", "Class Avogadro::Core::Array", "Class Avogadro::Core::ArraySet", "Class Avogadro::Core::ArraySet::Holder", "Class Avogadro::Core::ArraySet::PlaceHolder", "Class Avogadro::Core::Atom", "Class Avogadro::Core::AtomTemplate", "Class Avogadro::Core::AtomTyper", "Class Avogadro::Core::AvoSpglib", "Class Avogadro::Core::BasisSet", "Class Avogadro::Core::Bond", "Class Avogadro::Core::BondTemplate", "Class Avogadro::Core::Color3f", "Class Avogadro::Core::CoordinateBlockGenerator", "Class Avogadro::Core::CoordinateSet", "Class Avogadro::Core::CrystalTools", "Class Avogadro::Core::Cube", "Class Avogadro::Core::Elements", "Class Avogadro::Core::GaussianSet", "Class Avogadro::Core::GaussianSetTools", "Class Avogadro::Core::Graph", "Class Avogadro::Core::Mesh", "Class Avogadro::Core::Molecule", "Class Avogadro::Core::MoleculeDeserializer", "Class Avogadro::Core::MoleculeSerializer", "Class Avogadro::Core::Mutex", "Class Avogadro::Core::NameAtomTyper", "Class Avogadro::Core::Residue", "Class Avogadro::Core::ResidueData", "Class Avogadro::Core::RingPerceiver", "Class Avogadro::Core::SharedMutex", "Class Avogadro::Core::SlaterSet", "Class Avogadro::Core::SlaterSetTools", "Class Avogadro::Core::SpaceGroups", "Class Avogadro::Core::SymbolAtomTyper", "Class Avogadro::Core::UnitCell", "Class Avogadro::Core::Variant", "Class Avogadro::Core::VariantMap", "Class Avogadro::Core::internal::ArrayRefContainer", "Class Avogadro::Io::CjsonFormat", "Class Avogadro::Io::CmlFormat", "Class Avogadro::Io::DcdFormat", "Class Avogadro::Io::FileFormat", "Class Avogadro::Io::FileFormatManager", "Class Avogadro::Io::GromacsFormat", "Class Avogadro::Io::Hdf5DataFormat", "Class Avogadro::Io::LammpsDataFormat", "Class Avogadro::Io::LammpsTrajectoryFormat", "Class Avogadro::Io::MMTFFormat", "Class Avogadro::Io::MdlFormat", "Class Avogadro::Io::OutcarFormat", "Class Avogadro::Io::PdbFormat", "Class Avogadro::Io::PoscarFormat", "Class Avogadro::Io::TrrFormat", "Class Avogadro::Io::XyzFormat", "Class Avogadro::MoleQueue::BatchJob", "Class Avogadro::MoleQueue::InputGenerator", "Class Avogadro::MoleQueue::InputGeneratorDialog", "Class Avogadro::MoleQueue::InputGeneratorWidget", "Class Avogadro::MoleQueue::MoleQueueDialog", "Class Avogadro::MoleQueue::MoleQueueManager", "Class Avogadro::MoleQueue::MoleQueueQueueListModel", "Class Avogadro::MoleQueue::MoleQueueWidget", "Class Avogadro::QtGui::BackgroundFileFormat", "Class Avogadro::QtGui::ContainerWidget", "Class Avogadro::QtGui::CustomElementDialog", "Class Avogadro::QtGui::ElementDetail", "Class Avogadro::QtGui::ElementItem", "Class Avogadro::QtGui::ElementTranslator", "Class Avogadro::QtGui::ExtensionPlugin", "Class Avogadro::QtGui::ExtensionPluginFactory", "Class Avogadro::QtGui::FileBrowseWidget", "Class Avogadro::QtGui::FileFormatDialog", "Class Avogadro::QtGui::GenericHighlighter", "Class Avogadro::QtGui::GenericHighlighter::Rule", "Class Avogadro::QtGui::HydrogenTools", "Class Avogadro::QtGui::InterfaceScript", "Class Avogadro::QtGui::InterfaceWidget", "Class Avogadro::QtGui::MeshGenerator", "Class Avogadro::QtGui::Molecule", "Class Avogadro::QtGui::MoleculeModel", "Class Avogadro::QtGui::MultiViewWidget", "Class Avogadro::QtGui::PeriodicTableScene", "Class Avogadro::QtGui::PeriodicTableView", "Class Avogadro::QtGui::PersistentAtom", "Class Avogadro::QtGui::PersistentBond", "Class Avogadro::QtGui::PythonScript", "Class Avogadro::QtGui::RWAtom", "Class Avogadro::QtGui::RWBond", "Class Avogadro::QtGui::RWMolecule", "Class Avogadro::QtGui::ScenePlugin", "Class Avogadro::QtGui::ScenePluginFactory", "Class Avogadro::QtGui::ScenePluginModel", "Class Avogadro::QtGui::ScriptLoader", "Class Avogadro::QtGui::ToolPlugin", "Class Avogadro::QtGui::ToolPluginFactory", "Class Avogadro::QtGui::ViewFactory", "Class Avogadro::QtOpenGL::ActiveObjects", "Class Avogadro::QtOpenGL::GLWidget", "Class Avogadro::QtOpenGL::QtTextRenderStrategy", "Class Avogadro::QuantumIO::GAMESSUSOutput", "Class Avogadro::QuantumIO::GUKBasisSet", "Class Avogadro::QuantumIO::GamessukOut", "Class Avogadro::QuantumIO::GaussianCube", "Class Avogadro::QuantumIO::GaussianFchk", "Class Avogadro::QuantumIO::MoldenFile", "Class Avogadro::QuantumIO::MopacAux", "Class Avogadro::QuantumIO::NWChemJson", "Class Avogadro::QuantumIO::NWChemLog", "Class Avogadro::Rendering::AmbientOcclusionSphereGeometry", "Class Avogadro::Rendering::ArrowGeometry", "Class Avogadro::Rendering::BufferObject", "Class Avogadro::Rendering::Camera", "Class Avogadro::Rendering::Cylinder", "Class Avogadro::Rendering::CylinderGeometry", "Class Avogadro::Rendering::Drawable", "Class Avogadro::Rendering::GLRenderVisitor", "Class Avogadro::Rendering::GLRenderer", "Class Avogadro::Rendering::GeometryNode", "Class Avogadro::Rendering::GeometryVisitor", "Class Avogadro::Rendering::GroupNode", "Class Avogadro::Rendering::LineStripGeometry", "Class Avogadro::Rendering::MeshGeometry", "Class Avogadro::Rendering::Node", "Class Avogadro::Rendering::POVRayVisitor", "Class Avogadro::Rendering::Primitive", "Class Avogadro::Rendering::Scene", "Class Avogadro::Rendering::Shader", "Class Avogadro::Rendering::ShaderProgram", "Class Avogadro::Rendering::Sphere", "Class Avogadro::Rendering::SphereGeometry", "Class Avogadro::Rendering::TextLabel2D", "Class Avogadro::Rendering::TextLabel3D", "Class Avogadro::Rendering::TextLabelBase", "Class Avogadro::Rendering::TextProperties", "Class Avogadro::Rendering::TextRenderStrategy", "Class Avogadro::Rendering::Texture2D", "Class Avogadro::Rendering::TransformNode", "Class Avogadro::Rendering::VRMLVisitor", "Class Avogadro::Rendering::Visitor", "Class Avogadro::Rendering::VolumeGeometry", "Class Avogadro::TypeTraits", "Class Avogadro::TypeTraits&lt; char &gt;", "Class Avogadro::TypeTraits&lt; double &gt;", "Class Avogadro::TypeTraits&lt; float &gt;", "Class Avogadro::TypeTraits&lt; int &gt;", "Class Avogadro::TypeTraits&lt; short &gt;", "Class Avogadro::TypeTraits&lt; unsigned char &gt;", "Class Avogadro::TypeTraits&lt; unsigned int &gt;", "Class Avogadro::TypeTraits&lt; unsigned short &gt;", "Class Avogadro::VTK::VtkPlot", "Class Avogadro::VTK::vtkGLWidget", "Class vtkAvogadroActor", "Class List", "Core Classes", "Develop", "IO Classes", "MoleQueue Classes", "QtGui Classes", "Rendering Classes", "Avogadro Remote Procedure Call (RPC)", "Charges / Electrostatics", "Command Scripts", "Energy / Force Fields", "Example Plugin Script - Part 1", "Example Plugin Script - Part 2", "File Formats", "Input Generators", "Script Plugins", "Installing Script Plugins", "Script Interfaces", "Project Structure", "VTK Classes", "License", "Avogadro: Molecular Editor and Visualization", "Table of contents", "Making a Crystal Surface Slab", "Building a Polymer Unit Cell", "Perceiving Crystall Symmetry", "Building Materials", "Building Molecule-Surface Interactions", "Reducing Crystals to a Primitive Unit Cell", "Scaling Crystal Cell Volume", "Building a Supercell", "Building a Peptide", "Building Carbon Nanotubes", "Building DNA or RNA", "Building with SMILES", "Importing from the Protein Data Bank (PDB)", "Importing Molecules by Name", "Building Molecules", "Insert Molecular Fragments", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "Coloring Part of a Molecules", "Display Types", "Different Display Styles", "Extensions", "Drawing Molecules", "Getting Started", "Introduction", "Making Selections", "Saving Files", "Guide", "Build Menu", "Edit Menu", "Extensions Menu", "File Menu", "Menus", "Select Menu", "View Menu", "Finding Conformers of Molecules", "Geometry Constraints", "Enabling additional force fields", "Optimizing Geometry", "Introduction to Molecular Mechanics", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "Language", "Align Tool", "Animation Tool", "Auto-Rotate Tool", "Bond-Centric Manipulation Tool", "Draw Tool", "Tools", "Label Tool", "Manipulation Tool", "Measure Tool", "Navigation Tool", "Auto-Optimize Tool", "Selection Tool", "Template Tool", "Drawing Simple Molecules", "Tutorials", "Naming a Molecule", "Using QTAIM (Atoms in Molecules) Analysis", "Viewing Electrostatic Potential Maps", "Viewing Molecular Orbitals", "Viewing Vibrations", "What\u2019s New in Avogadro 2", "Interface Changes", "Major New Features", "Avogadro", "Install", "Version History", "Avogadro 0.1.0", "Avogadro 0.2.0", "Avogadro 0.6.0", "Avogadro 0.6.1", "Avogadro 0.8.0", "Avogadro 0.8.1", "Avogadro 0.9.0", "Avogadro 0.9.1", "Avogadro 0.9.2", "Avogadro 0.9.3", "Avogadro 0.9.4", "Avogadro 0.9.5", "Avogadro 0.9.6", "Avogadro 0.9.7", "Avogadro v0.9.8", "Avogadro v0.9.9", "Avogadro 1.0.0", "Avogadro v1.0.1", "Avogadro v1.0.2", "Avogadro v1.0.3", "Avogadro v1.1.0", "Avogadro v1.1.1", "Avogadro 1.2.0", "Avogadro v1.94.0", "Avogadro v1.95.0", "Avogadro v1.95.1", "Avogadro v1.96.0", "Avogadro v1.97.0", "Avogadro v1.98.0", "Avogadro v1.98.1", "Avogadro v1.99.0", "Acid-Base Properties of Amino Acids", "Alkene Isomers", "Educational Publications Using Avogadro", "Basic VSEPR", "1,3-diaxial interactions", "HCN dipole", "Hydrogen Clusters", "Hydrogen Molecule", "Teach", "Markovnikov\u2019s Rule", "Organic Hybridization", "Water"], "titleterms": {"": [228, 260, 267, 268, 269, 270, 271, 272, 273, 274, 275, 276, 277, 278, 279, 280, 281, 282, 283, 284, 285, 286, 287, 306], "0": [181, 266, 267, 268, 269, 270, 271, 272, 273, 274, 275, 276, 277, 278, 279, 282, 283, 284, 285, 286, 288, 289, 290, 292, 293, 294, 296], "1": [172, 181, 217, 266, 269, 271, 273, 282, 283, 286, 287, 288, 291, 295, 301], "2": [173, 181, 216, 217, 260, 267, 274, 284, 288], "3": [181, 217, 275, 285, 301], "3d": 299, "4": [181, 276], "5": [181, 277], "6": [181, 268, 269, 278], "7": [181, 279], "8": [181, 270, 271, 280], "9": [272, 273, 274, 275, 276, 277, 278, 279, 280, 281], "94": 289, "95": [290, 291], "96": 292, "97": 293, "98": [294, 295], "99": 296, "As": [218, 220], "The": 172, "To": 219, "access": 262, "acid": 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296], "zulfikar": [2, 4], "zypper": 8, "\u00e5": [184, 188, 189, 190, 225, 244, 248, 262, 304, 307, 308], "\u00e53": 189, "\u00f6mer": [2, 4], "\u010dert\u00edk": [2, 4], "\u03b1": [209, 303], "\u03b2": [209, 303], "\u03b3": 303, "\u03b7": 252, "\u043c\u0430\u043d69\u043a": 293, "\u5218\u97ec": 292}, "titles": ["Contributing Code", "Coding Style (C++)", "&lt;no title&gt;", "Coding Conventions (C++)", "Thanks", "Documenting Code", "Contribute", "Translations", "Building Source Code", "Class Avogadro::Core::Array", "Class Avogadro::Core::ArraySet", "Class Avogadro::Core::ArraySet::Holder", "Class Avogadro::Core::ArraySet::PlaceHolder", "Class Avogadro::Core::Atom", "Class Avogadro::Core::AtomTemplate", "Class Avogadro::Core::AtomTyper", "Class Avogadro::Core::AvoSpglib", "Class Avogadro::Core::BasisSet", "Class Avogadro::Core::Bond", "Class Avogadro::Core::BondTemplate", "Class Avogadro::Core::Color3f", "Class Avogadro::Core::CoordinateBlockGenerator", "Class Avogadro::Core::CoordinateSet", "Class Avogadro::Core::CrystalTools", "Class Avogadro::Core::Cube", "Class Avogadro::Core::Elements", "Class Avogadro::Core::GaussianSet", "Class Avogadro::Core::GaussianSetTools", "Class Avogadro::Core::Graph", "Class Avogadro::Core::Mesh", "Class Avogadro::Core::Molecule", "Class Avogadro::Core::MoleculeDeserializer", "Class Avogadro::Core::MoleculeSerializer", "Class Avogadro::Core::Mutex", "Class Avogadro::Core::NameAtomTyper", "Class Avogadro::Core::Residue", "Class Avogadro::Core::ResidueData", "Class Avogadro::Core::RingPerceiver", "Class Avogadro::Core::SharedMutex", "Class Avogadro::Core::SlaterSet", "Class Avogadro::Core::SlaterSetTools", "Class Avogadro::Core::SpaceGroups", "Class Avogadro::Core::SymbolAtomTyper", "Class Avogadro::Core::UnitCell", "Class Avogadro::Core::Variant", "Class Avogadro::Core::VariantMap", "Class Avogadro::Core::internal::ArrayRefContainer", "Class Avogadro::Io::CjsonFormat", "Class Avogadro::Io::CmlFormat", "Class Avogadro::Io::DcdFormat", "Class Avogadro::Io::FileFormat", "Class Avogadro::Io::FileFormatManager", "Class Avogadro::Io::GromacsFormat", "Class Avogadro::Io::Hdf5DataFormat", "Class Avogadro::Io::LammpsDataFormat", "Class Avogadro::Io::LammpsTrajectoryFormat", "Class Avogadro::Io::MMTFFormat", "Class Avogadro::Io::MdlFormat", "Class Avogadro::Io::OutcarFormat", "Class Avogadro::Io::PdbFormat", "Class Avogadro::Io::PoscarFormat", "Class Avogadro::Io::TrrFormat", "Class Avogadro::Io::XyzFormat", "Class Avogadro::MoleQueue::BatchJob", "Class Avogadro::MoleQueue::InputGenerator", "Class Avogadro::MoleQueue::InputGeneratorDialog", "Class Avogadro::MoleQueue::InputGeneratorWidget", "Class Avogadro::MoleQueue::MoleQueueDialog", "Class Avogadro::MoleQueue::MoleQueueManager", "Class Avogadro::MoleQueue::MoleQueueQueueListModel", "Class Avogadro::MoleQueue::MoleQueueWidget", "Class Avogadro::QtGui::BackgroundFileFormat", "Class Avogadro::QtGui::ContainerWidget", "Class Avogadro::QtGui::CustomElementDialog", "Class Avogadro::QtGui::ElementDetail", "Class Avogadro::QtGui::ElementItem", "Class Avogadro::QtGui::ElementTranslator", "Class Avogadro::QtGui::ExtensionPlugin", "Class Avogadro::QtGui::ExtensionPluginFactory", "Class Avogadro::QtGui::FileBrowseWidget", "Class Avogadro::QtGui::FileFormatDialog", "Class Avogadro::QtGui::GenericHighlighter", "Class Avogadro::QtGui::GenericHighlighter::Rule", "Class Avogadro::QtGui::HydrogenTools", "Class Avogadro::QtGui::InterfaceScript", "Class Avogadro::QtGui::InterfaceWidget", "Class Avogadro::QtGui::MeshGenerator", "Class Avogadro::QtGui::Molecule", "Class Avogadro::QtGui::MoleculeModel", "Class Avogadro::QtGui::MultiViewWidget", "Class Avogadro::QtGui::PeriodicTableScene", "Class Avogadro::QtGui::PeriodicTableView", "Class Avogadro::QtGui::PersistentAtom", "Class Avogadro::QtGui::PersistentBond", "Class Avogadro::QtGui::PythonScript", "Class Avogadro::QtGui::RWAtom", "Class Avogadro::QtGui::RWBond", "Class Avogadro::QtGui::RWMolecule", "Class Avogadro::QtGui::ScenePlugin", "Class Avogadro::QtGui::ScenePluginFactory", "Class Avogadro::QtGui::ScenePluginModel", "Class Avogadro::QtGui::ScriptLoader", "Class Avogadro::QtGui::ToolPlugin", "Class Avogadro::QtGui::ToolPluginFactory", "Class Avogadro::QtGui::ViewFactory", "Class Avogadro::QtOpenGL::ActiveObjects", "Class Avogadro::QtOpenGL::GLWidget", "Class Avogadro::QtOpenGL::QtTextRenderStrategy", "Class Avogadro::QuantumIO::GAMESSUSOutput", "Class Avogadro::QuantumIO::GUKBasisSet", "Class Avogadro::QuantumIO::GamessukOut", "Class Avogadro::QuantumIO::GaussianCube", "Class Avogadro::QuantumIO::GaussianFchk", "Class Avogadro::QuantumIO::MoldenFile", "Class Avogadro::QuantumIO::MopacAux", "Class Avogadro::QuantumIO::NWChemJson", "Class Avogadro::QuantumIO::NWChemLog", "Class Avogadro::Rendering::AmbientOcclusionSphereGeometry", "Class Avogadro::Rendering::ArrowGeometry", "Class Avogadro::Rendering::BufferObject", "Class Avogadro::Rendering::Camera", "Class Avogadro::Rendering::Cylinder", "Class Avogadro::Rendering::CylinderGeometry", "Class Avogadro::Rendering::Drawable", "Class Avogadro::Rendering::GLRenderVisitor", "Class Avogadro::Rendering::GLRenderer", "Class Avogadro::Rendering::GeometryNode", "Class Avogadro::Rendering::GeometryVisitor", "Class Avogadro::Rendering::GroupNode", "Class Avogadro::Rendering::LineStripGeometry", "Class Avogadro::Rendering::MeshGeometry", "Class Avogadro::Rendering::Node", "Class Avogadro::Rendering::POVRayVisitor", "Class Avogadro::Rendering::Primitive", "Class Avogadro::Rendering::Scene", "Class Avogadro::Rendering::Shader", "Class Avogadro::Rendering::ShaderProgram", "Class Avogadro::Rendering::Sphere", "Class Avogadro::Rendering::SphereGeometry", "Class Avogadro::Rendering::TextLabel2D", "Class Avogadro::Rendering::TextLabel3D", "Class Avogadro::Rendering::TextLabelBase", "Class Avogadro::Rendering::TextProperties", "Class Avogadro::Rendering::TextRenderStrategy", "Class Avogadro::Rendering::Texture2D", "Class Avogadro::Rendering::TransformNode", "Class Avogadro::Rendering::VRMLVisitor", "Class Avogadro::Rendering::Visitor", "Class Avogadro::Rendering::VolumeGeometry", "Class Avogadro::TypeTraits", "Class Avogadro::TypeTraits&lt; char &gt;", "Class Avogadro::TypeTraits&lt; double &gt;", "Class Avogadro::TypeTraits&lt; float &gt;", "Class Avogadro::TypeTraits&lt; int &gt;", "Class Avogadro::TypeTraits&lt; short &gt;", "Class Avogadro::TypeTraits&lt; unsigned char &gt;", "Class Avogadro::TypeTraits&lt; unsigned int &gt;", "Class Avogadro::TypeTraits&lt; unsigned short &gt;", "Class Avogadro::VTK::VtkPlot", "Class Avogadro::VTK::vtkGLWidget", "Class vtkAvogadroActor", "API Documentation", "Avogadro::Core", "Develop", "Avogadro::IO", "Avogadro::MoleQueue", "Avogadro::QtGui", "Avogadro::Rendering", "Avogadro Remote Procedure Call (RPC)", "Charges / Electrostatics", "Command Scripts", "Energy / Force Fields", "Example Plugin Script - Part 1", "Example Plugin Script - Part 2", "File Formats", "Input Generators", "Script Plugins", "Installing Script Plugins", "Script Interfaces", "Project Structure", "VTK Classes", "License", "Avogadro: Molecular Editor and Visualization", "Table of contents", "Making a Crystal Surface Slab", "Building a Polymer Unit Cell", "Perceiving Crystall Symmetry", "Building Materials", "Building Molecule-Surface Interactions", "Reducing Crystals to a Primitive Unit Cell", "Scaling Crystal Cell Volume", "Building a Supercell", "Building a Peptide", "Building Carbon Nanotubes", "Building DNA or RNA", "Building with SMILES", "Importing from the Protein Data Bank (PDB)", "Importing Molecules by Name", "Building Molecules", "Insert Molecular Fragments", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "Coloring Part of a Molecules", "Display Types", "Different Display Styles", "Extensions", "Drawing Molecules", "Getting Started", "Introduction", "Making Selections", "Saving Files", "Guide", "Build Menu", "Edit Menu", "Extensions Menu", "File Menu", "Menus", "Select Menu", "View Menu", "Finding Conformers of Molecules", "Geometry Constraints", "Enabling additional force fields", "Optimizing Geometry", "Introduction to Molecular Mechanics", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "&lt;no title&gt;", "Language", "Align Tool", "Animation Tool", "Auto-Rotate Tool", "Bond-Centric Manipulation Tool", "Draw Tool", "Tools", "Label Tool", "Manipulation Tool", "Measure Tool", "Navigation Tool", "Auto-Optimize Tool", "Selection Tool", "Template Tool", "Drawing Simple Molecules", "Tutorials", "Naming a Molecule", "Using QTAIM (Atoms in Molecules) Analysis", "Viewing Electrostatic Potential Maps", "Viewing Molecular Orbitals", "Viewing Vibrations", "What\u2019s New in Avogadro 2", "Interface Changes", "Major New Features", "Avogadro", "Install", "Version History", "Avogadro 0.1.0", "Avogadro 0.2.0", "Avogadro 0.6.0", "Avogadro 0.6.1", "Avogadro 0.8.0", "Avogadro 0.8.1", "Avogadro 0.9.0", "Avogadro 0.9.1", "Avogadro 0.9.2", "Avogadro 0.9.3", "Avogadro 0.9.4", "Avogadro 0.9.5", "Avogadro 0.9.6", "Avogadro 0.9.7", "Avogadro v0.9.8", "Avogadro v0.9.9", "Avogadro 1.0.0", "Avogadro v1.0.1", "Avogadro v1.0.2", "Avogadro v1.0.3", "Avogadro v1.1.0", "Avogadro v1.1.1", "Avogadro 1.2.0", "Avogadro v1.94.0", "Avogadro v1.95.0", "Avogadro v1.95.1", "Avogadro v1.96.0", "Avogadro v1.97.0", "Avogadro v1.98.0", "Avogadro v1.98.1", "Avogadro v1.99.0", "Acid-Base Properties of Amino Acids", "Alkene Isomers", "Educational Publications Using Avogadro", "Basic VSEPR", "1,3-diaxial interactions", "HCN dipole", "Hydrogen Clusters", "Hydrogen Molecule", "Teach", "Markovnikov\u2019s Rule", "Organic Hybridization", "Water"], 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