Update dev docs

materialsproject · Nov 30, 2017 · c9b6ce7 · c9b6ce7
1 parent d95488e
commit c9b6ce7
Show file tree

Hide file tree

Showing 463 changed files with 2,021 additions and 1,943 deletions.
diff --git a/docs/_modules/index.html b/docs/_modules/index.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>Overview: module code &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>Overview: module code &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li> 
+        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li> 
       </ul>
     </div>  
 
@@ -272,7 +272,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li> 
+        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li> 
       </ul>
     </div>
 

diff --git a/docs/_modules/monty/dev.html b/docs/_modules/monty/dev.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>monty.dev &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>monty.dev &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../index.html" accesskey="U">Module code</a> &#187;</li> 
       </ul>
     </div>  
@@ -307,7 +307,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../index.html" >Module code</a> &#187;</li> 
       </ul>
     </div>

diff --git a/docs/_modules/pymatgen.html b/docs/_modules/pymatgen.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>pymatgen &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>pymatgen &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="index.html" accesskey="U">Module code</a> &#187;</li> 
       </ul>
     </div>  
@@ -65,7 +65,7 @@ <h1>Source code for pymatgen</h1><div class="highlight"><pre>
 <span class="n">__email__</span> <span class="o">=</span><span class="s2">&quot;pymatgen@googlegroups.com&quot;</span>
 <span class="n">__maintainer__</span> <span class="o">=</span> <span class="s2">&quot;Shyue Ping Ong&quot;</span>
 <span class="n">__maintainer_email__</span> <span class="o">=</span><span class="s2">&quot;shyuep@gmail.com&quot;</span>
-<span class="n">__version__</span> <span class="o">=</span> <span class="s2">&quot;2017.11.27&quot;</span>
+<span class="n">__version__</span> <span class="o">=</span> <span class="s2">&quot;2017.11.30&quot;</span>
 
 
 <span class="n">SETTINGS_FILE</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">expanduser</span><span class="p">(</span><span class="s2">&quot;~&quot;</span><span class="p">),</span> <span class="s2">&quot;.pmgrc.yaml&quot;</span><span class="p">)</span>
@@ -171,7 +171,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="index.html" >Module code</a> &#187;</li> 
       </ul>
     </div>

diff --git a/docs/_modules/pymatgen/alchemy/filters.html b/docs/_modules/pymatgen/alchemy/filters.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>pymatgen.alchemy.filters &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>pymatgen.alchemy.filters &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../../../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../../../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../../../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" accesskey="U">pymatgen</a> &#187;</li> 
       </ul>
@@ -384,7 +384,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" >pymatgen</a> &#187;</li> 
       </ul>

diff --git a/docs/_modules/pymatgen/alchemy/materials.html b/docs/_modules/pymatgen/alchemy/materials.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>pymatgen.alchemy.materials &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>pymatgen.alchemy.materials &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../../../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../../../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../../../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" accesskey="U">pymatgen</a> &#187;</li> 
       </ul>
@@ -460,7 +460,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" >pymatgen</a> &#187;</li> 
       </ul>

diff --git a/docs/_modules/pymatgen/alchemy/transmuters.html b/docs/_modules/pymatgen/alchemy/transmuters.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>pymatgen.alchemy.transmuters &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>pymatgen.alchemy.transmuters &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../../../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../../../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../../../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" accesskey="U">pymatgen</a> &#187;</li> 
       </ul>
@@ -496,7 +496,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" >pymatgen</a> &#187;</li> 
       </ul>

diff --git a/docs/_modules/pymatgen/analysis/adsorption.html b/docs/_modules/pymatgen/analysis/adsorption.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>pymatgen.analysis.adsorption &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>pymatgen.analysis.adsorption &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../../../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../../../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../../../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" accesskey="U">pymatgen</a> &#187;</li> 
       </ul>
@@ -562,6 +562,7 @@ <h1>Source code for pymatgen.analysis.adsorption</h1><div class="highlight"><pre
                             <span class="n">properties</span><span class="o">=</span><span class="p">{</span><span class="s2">&quot;surface_properties&quot;</span><span class="p">:</span> <span class="s2">&quot;adsorbate&quot;</span><span class="p">})</span>
                 <span class="n">slab</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">adsorbate</span><span class="o">.</span><span class="n">specie</span><span class="p">,</span> <span class="n">adsorbate</span><span class="o">.</span><span class="n">frac_coords</span><span class="p">,</span>
                             <span class="n">properties</span><span class="o">=</span><span class="p">{</span><span class="s2">&quot;surface_properties&quot;</span><span class="p">:</span> <span class="s2">&quot;adsorbate&quot;</span><span class="p">})</span>
+            <span class="n">new_adslabs</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">slab</span><span class="p">)</span>
 
         <span class="k">return</span> <span class="n">new_adslabs</span></div></div>
 
@@ -716,7 +717,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" >pymatgen</a> &#187;</li> 
       </ul>

diff --git a/docs/_modules/pymatgen/analysis/bond_valence.html b/docs/_modules/pymatgen/analysis/bond_valence.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>pymatgen.analysis.bond_valence &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>pymatgen.analysis.bond_valence &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../../../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../../../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../../../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" accesskey="U">pymatgen</a> &#187;</li> 
       </ul>
@@ -618,7 +618,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../pymatgen.html" >pymatgen</a> &#187;</li> 
       </ul>

diff --git a/docs/_modules/pymatgen/analysis/chemenv/coordination_environments/chemenv_strategies.html b/docs/_modules/pymatgen/analysis/chemenv/coordination_environments/chemenv_strategies.html
@@ -5,13 +5,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml">
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <title>pymatgen.analysis.chemenv.coordination_environments.chemenv_strategies &#8212; pymatgen 2017.11.27 documentation</title>
+    <title>pymatgen.analysis.chemenv.coordination_environments.chemenv_strategies &#8212; pymatgen 2017.11.30 documentation</title>
     <link rel="stylesheet" href="../../../../../_static/proBlue.css" type="text/css" />
     <link rel="stylesheet" href="../../../../../_static/pygments.css" type="text/css" />
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    '../../../../../',
-        VERSION:     '2017.11.27',
+        VERSION:     '2017.11.30',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true,
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../../../pymatgen.html" accesskey="U">pymatgen</a> &#187;</li> 
       </ul>
@@ -2065,7 +2065,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="../../../../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
-        <li class="nav-item nav-item-0"><a href="../../../../../index.html">pymatgen 2017.11.27 documentation</a> &#187;</li>
+        <li class="nav-item nav-item-0"><a href="../../../../../index.html">pymatgen 2017.11.30 documentation</a> &#187;</li>
           <li class="nav-item nav-item-1"><a href="../../../../index.html" >Module code</a> &#187;</li>
           <li class="nav-item nav-item-2"><a href="../../../../pymatgen.html" >pymatgen</a> &#187;</li> 
       </ul>