Solve depeneciey conflicts

breimanntools · Sep 19, 2023 · 84a68bb · 84a68bb
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diff --git a/CONTRIBUTING.rst b/CONTRIBUTING.rst
@@ -207,8 +207,9 @@ Documentation Style
 
 - **Autodoc**: We use `Sphinx <https://www.sphinx-doc.org/en/master/index.html>`_
   for automatic inclusion of docstrings in the documentation, including its
-  `autodoc <https://www.sphinx-doc.org/en/master/usage/extensions/autodoc.html>`_ and
-  `napoleon <https://sphinxcontrib-napoleon.readthedocs.io/en/latest/#>`_ extensions.
+  `autodoc <https://www.sphinx-doc.org/en/master/usage/extensions/autodoc.html>`_,
+  `napoleon <https://sphinxcontrib-napoleon.readthedocs.io/en/latest/#>`_, and
+  `sphinx-design <https://sphinx-design.readthedocs.io/en/rtd-theme/>`_ extensions.
 
 - **Further Details**: See `docs/source/conf.py` for more.
 

diff --git a/docs/build/doctrees/environment.pickle b/docs/build/doctrees/environment.pickle
diff --git a/docs/build/doctrees/generated/aaanalysis.AAclust.doctree b/docs/build/doctrees/generated/aaanalysis.AAclust.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.CPP.doctree b/docs/build/doctrees/generated/aaanalysis.CPP.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.CPPPlot.doctree b/docs/build/doctrees/generated/aaanalysis.CPPPlot.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.SequenceFeature.doctree b/docs/build/doctrees/generated/aaanalysis.SequenceFeature.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.dPULearn.doctree b/docs/build/doctrees/generated/aaanalysis.dPULearn.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.load_dataset.doctree b/docs/build/doctrees/generated/aaanalysis.load_dataset.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.load_scales.doctree b/docs/build/doctrees/generated/aaanalysis.load_scales.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.plot_get_cdict.doctree b/docs/build/doctrees/generated/aaanalysis.plot_get_cdict.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.plot_get_cmap.doctree b/docs/build/doctrees/generated/aaanalysis.plot_get_cmap.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.plot_set_legend.doctree b/docs/build/doctrees/generated/aaanalysis.plot_set_legend.doctree
diff --git a/docs/build/doctrees/generated/aaanalysis.plot_settings.doctree b/docs/build/doctrees/generated/aaanalysis.plot_settings.doctree
diff --git a/docs/build/doctrees/index.doctree b/docs/build/doctrees/index.doctree
diff --git a/docs/build/doctrees/index/citations.doctree b/docs/build/doctrees/index/citations.doctree
diff --git a/docs/build/html/.buildinfo b/docs/build/html/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 5652251cb1fd08d29d15e533cc90f142
+config: 0c277754bd0683ae0dcce018f4b76315
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/docs/build/html/_index/badges.html b/docs/build/html/_index/badges.html
@@ -1,7 +1,10 @@
+
+
 <!DOCTYPE html>
 <html class="writer-html5" lang="en" >
 <head>
-  <meta charset="utf-8" /><meta property="og:title" content="<no title>" />
+  <meta charset="utf-8" />
+  <meta property="og:title" content="<no title>" />
 <meta property="og:type" content="website" />
 <meta property="og:url" content="_index/badges.html" />
 <meta property="og:site_name" content="AAanalysis" />
@@ -14,19 +17,38 @@
 <meta name="twitter:card" content="summary_large_image" />
 
   <meta name="viewport" content="width=device-width, initial-scale=1.0" />
+
   <title>&lt;no title&gt; &mdash; AAanalysis</title>
-      <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
-      <link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
-      <link rel="stylesheet" href="../_static/copybutton.css" type="text/css" />
-      <link rel="stylesheet" href="../_static/mystnb.4510f1fc1dee50b3e5859aac5469c37c29e427902b24a333a5f9fcb2f0b3ac41.css" type="text/css" />
-      <link rel="stylesheet" href="../_static/plot_directive.css" type="text/css" />
-      <link rel="stylesheet" href="../_static/design-style.1e8bd061cd6da7fc9cf755528e8ffc24.min.css" type="text/css" />
-      <link rel="stylesheet" href="../_static/css/style.css" type="text/css" />
+
+
+
+  <link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/copybutton.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/mystnb.4510f1fc1dee50b3e5859aac5469c37c29e427902b24a333a5f9fcb2f0b3ac41.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/plot_directive.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/design-style.1e8bd061cd6da7fc9cf755528e8ffc24.min.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/css/style.css" type="text/css" />
+
+
+
     <link rel="shortcut icon" href="../_static/logo_small.png"/>
+
+
+
+
+
+
+
+
   <!--[if lt IE 9]>
     <script src="../_static/js/html5shiv.min.js"></script>
   <![endif]-->
 
+
+      <script type="text/javascript" id="documentation_options" data-url_root="../" src="../_static/documentation_options.js"></script>
         <script data-url_root="../" id="documentation_options" src="../_static/documentation_options.js"></script>
         <script src="../_static/jquery.js"></script>
         <script src="../_static/underscore.js"></script>
@@ -36,34 +58,63 @@
         <script src="../_static/clipboard.min.js"></script>
         <script src="../_static/copybutton.js"></script>
         <script src="../_static/design-tabs.js"></script>
-    <script src="../_static/js/theme.js"></script>
+
+    <script type="text/javascript" src="../_static/js/theme.js"></script>
+
+
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" /> 
 </head>
 
-<body class="wy-body-for-nav"> 
+<body class="wy-body-for-nav">
+
+
   <div class="wy-grid-for-nav">
+
     <nav data-toggle="wy-nav-shift" class="wy-nav-side">
       <div class="wy-side-scroll">
         <div class="wy-side-nav-search"  style="background: #343131" >
+
 
 
+            <a href="../index.html">
+
+
 
-          <a href="../index.html">
 
-              <img src="../_static/logo_big_trans.png" class="logo" alt="Logo"/>
+            <img src="../_static/logo_big_trans.png" class="logo" alt="Logo"/>
+
           </a>
+
+
+
+
               <div class="version">
                 latest
               </div>
+
+
+
+
 <div role="search">
   <form id="rtd-search-form" class="wy-form" action="../search.html" method="get">
-    <input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
+    <input type="text" name="q" placeholder="Search docs" />
     <input type="hidden" name="check_keywords" value="yes" />
     <input type="hidden" name="area" value="default" />
   </form>
 </div>
-        </div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
+
+
+        </div>
+
+
+        <div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="main navigation">
+
+
+
+
+
+
               <p class="caption" role="heading"><span class="caption-text">OVERVIEW</span></p>
 <ul>
 <li class="toctree-l1"><a class="reference internal" href="../index/introduction.html">Introduction</a></li>
@@ -83,30 +134,71 @@
 <li class="toctree-l1"><a class="reference internal" href="../index/references.html">References</a></li>
 </ul>
 
+
+
         </div>
+
       </div>
     </nav>
 
-    <section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu"  style="background: #343131" >
+    <section data-toggle="wy-nav-shift" class="wy-nav-content-wrap">
+
+
+      <nav class="wy-nav-top" aria-label="top navigation">
+
           <i data-toggle="wy-nav-top" class="fa fa-bars"></i>
           <a href="../index.html">AAanalysis</a>
+
       </nav>
 
+
       <div class="wy-nav-content">
+
         <div class="rst-content">
-          <div role="navigation" aria-label="Page navigation">
+
+
+
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+
+
+
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+
+
+
+
+
+
+
+
+
+<div role="navigation" aria-label="breadcrumbs navigation">
+
   <ul class="wy-breadcrumbs">
-      <li><a href="../index.html" class="icon icon-home" aria-label="Home"></a></li>
-      <li class="breadcrumb-item active">&lt;no title&gt;</li>
+
+      <li><a href="../index.html" class="icon icon-home"></a> &raquo;</li>
+
+      <li>&lt;no title&gt;</li>
+
+
       <li class="wy-breadcrumbs-aside">
+
+
             <a href="../_sources/_index/badges.rst.txt" rel="nofollow"> View page source</a>
+
+
       </li>
+
   </ul>
+
+
   <hr/>
 </div>
           <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
            <div itemprop="articleBody">
-             
+
   <a class="reference external image-reference" href="https://github.com/breimanntools/aaanalysis/actions"><img alt="Build Status" src="https://github.com/breimanntools/aaanalysis/workflows/Build/badge.svg" /></a>
 <a class="reference external image-reference" href="https://github.com/breimanntools/aaanalysis/actions"><img alt="Python-check" src="https://github.com/breimanntools/aaanalysis/workflows/Python-check/badge.svg" /></a>
 <a class="reference external image-reference" href="https://pypi.org/project/aaanalysis/"><img alt="PyPI - Status" src="https://img.shields.io/pypi/status/aaanalysis.svg" /></a>
@@ -119,27 +211,38 @@
 
 
            </div>
+
           </div>
           <footer>
 
   <hr/>
 
   <div role="contentinfo">
-    <p>&#169; Copyright 2023, Stephan Breimann.</p>
-  </div>
+    <p>
+        &#169; Copyright 2023, Stephan Breimann.
 
-
+    </p>
+  </div> 
 
 </footer>
         </div>
       </div>
+
     </section>
+
   </div>
-  <script>
+
+
+  <script type="text/javascript">
       jQuery(function () {
           SphinxRtdTheme.Navigation.enable(true);
       });
-  </script> 
+  </script>
+
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+
+
+
 
 </body>
 </html>