merge branch ctbto to master

.gitignore

+#!/bin/bash
+#
+# @Author: Anne Philipp
+#
+# @Date: January 2018
+#
+# @Description: 
+#    gitignore lists all directories and files which should 
+#    not be versionized!!! 
+#
+# @Licence:
+#    (C) Copyright 2014-2020.
+#
+#    SPDX-License-Identifier: CC-BY-4.0
+#
+#    This work is licensed under the Creative Commons Attribution 4.0
+#    International License. To view a copy of this license, visit
+#    http://creativecommons.org/licenses/by/4.0/ or send a letter to
+#    Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.
+#
+# -----------------------------------------------------------------
+
+# these dirs and files shouldn't be versionized at any time in this project!!!
+*.pyc
+Source/Fortran/*.o
+Source/Fortran/*.mod
+Source/Fortran/calc_etadot*
+*.tar*
+Run/ECMWF_ENV
+Run/Workspace/*
+Run/Jobscripts/*sh
+Testing/Installation/Calc_etadot/fort.15
+For_developers/Sphinx/Build_temp
+
+# Temporary ignorance of files!!!!
+*anne.sh
+Run/*anne.sh
+Source/Fortran/pycallgraph.png
+Source/Python/pylint_report_7.1.txt
+Source/.metrics
+
+# Testdata files: not for git storage
+Testdata
+Testing/Installation/Calc_etadot/VERTICAL.EC
+Testing/Regression/Compare_gribfiles/7.0.4/
+Testing/Regression/Compare_gribfiles/7.1/
+
+Emoslib
+Unused_input_files
+Unused_output

CODE_OF_CONDUCT.md

+# Contributor Covenant Code of Conduct
+
+## Our Pledge
+
+In the interest of fostering an open and welcoming environment, we as
+contributors and maintainers pledge to making participation in our project and
+our community a harassment-free experience for everyone, regardless of age, body
+size, disability, ethnicity, sex characteristics, gender identity and expression,
+level of experience, education, socio-economic status, nationality, personal
+appearance, race, religion, or sexual identity and orientation.
+
+## Our Standards
+
+Examples of behavior that contributes to creating a positive environment
+include:
+
+* Using welcoming and inclusive language
+* Being respectful of differing viewpoints and experiences
+* Gracefully accepting constructive criticism
+* Focusing on what is best for the community
+* Showing empathy towards other community members
+
+Examples of unacceptable behavior by participants include:
+
+* The use of sexualized language or imagery and unwelcome sexual attention or
+ advances
+* Trolling, insulting/derogatory comments, and personal or political attacks
+* Public or private harassment
+* Publishing others' private information, such as a physical or electronic
+ address, without explicit permission
+* Other conduct which could reasonably be considered inappropriate in a
+ professional setting
+
+## Our Responsibilities
+
+Project maintainers are responsible for clarifying the standards of acceptable
+behavior and are expected to take appropriate and fair corrective action in
+response to any instances of unacceptable behavior.
+
+Project maintainers have the right and responsibility to remove, edit, or
+reject comments, commits, code, wiki edits, issues, and other contributions
+that are not aligned to this Code of Conduct, or to ban temporarily or
+permanently any contributor for other behaviors that they deem inappropriate,
+threatening, offensive, or harmful.
+
+## Scope
+
+This Code of Conduct applies both within project spaces and in public spaces
+when an individual is representing the project or its community. Examples of
+representing a project or community include using an official project e-mail
+address, posting via an official social media account, or acting as an appointed
+representative at an online or offline event. Representation of a project may be
+further defined and clarified by project maintainers.
+
+## Enforcement
+
+Instances of abusive, harassing, or otherwise unacceptable behavior may be
+reported by contacting the project team at fp-dev(at)lists.univie.ac.at. All
+complaints will be reviewed and investigated and will result in a response that
+is deemed necessary and appropriate to the circumstances. The project team is
+obligated to maintain confidentiality with regard to the reporter of an incident.
+Further details of specific enforcement policies may be posted separately.
+
+Project maintainers who do not follow or enforce the Code of Conduct in good
+faith may face temporary or permanent repercussions as determined by other
+members of the project's leadership.
+
+## Attribution
+
+This Code of Conduct is adapted from the [Contributor Covenant][homepage], version 1.4,
+available at https://www.contributor-covenant.org/version/1/4/code-of-conduct.html
+
+[homepage]: https://www.contributor-covenant.org
+
+For answers to common questions about this code of conduct, see
+https://www.contributor-covenant.org/faq
\ No newline at end of file

Documentation/html/.buildinfo

+# 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: cac76732818e0e42f835f525375110ca
+tags: 645f666f9bcd5a90fca523b33c5a78b7

Documentation/html/Developers/gen_docu.html

+
+
+<!DOCTYPE html>
+<!--[if IE 8]><html class="no-js lt-ie9" lang="en" > <![endif]-->
+<!--[if gt IE 8]><!--> <html class="no-js" lang="en" > <!--<![endif]-->
+<head>
+  <meta charset="utf-8">
+  
+  <meta name="viewport" content="width=device-width, initial-scale=1.0">
+  
+  <title>Updating the documentation &mdash; flex_extract 7.1.2 documentation</title>
+  
+
+  
+  
+  
+  
+
+  
+  <script type="text/javascript" src="../_static/js/modernizr.min.js"></script>
+  
+    
+      <script type="text/javascript" id="documentation_options" data-url_root="../" src="../_static/documentation_options.js"></script>
+        <script src="../_static/jquery.js"></script>
+        <script src="../_static/underscore.js"></script>
+        <script src="../_static/doctools.js"></script>
+        <script src="../_static/language_data.js"></script>
+        <script async="async" src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/latest.js?config=TeX-AMS-MML_HTMLorMML"></script>
+    
+    <script type="text/javascript" src="../_static/js/theme.js"></script>
+
+    
+
+  
+  <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/css/custom.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/css/theme_overrides.css" type="text/css" />
+    <link rel="index" title="Index" href="../genindex.html" />
+    <link rel="search" title="Search" href="../search.html" />
+    <link rel="next" title="Changelog" href="../changelog.html" />
+    <link rel="prev" title="Developer Guide" href="../dev_guide.html" /> 
+</head>
+
+<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" >
+          
+
+          
+            <a href="../index.html" class="icon icon-home"> flex_extract
+          
+
+          
+          </a>
+
+          
+            
+            
+              <div class="version">
+                7.1.2
+              </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" />
+    <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="main navigation">
+          
+            
+            
+              
+            
+            
+              <p class="caption"><span class="caption-text">Table of Contents:</span></p>
+<ul class="current">
+<li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../installation.html">Installation</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../quick_start.html">Usage</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../documentation.html">Code-Level Documentation</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../evaluation.html">Evaluation</a></li>
+<li class="toctree-l1 current"><a class="reference internal" href="../dev_guide.html">Developer Guide</a><ul class="current">
+<li class="toctree-l2 current"><a class="current reference internal" href="#">Updating the documentation</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="#additional-software">Additional software</a></li>
+<li class="toctree-l3"><a class="reference internal" href="#on-line-documentation-with-sphinx">On-line documentation with Sphinx</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="#sequence-diagramms">Sequence diagramms</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#block-diagramms">Block diagramms</a></li>
+</ul>
+</li>
+</ul>
+</li>
+</ul>
+</li>
+<li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../support.html">Support</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../Support/faq.html">FAQ - Frequently asked questions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../authors.html">Developer Team</a></li>
+</ul>
+
+            
+          
+        </div>
+      </div>
+    </nav>
+
+    <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">flex_extract</a>
+        
+      </nav>
+
+
+      <div class="wy-nav-content">
+        
+        <div class="rst-content">
+        
+          
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+<div role="navigation" aria-label="breadcrumbs navigation">
+
+  <ul class="wy-breadcrumbs">
+    
+      <li><a href="../index.html">Docs</a> &raquo;</li>
+        
+          <li><a href="../dev_guide.html">Developer Guide</a> &raquo;</li>
+        
+      <li>Updating the documentation</li>
+    
+    
+      <li class="wy-breadcrumbs-aside">
+        
+            
+            <a href="../_sources/Developers/gen_docu.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">
+            
+  <div class="section" id="updating-the-documentation">
+<h1>Updating the documentation<a class="headerlink" href="#updating-the-documentation" title="Permalink to this headline">¶</a></h1>
+<p>UNDER CONSTRUCTION</p>
+<div class="section" id="additional-software">
+<h2>Additional software<a class="headerlink" href="#additional-software" title="Permalink to this headline">¶</a></h2>
+<p>Developers working on <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> should make extensive use of the prepared test cases and unit tests, and should also update the documentation. For this, some additional software is necessary:</p>
+<div class="highlight-sh notranslate"><div class="highlight"><pre><span></span>pip install pylint
+pip install pytest
+pip install mock
+pip install graphviz
+pip install sphinx
+pip install sphinxcontrib-exceltable
+pip install seqdiag
+pip install sphinxcontrib-seqdiag
+pip install sphinxcontrib-blockdiag
+pip install pycallgraph
+</pre></div>
+</div>
+</div>
+<div class="section" id="on-line-documentation-with-sphinx">
+<h2>On-line documentation with Sphinx<a class="headerlink" href="#on-line-documentation-with-sphinx" title="Permalink to this headline">¶</a></h2>
+<p>Use the script <code class="docutils literal notranslate"><span class="pre">gen_docu.sh</span></code> to generate an update of the on-line documentation of the Python component.</p>
+<p>It uses <code class="docutils literal notranslate"><span class="pre">pyreverse</span></code> to generate class and package diagrams with <code class="docutils literal notranslate"><span class="pre">graphviz</span></code> and overwrites the old files in the developers directory.
+<code class="docutils literal notranslate"><span class="pre">pyreverse</span></code> creates <code class="docutils literal notranslate"><span class="pre">dot</span></code> files, and with the <code class="docutils literal notranslate"><span class="pre">dot</span></code> program of the <code class="docutils literal notranslate"><span class="pre">graphviz</span></code> software, the <code class="docutils literal notranslate"><span class="pre">png</span></code> files are created. Everything happens in the Python source directory before moving them finally to the <code class="docutils literal notranslate"><span class="pre">For_developers</span></code> directory. The Sphinx source code has a <code class="docutils literal notranslate"><span class="pre">_files</span></code> directory which contains links to these <code class="docutils literal notranslate"><span class="pre">png</span></code> files and therefore they should not be renamed.</p>
+<div class="section" id="sequence-diagramms">
+<h3>Sequence diagramms<a class="headerlink" href="#sequence-diagramms" title="Permalink to this headline">¶</a></h3>
+<p>You might need to adapt the fonts path for the diagrams to a true-type font. Currently it is set to:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Fontpath for seqdiag (truetype font)</span>
+<span class="nv">seqdiag_fontpath</span> <span class="o">=</span> <span class="s1">&#39;/usr/share/fonts/dejavu/DejaVuSerif.ttf&#39;</span>
+</pre></div>
+</div>
+</div>
+<div class="section" id="block-diagramms">
+<h3>Block diagramms<a class="headerlink" href="#block-diagramms" title="Permalink to this headline">¶</a></h3>
+<p>You might need to adapt the fonts path for the diagrams to a true-type font. Currently it is set to:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Fontpath for blockdiag (truetype font)</span>
+<span class="nv">blockdiag_fontpath</span> <span class="o">=</span> <span class="s1">&#39;/usr/share/fonts/dejavu/DejaVuSerif.ttf&#39;</span>
+</pre></div>
+</div>
+<div class="toctree-wrapper compound">
+</div>
+</div>
+</div>
+</div>
+
+
+           </div>
+           
+          </div>
+          <footer>
+  
+    <div class="rst-footer-buttons" role="navigation" aria-label="footer navigation">
+      
+        <a href="../changelog.html" class="btn btn-neutral float-right" title="Changelog" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a>
+      
+      
+        <a href="../dev_guide.html" class="btn btn-neutral float-left" title="Developer Guide" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a>
+      
+    </div>
+  
+
+  <hr/>
+
+  <div role="contentinfo">
+    <p>
+        &copy; Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert
+
+    </p>
+  </div>
+  Built with <a href="http://sphinx-doc.org/">Sphinx</a> using a <a href="https://github.com/rtfd/sphinx_rtd_theme">theme</a> provided by <a href="https://readthedocs.org">Read the Docs</a>. 
+
+</footer>
+
+        </div>
+      </div>
+
+    </section>
+
+  </div>
+  
+
+
+  <script type="text/javascript">
+      jQuery(function () {
+          SphinxRtdTheme.Navigation.enable(true);
+      });
+  </script>
+
+  
+  
+    
+   
+
+</body>
+</html>
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+pre .ge { font-style: italic } /* Generic.Emph */
+pre .gr { color: #FF0000 } /* Generic.Error */
+pre .gh { color: #000080; font-weight: bold } /* Generic.Heading */
+pre .gi { color: #00A000 } /* Generic.Inserted */
+pre .go { color: #888888 } /* Generic.Output */
+pre .gp { color: #000080; font-weight: bold } /* Generic.Prompt */
+pre .gs { font-weight: bold } /* Generic.Strong */
+pre .gu { color: #800080; font-weight: bold } /* Generic.Subheading */
+pre .gt { color: #0044DD } /* Generic.Traceback */
+pre .kc { color: #008000; font-weight: bold } /* Keyword.Constant */
+pre .kd { color: #008000; font-weight: bold } /* Keyword.Declaration */
+pre .kn { color: #008000; font-weight: bold } /* Keyword.Namespace */
+pre .kp { color: #008000 } /* Keyword.Pseudo */
+pre .kr { color: #008000; font-weight: bold } /* Keyword.Reserved */
+pre .kt { color: #B00040 } /* Keyword.Type */
+pre .m { color: #666666 } /* Literal.Number */
+pre .s { color: #BA2121 } /* Literal.String */
+pre .na { color: #7D9029 } /* Name.Attribute */
+pre .nb { color: #008000 } /* Name.Builtin */
+pre .nc { color: #0000FF; font-weight: bold } /* Name.Class */
+pre .no { color: #880000 } /* Name.Constant */
+pre .nd { color: #AA22FF } /* Name.Decorator */
+pre .ni { color: #999999; font-weight: bold } /* Name.Entity */
+pre .ne { color: #D2413A; font-weight: bold } /* Name.Exception */
+pre .nf { color: #0000FF } /* Name.Function */
+pre .nl { color: #A0A000 } /* Name.Label */
+pre .nn { color: #0000FF; font-weight: bold } /* Name.Namespace */
+pre .nt { color: #008000; font-weight: bold } /* Name.Tag */
+pre .nv { color: #19177C } /* Name.Variable */
+pre .ow { color: #AA22FF; font-weight: bold } /* Operator.Word */
+pre .w { color: #bbbbbb } /* Text.Whitespace */
+pre .mf { color: #666666 } /* Literal.Number.Float */
+pre .mh { color: #666666 } /* Literal.Number.Hex */
+pre .mi { color: #666666 } /* Literal.Number.Integer */
+pre .mo { color: #666666 } /* Literal.Number.Oct */
+pre .sb { color: #BA2121 } /* Literal.String.Backtick */
+pre .sc { color: #BA2121 } /* Literal.String.Char */
+pre .sd { color: #BA2121; font-style: italic } /* Literal.String.Doc */
+pre .s2 { color: #BA2121 } /* Literal.String.Double */
+pre .se { color: #BB6622; font-weight: bold } /* Literal.String.Escape */
+pre .sh { color: #BA2121 } /* Literal.String.Heredoc */
+pre .si { color: #BB6688; font-weight: bold } /* Literal.String.Interpol */
+pre .sx { color: #008000 } /* Literal.String.Other */
+pre .sr { color: #BB6688 } /* Literal.String.Regex */
+pre .s1 { color: #BA2121 } /* Literal.String.Single */
+pre .ss { color: #19177C } /* Literal.String.Symbol */
+pre .bp { color: #008000 } /* Name.Builtin.Pseudo */
+pre .vc { color: #19177C } /* Name.Variable.Class */
+pre .vg { color: #19177C } /* Name.Variable.Global */
+pre .vi { color: #19177C } /* Name.Variable.Instance */
+pre .il { color: #666666 } /* Literal.Number.Integer.Long */