v2.302 (v2.3r2)

lmrodriguezr · Feb 3, 2014 · fa0834c · fa0834c
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diff --git a/docs/_build/doctrees/environment.pickle b/docs/_build/doctrees/environment.pickle
diff --git a/docs/_build/doctrees/installation.doctree b/docs/_build/doctrees/installation.doctree
diff --git a/docs/_build/html/.buildinfo b/docs/_build/html/.buildinfo
@@ -1,4 +1,4 @@
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 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
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+config: af1aea02d06a3a05e4f38911a93af77f
 tags: a205e9ed8462ae86fdd2f73488852ba9
diff --git a/docs/_build/html/curves.html b/docs/_build/html/curves.html
@@ -6,15 +6,15 @@
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 
-    <title>Nonpareil curves &mdash; Nonpareil 2.3r1 documentation</title>
+    <title>Nonpareil curves &mdash; Nonpareil 2.3r2 documentation</title>
 
     <link rel="stylesheet" href="_static/default.css" type="text/css" />
     <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
 
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    './',
-        VERSION:     '2.3r1',
+        VERSION:     '2.3r2',
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         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true
@@ -23,7 +23,7 @@
     <script type="text/javascript" src="_static/jquery.js"></script>
     <script type="text/javascript" src="_static/underscore.js"></script>
     <script type="text/javascript" src="_static/doctools.js"></script>
-    <link rel="top" title="Nonpareil 2.3r1 documentation" href="index.html" />
+    <link rel="top" title="Nonpareil 2.3r2 documentation" href="index.html" />
     <link rel="next" title="MPI support" href="mpi.html" />
     <link rel="prev" title="Redundancy" href="redundancy.html" /> 
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@@ -40,7 +40,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="redundancy.html" title="Redundancy"
              accesskey="P">previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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@@ -191,7 +191,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="redundancy.html" title="Redundancy"
              >previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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diff --git a/docs/_build/html/genindex.html b/docs/_build/html/genindex.html
@@ -7,15 +7,15 @@
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 
-    <title>Index &mdash; Nonpareil 2.3r1 documentation</title>
+    <title>Index &mdash; Nonpareil 2.3r2 documentation</title>
 
     <link rel="stylesheet" href="_static/default.css" type="text/css" />
     <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
 
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    './',
-        VERSION:     '2.3r1',
+        VERSION:     '2.3r2',
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         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true
@@ -24,7 +24,7 @@
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     <script type="text/javascript" src="_static/underscore.js"></script>
     <script type="text/javascript" src="_static/doctools.js"></script>
-    <link rel="top" title="Nonpareil 2.3r1 documentation" href="index.html" /> 
+    <link rel="top" title="Nonpareil 2.3r2 documentation" href="index.html" /> 
   </head>
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@@ -33,7 +33,7 @@ <h3>Navigation</h3>
         <li class="right" style="margin-right: 10px">
           <a href="#" title="General Index"
              accesskey="I">index</a></li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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     </div>  
 
@@ -81,7 +81,7 @@ <h3>Navigation</h3>
         <li class="right" style="margin-right: 10px">
           <a href="#" title="General Index"
              >index</a></li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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     <div class="footer">

diff --git a/docs/_build/html/index.html b/docs/_build/html/index.html
@@ -6,15 +6,15 @@
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 
-    <title>Nonpareil &mdash; Nonpareil 2.3r1 documentation</title>
+    <title>Nonpareil &mdash; Nonpareil 2.3r2 documentation</title>
 
     <link rel="stylesheet" href="_static/default.css" type="text/css" />
     <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
 
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    './',
-        VERSION:     '2.3r1',
+        VERSION:     '2.3r2',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true
@@ -23,7 +23,7 @@
     <script type="text/javascript" src="_static/jquery.js"></script>
     <script type="text/javascript" src="_static/underscore.js"></script>
     <script type="text/javascript" src="_static/doctools.js"></script>
-    <link rel="top" title="Nonpareil 2.3r1 documentation" href="#" />
+    <link rel="top" title="Nonpareil 2.3r2 documentation" href="#" />
     <link rel="next" title="Install Nonpareil" href="installation.html" /> 
   </head>
   <body>
@@ -36,7 +36,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="installation.html" title="Install Nonpareil"
              accesskey="N">next</a> |</li>
-        <li><a href="#">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="#">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
       </ul>
     </div>  
 
@@ -129,7 +129,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="installation.html" title="Install Nonpareil"
              >next</a> |</li>
-        <li><a href="#">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="#">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
       </ul>
     </div>
     <div class="footer">

diff --git a/docs/_build/html/installation.html b/docs/_build/html/installation.html
@@ -6,15 +6,15 @@
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 
-    <title>Install Nonpareil &mdash; Nonpareil 2.3r1 documentation</title>
+    <title>Install Nonpareil &mdash; Nonpareil 2.3r2 documentation</title>
 
     <link rel="stylesheet" href="_static/default.css" type="text/css" />
     <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
 
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    './',
-        VERSION:     '2.3r1',
+        VERSION:     '2.3r2',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true
@@ -23,9 +23,9 @@
     <script type="text/javascript" src="_static/jquery.js"></script>
     <script type="text/javascript" src="_static/underscore.js"></script>
     <script type="text/javascript" src="_static/doctools.js"></script>
-    <link rel="top" title="Nonpareil 2.3r1 documentation" href="index.html" />
+    <link rel="top" title="Nonpareil 2.3r2 documentation" href="index.html" />
     <link rel="next" title="Preprocess the reads" href="preprocess.html" />
-    <link rel="prev" title="Nonpareil" href="index.html" /> 
+    <link rel="prev" title="Updates history" href="updates.html" /> 
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@@ -38,9 +38,9 @@ <h3>Navigation</h3>
           <a href="preprocess.html" title="Preprocess the reads"
              accesskey="N">next</a> |</li>
         <li class="right" >
-          <a href="index.html" title="Nonpareil"
+          <a href="updates.html" title="Updates history"
              accesskey="P">previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
       </ul>
     </div>  
 
@@ -115,8 +115,8 @@ <h3><a href="index.html">Table Of Contents</a></h3>
 </ul>
 
   <h4>Previous topic</h4>
-  <p class="topless"><a href="index.html"
-                        title="previous chapter">Nonpareil</a></p>
+  <p class="topless"><a href="updates.html"
+                        title="previous chapter">Updates history</a></p>
   <h4>Next topic</h4>
   <p class="topless"><a href="preprocess.html"
                         title="next chapter">Preprocess the reads</a></p>
@@ -152,9 +152,9 @@ <h3>Navigation</h3>
           <a href="preprocess.html" title="Preprocess the reads"
              >next</a> |</li>
         <li class="right" >
-          <a href="index.html" title="Nonpareil"
+          <a href="updates.html" title="Updates history"
              >previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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     <div class="footer">

diff --git a/docs/_build/html/mpi.html b/docs/_build/html/mpi.html
@@ -6,15 +6,15 @@
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 
-    <title>MPI support &mdash; Nonpareil 2.3r1 documentation</title>
+    <title>MPI support &mdash; Nonpareil 2.3r2 documentation</title>
 
     <link rel="stylesheet" href="_static/default.css" type="text/css" />
     <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
 
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    './',
-        VERSION:     '2.3r1',
+        VERSION:     '2.3r2',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true
@@ -23,7 +23,7 @@
     <script type="text/javascript" src="_static/jquery.js"></script>
     <script type="text/javascript" src="_static/underscore.js"></script>
     <script type="text/javascript" src="_static/doctools.js"></script>
-    <link rel="top" title="Nonpareil 2.3r1 documentation" href="index.html" />
+    <link rel="top" title="Nonpareil 2.3r2 documentation" href="index.html" />
     <link rel="prev" title="Nonpareil curves" href="curves.html" /> 
   </head>
   <body>
@@ -36,7 +36,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="curves.html" title="Nonpareil curves"
              accesskey="P">previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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@@ -182,7 +182,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="curves.html" title="Nonpareil curves"
              >previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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     <div class="footer">

diff --git a/docs/_build/html/preprocess.html b/docs/_build/html/preprocess.html
@@ -6,15 +6,15 @@
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 
-    <title>Preprocess the reads &mdash; Nonpareil 2.3r1 documentation</title>
+    <title>Preprocess the reads &mdash; Nonpareil 2.3r2 documentation</title>
 
     <link rel="stylesheet" href="_static/default.css" type="text/css" />
     <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
 
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    './',
-        VERSION:     '2.3r1',
+        VERSION:     '2.3r2',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true
@@ -23,9 +23,9 @@
     <script type="text/javascript" src="_static/jquery.js"></script>
     <script type="text/javascript" src="_static/underscore.js"></script>
     <script type="text/javascript" src="_static/doctools.js"></script>
-    <link rel="top" title="Nonpareil 2.3r1 documentation" href="index.html" />
+    <link rel="top" title="Nonpareil 2.3r2 documentation" href="index.html" />
     <link rel="next" title="Redundancy" href="redundancy.html" />
-    <link rel="prev" title="Install Nonpareil" href="installation.html" /> 
+    <link rel="prev" title="MPI support" href="mpi.html" /> 
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@@ -38,9 +38,9 @@ <h3>Navigation</h3>
           <a href="redundancy.html" title="Redundancy"
              accesskey="N">next</a> |</li>
         <li class="right" >
-          <a href="installation.html" title="Install Nonpareil"
+          <a href="mpi.html" title="MPI support"
              accesskey="P">previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
       </ul>
     </div>  
 
@@ -74,8 +74,8 @@ <h1>Preprocess the reads<a class="headerlink" href="#preprocess-the-reads" title
       <div class="sphinxsidebar">
         <div class="sphinxsidebarwrapper">
   <h4>Previous topic</h4>
-  <p class="topless"><a href="installation.html"
-                        title="previous chapter">Install Nonpareil</a></p>
+  <p class="topless"><a href="mpi.html"
+                        title="previous chapter">MPI support</a></p>
   <h4>Next topic</h4>
   <p class="topless"><a href="redundancy.html"
                         title="next chapter">Redundancy</a></p>
@@ -111,9 +111,9 @@ <h3>Navigation</h3>
           <a href="redundancy.html" title="Redundancy"
              >next</a> |</li>
         <li class="right" >
-          <a href="installation.html" title="Install Nonpareil"
+          <a href="mpi.html" title="MPI support"
              >previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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diff --git a/docs/_build/html/redundancy.html b/docs/_build/html/redundancy.html
@@ -6,15 +6,15 @@
   <head>
     <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 
-    <title>Redundancy &mdash; Nonpareil 2.3r1 documentation</title>
+    <title>Redundancy &mdash; Nonpareil 2.3r2 documentation</title>
 
     <link rel="stylesheet" href="_static/default.css" type="text/css" />
     <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
 
     <script type="text/javascript">
       var DOCUMENTATION_OPTIONS = {
         URL_ROOT:    './',
-        VERSION:     '2.3r1',
+        VERSION:     '2.3r2',
         COLLAPSE_INDEX: false,
         FILE_SUFFIX: '.html',
         HAS_SOURCE:  true
@@ -23,7 +23,7 @@
     <script type="text/javascript" src="_static/jquery.js"></script>
     <script type="text/javascript" src="_static/underscore.js"></script>
     <script type="text/javascript" src="_static/doctools.js"></script>
-    <link rel="top" title="Nonpareil 2.3r1 documentation" href="index.html" />
+    <link rel="top" title="Nonpareil 2.3r2 documentation" href="index.html" />
     <link rel="next" title="Nonpareil curves" href="curves.html" />
     <link rel="prev" title="Preprocess the reads" href="preprocess.html" /> 
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@@ -40,7 +40,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="preprocess.html" title="Preprocess the reads"
              accesskey="P">previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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@@ -306,7 +306,7 @@ <h3>Navigation</h3>
         <li class="right" >
           <a href="preprocess.html" title="Preprocess the reads"
              >previous</a> |</li>
-        <li><a href="index.html">Nonpareil 2.3r1 documentation</a> &raquo;</li> 
+        <li><a href="index.html">Nonpareil 2.3r2 documentation</a> &raquo;</li> 
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