diff --git a/Documentation/html/.buildinfo b/Documentation/html/.buildinfo index 6e1646ec067f535b92ca315710b719875914631f..48a3106171fbcea641c6e34b77a4390621a2badc 100644 --- a/Documentation/html/.buildinfo +++ b/Documentation/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: 29d714f373febc7b59f641ff386667f5 +config: fddead496515ad2f1960ed379249d24a tags: 645f666f9bcd5a90fca523b33c5a78b7 diff --git a/Documentation/html/Developers/gen_docu.html b/Documentation/html/Developers/gen_docu.html index 2d111da9bc64ea27151afb25cd953681f1b0cebe..de9a15c5e7b9fdeb5f6e51b36199d1e517a818ce 100644 --- a/Documentation/html/Developers/gen_docu.html +++ b/Documentation/html/Developers/gen_docu.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Update Documentation — flex_extract 7.1 alpha documentation</title> + <title>Updating the documentation — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,15 +89,15 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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="#">Update 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="#online-documentation-with-sphinx">Online-documentation with Sphinx</a><ul> +<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> @@ -157,7 +157,7 @@ <li><a href="../dev_guide.html">Developer Guide</a> »</li> - <li>Update Documentation</li> + <li>Updating the documentation</li> <li class="wy-breadcrumbs-aside"> @@ -176,12 +176,12 @@ <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article"> <div itemprop="articleBody"> - <div class="section" id="update-documentation"> -<h1>Update Documentation<a class="headerlink" href="#update-documentation" title="Permalink to this headline">¶</a></h1> + <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, unit tests and update the documentation. For this, some additional software is necessary:</p> +<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 @@ -195,14 +195,14 @@ pip install pycallgraph </pre></div> </div> </div> -<div class="section" id="online-documentation-with-sphinx"> -<h2>Online-documentation with Sphinx<a class="headerlink" href="#online-documentation-with-sphinx" title="Permalink to this headline">¶</a></h2> -<p>Use the scriot <code class="docutils literal notranslate"><span class="pre">gen_docu.sh</span></code> to generate an update of the online documentation of the python component.</p> -<p>It uses <code class="docutils literal notranslate"><span class="pre">pyreverse</span></code> to generate a class and a package diagram with graphviz 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="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> +<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">'/usr/share/fonts/dejavu/DejaVuSerif.ttf'</span> </pre></div> @@ -210,7 +210,7 @@ pip install pycallgraph </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> +<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">'/usr/share/fonts/dejavu/DejaVuSerif.ttf'</span> </pre></div> @@ -241,7 +241,7 @@ pip install pycallgraph <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Api/api_fortran.html b/Documentation/html/Documentation/Api/api_fortran.html index baeb75acea9adbbb98829ea6d8084b6b4d3453fd..a4d2f92b578b8d4530809bfba7697a82267b6626 100644 --- a/Documentation/html/Documentation/Api/api_fortran.html +++ b/Documentation/html/Documentation/Api/api_fortran.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Auto-generated documentation for the Fortran programme — flex_extract 7.1 alpha documentation</title> + <title>Auto-generated documentation for the Fortran programme — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2"><a class="reference internal" href="../input.html">Control & input data</a></li> <li class="toctree-l2"><a class="reference internal" href="../output.html">Output data</a></li> @@ -158,7 +158,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../api.html">Auto-generated documentation</a> »</li> @@ -208,7 +208,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Api/api_python.html b/Documentation/html/Documentation/Api/api_python.html index c13b3d66be2984c9f05b0586b882bf2d2f87c0cb..b99d3b9a522db7e428f4332bd46ca1630e2679bc 100644 --- a/Documentation/html/Documentation/Api/api_python.html +++ b/Documentation/html/Documentation/Api/api_python.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Auto-generated documentation for the Python scripts — flex_extract 7.1 alpha documentation</title> + <title>Auto-generated documentation for the Python scripts — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2"><a class="reference internal" href="../input.html">Control & input data</a></li> <li class="toctree-l2"><a class="reference internal" href="../output.html">Output data</a></li> @@ -161,7 +161,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../api.html">Auto-generated documentation</a> »</li> @@ -3598,7 +3598,7 @@ E.g. [[array_t1], [array_t2], [array_t3], [array_t4]]</p> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/changes.html b/Documentation/html/Documentation/Input/changes.html index 8c180eeea23cc98d6c988e0b18b7e0f8bceffbef..264eda321f21d3cf12bcb3efac7b3f6f80af2d5b 100644 --- a/Documentation/html/Documentation/Input/changes.html +++ b/Documentation/html/Documentation/Input/changes.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>CONTROL file changes — flex_extract 7.1 alpha documentation</title> + <title>CONTROL file changes — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -167,7 +167,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -227,7 +227,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/compilejob.html b/Documentation/html/Documentation/Input/compilejob.html index 2f34ede875f1563b2cbbce72b88534c474e08e9d..7e3061faa773208755dc38791943ced55f5abd28 100644 --- a/Documentation/html/Documentation/Input/compilejob.html +++ b/Documentation/html/Documentation/Input/compilejob.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>The compilation job script compilejob.ksh — flex_extract 7.1 alpha documentation</title> + <title>The compilation job script compilejob.ksh — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -169,7 +169,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -315,7 +315,7 @@ ls -l calc_etadot >>flexcompile <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/control.html b/Documentation/html/Documentation/Input/control.html index 9433ec13f7fad081d40389279f2f86a94a51487a..4ae1207b75076c8c8532a9df03711ae3e124f689 100644 --- a/Documentation/html/Documentation/Input/control.html +++ b/Documentation/html/Documentation/Input/control.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>The CONTROL file — flex_extract 7.1 alpha documentation</title> + <title>The CONTROL file — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -170,7 +170,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -373,7 +373,7 @@ ADDPAR None <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/control_params.html b/Documentation/html/Documentation/Input/control_params.html index 93b27d55a5885ce3269fa00d56c31e806e4f032f..52af3e4f85da7fcde6ad93d0135b6ab98869b1c8 100644 --- a/Documentation/html/Documentation/Input/control_params.html +++ b/Documentation/html/Documentation/Input/control_params.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>The CONTROL parameters — flex_extract 7.1 alpha documentation</title> + <title>The CONTROL parameters — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -176,7 +176,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -833,7 +833,7 @@ Mostly: 27/28/173/186/187/188/235/139/39</p></td> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/ecmwf_env.html b/Documentation/html/Documentation/Input/ecmwf_env.html index 1dbd81a97b149282d358a6141a4f64d4b3560fa7..db8373ad33148261261dbaa38b2c4dde05708f11 100644 --- a/Documentation/html/Documentation/Input/ecmwf_env.html +++ b/Documentation/html/Documentation/Input/ecmwf_env.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>ECMWF user credential file ECMWF_ENV — flex_extract 7.1 alpha documentation</title> + <title>ECMWF user credential file ECMWF_ENV — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -168,7 +168,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -233,7 +233,7 @@ DESTINATION destination_name <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/examples.html b/Documentation/html/Documentation/Input/examples.html index 262c55049ed3fe15c1647f9f99cacd7032b6bc88..d9f5d60ab08865efe8492cb8d64391ba3002977c 100644 --- a/Documentation/html/Documentation/Input/examples.html +++ b/Documentation/html/Documentation/Input/examples.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>CONTROL file examples — flex_extract 7.1 alpha documentation</title> + <title>CONTROL file examples — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -167,7 +167,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -251,7 +251,7 @@ CONTROL_OD.OPER.FC.twicedaily.3hourly <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/fortran_makefile.html b/Documentation/html/Documentation/Input/fortran_makefile.html index a7061a64079f36fc5f5a7d6ec9b1a61a55237dbb..3d331fb0669afd72efcbd429af47a545b5aac8c9 100644 --- a/Documentation/html/Documentation/Input/fortran_makefile.html +++ b/Documentation/html/Documentation/Input/fortran_makefile.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>The Fortran makefile for calc_etadot — flex_extract 7.1 alpha documentation</title> + <title>The Fortran makefile for calc_etadot — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -167,7 +167,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -203,8 +203,8 @@ A list of these <code class="docutils literal notranslate"><span class="pre">mak </div> <blockquote> <div><div class="line-block"> -<div class="line"><strong>makefile_ecgate</strong>: For use on ECMWF’s server <strong>ecgate</strong>.</div> -<div class="line"><strong>makefile_cray</strong>: For use on ECMWF’s server <strong>cca/ccb</strong>.</div> +<div class="line"><strong>makefile_ecgate</strong>: For use on the ECMWF server <strong>ecgate</strong>.</div> +<div class="line"><strong>makefile_cray</strong>: For use on the ECMWF servers <strong>cca/ccb</strong>.</div> </div> </div></blockquote> <div class="line-block"> @@ -215,12 +215,43 @@ A list of these <code class="docutils literal notranslate"><span class="pre">mak <div><div class="line-block"> <div class="line"><strong>makefile_fast</strong>: For use with the gfortran compiler and optimisation mode.</div> <div class="line"><strong>makefile_debug</strong>: For use with the gfortran compiler and debugging mode. Primarily for developers.</div> +<div class="line"><strong>makefile_local_gfortran</strong>: Linked to makefile_fast. Default value.</div> </div> </div></blockquote> +<p>They can be found at <code class="docutils literal notranslate"><span class="pre">flex_extract_vX.X/Source/Fortran/</span></code>, where <code class="docutils literal notranslate"><span class="pre">vX.X</span></code> should be substituted by the current flex_extract version number.</p> +<div class="admonition caution"> +<p class="admonition-title">Caution</p> +<p>It is necessary to adapt <strong>ECCODES_INCLUDE_DIR</strong> and <strong>ECCODES_LIB</strong> in these +<code class="docutils literal notranslate"><span class="pre">makefiles</span></code> if other than standard paths are used.</p> +</div> +<p>Thus, go to the <code class="docutils literal notranslate"><span class="pre">Fortran</span></code> source directory and open the <code class="docutils literal notranslate"><span class="pre">makefile</span></code> of your +choice, and check / modify with an editor of your choice:</p> +<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="nb">cd</span> flex_extract_vX.X/Source/Fortran +nedit makefile_fast +</pre></div> +</div> +<p>Set the paths to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library on your local machine, if necessary.</p> +<div class="admonition caution"> +<p class="admonition-title">Caution</p> +<p>This can vary from system to system. +It is suggested to use a command like</p> +<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># for the ECCODES_INCLUDE_DIR path do:</span> +$ dpkg -L libeccodes-dev <span class="p">|</span> grep eccodes.mod +<span class="c1"># for the ECCODES_LIB path do:</span> +$ dpkg -L libeccodes-dev <span class="p">|</span> grep libeccodes.so +</pre></div> +</div> +<p>to find out the path to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library.</p> +</div> +<p>Assign these paths to the parameters <strong>ECCODES_INCLUDE_DIR</strong> +and <strong>ECCODES_LIB</strong> in the makefile, and save it.</p> +<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># these are the paths on Debian Buster:</span> +<span class="nv">ECCODES_INCLUDE_DIR</span><span class="o">=</span>/usr/lib/x86_64-linux-gnu/fortran/gfortran-mod-15/ +<span class="nv">ECCODES_LIB</span><span class="o">=</span> -L/usr/lib -leccodes_f90 -leccodes -lm +</pre></div> +</div> <p>If you want to use another compiler than gfortran locally, you can still take <code class="docutils literal notranslate"><span class="pre">makefile_fast</span></code>, and adapt everything that is compiler-specific in this file.</p> -<p>For instructions on how to adapt the <code class="docutils literal notranslate"><span class="pre">makefile</span></code> (local application mode only), -please see <a class="reference internal" href="../../Installation/local.html#ref-install-local"><span class="std std-ref">Local installation</span></a>.</p> <div class="toctree-wrapper compound"> </div> </div> @@ -245,7 +276,7 @@ please see <a class="reference internal" href="../../Installation/local.html#ref <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/jobscript.html b/Documentation/html/Documentation/Input/jobscript.html index b213e304f91a9b7d100acd28ac4f8e2a933d980a..058dd5e7a47fa43b7342d2c049decdd0c530fe94 100644 --- a/Documentation/html/Documentation/Input/jobscript.html +++ b/Documentation/html/Documentation/Input/jobscript.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>The job script job.ksh — flex_extract 7.1 alpha documentation</title> + <title>The job script job.ksh — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -169,7 +169,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -320,7 +320,6 @@ cat ><span class="si">${</span><span class="nv">CONTROL</span><span class="si <span class="s">lower 10.</span> <span class="s">mailfail ${USER}</span> <span class="s">mailops ${USER}</span> -<span class="s">makefile Makefile.gfortran</span> <span class="s">marsclass EP</span> <span class="s">maxstep 0</span> <span class="s">number 000</span> @@ -394,7 +393,7 @@ submit.py --controlfile<span class="o">=</span><span class="si">${</span><span c <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/run.html b/Documentation/html/Documentation/Input/run.html index 787e6b69045670e6f9760f237a6cceecbb372ea6..6aa4c5719f9faddb052be0dc2267347db9586526 100644 --- a/Documentation/html/Documentation/Input/run.html +++ b/Documentation/html/Documentation/Input/run.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>The executable script - run.sh — flex_extract 7.1 alpha documentation</title> + <title>The executable script - run.sh — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -170,7 +170,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -572,7 +572,7 @@ usage: submit.py <span class="o">[</span>-h<span class="o">]</span> <span class= <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/setup.html b/Documentation/html/Documentation/Input/setup.html index b84014e9a29ec5a327c699c1090e1e73bfa2d5ae..425b45cce682fb9df8a4e6b3d6791b17c29651b3 100644 --- a/Documentation/html/Documentation/Input/setup.html +++ b/Documentation/html/Documentation/Input/setup.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>The installation script - setup.sh — flex_extract 7.1 alpha documentation</title> + <title>The installation script - setup.sh — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3 current"><a class="current reference internal" href="#">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a><ul> @@ -170,7 +170,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -404,8 +404,9 @@ optional arguments: --target INSTALL_TARGET Valid targets: <span class="nb">local</span> <span class="p">|</span> ecgate <span class="p">|</span> cca , the latter two are at ECMWF <span class="o">(</span>default: None<span class="o">)</span> - --makefile MAKEFILE Name of Makefile to use <span class="k">for</span> compiling the Fortran - program <span class="o">(</span>default: None<span class="o">)</span> + --makefile MAKEFILE Name of makefile to compile the Fortran + code. <span class="o">(</span>default depends on <span class="sb">`</span>target<span class="sb">`</span>: <span class="nb">local</span> - makefile_local_gfortran, + ecgate - makefile_ecgate, cca - makefile_cray<span class="o">)</span> --ecuid ECUID The user id at ECMWF. <span class="o">(</span>default: None<span class="o">)</span> --ecgid ECGID The group id at ECMWF. <span class="o">(</span>default: None<span class="o">)</span> --gateway GATEWAY The IP name <span class="o">(</span>or IP address<span class="o">)</span> of the <span class="nb">local</span> gateway server. <span class="o">(</span>default: None<span class="o">)</span> @@ -449,7 +450,7 @@ optional arguments: <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Input/templates.html b/Documentation/html/Documentation/Input/templates.html index 0dfedfbad0b9ff7ff5da4fd6226c9845a49ae659..72a9af33b4c41baea3ce2efc50dac6ad41ea8c7a 100644 --- a/Documentation/html/Documentation/Input/templates.html +++ b/Documentation/html/Documentation/Input/templates.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Templates — flex_extract 7.1 alpha documentation</title> + <title>Templates — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../input.html">Control & input data</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -172,7 +172,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../input.html">Control & input data</a> »</li> @@ -532,7 +532,7 @@ submit.py --controlfile<span class="o">=</span><span class="nv">$$$$</span><span <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Overview/app_modes.html b/Documentation/html/Documentation/Overview/app_modes.html index 1e436e6c5a91f654d04e1c978eeb77f0d47bf7e2..e29f2fadb1369148bd7375e66c3161912c27994d 100644 --- a/Documentation/html/Documentation/Overview/app_modes.html +++ b/Documentation/html/Documentation/Overview/app_modes.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Application modes — flex_extract 7.1 alpha documentation</title> + <title>Application modes — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2 current"><a class="reference internal" href="../overview.html">Overview</a><ul class="current"> <li class="toctree-l3 current"><a class="current reference internal" href="#">Application modes</a><ul class="simple"> </ul> @@ -158,7 +158,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../overview.html">Overview</a> »</li> @@ -245,7 +245,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/Overview/prog_flow.html b/Documentation/html/Documentation/Overview/prog_flow.html index 279c36d5b140613f9d34fe314a05839d7e255187..42570c48e7d38172bcb0b55a1aa9bb8ceb29f34f 100644 --- a/Documentation/html/Documentation/Overview/prog_flow.html +++ b/Documentation/html/Documentation/Overview/prog_flow.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Program flow — flex_extract 7.1 alpha documentation</title> + <title>Program flow — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2 current"><a class="reference internal" href="../overview.html">Overview</a><ul class="current"> <li class="toctree-l3"><a class="reference internal" href="app_modes.html">Application modes</a></li> <li class="toctree-l3 current"><a class="current reference internal" href="#">Program flow</a><ul> @@ -161,7 +161,7 @@ <li><a href="../../index.html">Docs</a> »</li> - <li><a href="../../documentation.html">Documentation</a> »</li> + <li><a href="../../documentation.html">Code-Level Documentation</a> »</li> <li><a href="../overview.html">Overview</a> »</li> @@ -282,7 +282,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/api.html b/Documentation/html/Documentation/api.html index c87c3b7a97a525c1b8d19629837c7926939e5198..fbe7fb5aa23fa7999ae48ceb1c4ce472d401e38c 100644 --- a/Documentation/html/Documentation/api.html +++ b/Documentation/html/Documentation/api.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Auto-generated documentation — flex_extract 7.1 alpha documentation</title> + <title>Auto-generated documentation — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="overview.html">Overview</a></li> <li class="toctree-l2"><a class="reference internal" href="input.html">Control & input data</a></li> <li class="toctree-l2"><a class="reference internal" href="output.html">Output data</a></li> @@ -156,7 +156,7 @@ <li><a href="../index.html">Docs</a> »</li> - <li><a href="../documentation.html">Documentation</a> »</li> + <li><a href="../documentation.html">Code-Level Documentation</a> »</li> <li>Auto-generated documentation</li> @@ -205,7 +205,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/disagg.html b/Documentation/html/Documentation/disagg.html index 7f0cb74bdce4e60d10863d9b0de94837320c4b29..3ad73396e27d34faf7a9eac3ae41731c7d00bea0 100644 --- a/Documentation/html/Documentation/disagg.html +++ b/Documentation/html/Documentation/disagg.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Disaggregation of flux data — flex_extract 7.1 alpha documentation</title> + <title>Disaggregation of flux data — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="overview.html">Overview</a></li> <li class="toctree-l2"><a class="reference internal" href="input.html">Control & input data</a></li> <li class="toctree-l2"><a class="reference internal" href="output.html">Output data</a></li> @@ -159,7 +159,7 @@ <li><a href="../index.html">Docs</a> »</li> - <li><a href="../documentation.html">Documentation</a> »</li> + <li><a href="../documentation.html">Code-Level Documentation</a> »</li> <li>Disaggregation of flux data</li> @@ -206,32 +206,32 @@ pre-processing has to be applied.</p> <tbody> <tr class="row-even"><td><p>LSP</p></td> <td><p>large-scale precipitation</p></td> -<td><p><span class="math notranslate nohighlight">\(m\)</span></p></td> +<td><p>m</p></td> <td><p>modified linear interpolation</p></td> </tr> <tr class="row-odd"><td><p>CP</p></td> <td><p>convective precipitation</p></td> -<td><p><span class="math notranslate nohighlight">\(m\)</span></p></td> +<td><p>m</p></td> <td><p>modified linear interpolation</p></td> </tr> <tr class="row-even"><td><p>SSHF</p></td> <td><p>surface sensible heat flux</p></td> -<td><p><span class="math notranslate nohighlight">\(J m^{-2}\)</span></p></td> +<td><p>J m:math:<cite>^{-2}</cite></p></td> <td><p>bicubic interpolation</p></td> </tr> <tr class="row-odd"><td><p>EWSS</p></td> <td><p>eastward turbulent surface stress</p></td> -<td><p><span class="math notranslate nohighlight">\(N m^{-2} s\)</span></p></td> +<td><p>N m:math:<cite>^{-2}</cite> s</p></td> <td><p>bicubic interpolation</p></td> </tr> <tr class="row-even"><td><p>NSSS</p></td> <td><p>northward turbulent surface stress</p></td> -<td><p><span class="math notranslate nohighlight">\(N m^{-2} s\)</span></p></td> +<td><p>N m:math:<cite>^{-2}</cite> s</p></td> <td><p>bicubic interpolation</p></td> </tr> <tr class="row-odd"><td><p>SSR</p></td> <td><p>surface net solar radiation</p></td> -<td><p><span class="math notranslate nohighlight">\(J m^{-2}\)</span></p></td> +<td><p>J m:math:<cite>^{-2}</cite></p></td> <td><p>bicubic interpolation</p></td> </tr> </tbody> @@ -261,15 +261,15 @@ However, the supporting points in space are not shifted between precipitation an <span id="ref-fig-olddisagg"></span><img alt="../_images/old_disagg.png" src="../_images/old_disagg.png" /> <p class="caption"><span class="caption-text">Fig. 1: Example of disaggregation scheme as implemented in older versions for an isolated precipitation event lasting one time interval (thick blue line). The amount of original precipitation after de-accumulation is given by the blue-shaded area. The green circles represent the discrete grid points after disaggregation and linearly interpolate in between them as indicated by the green line and the green-shaded area. Note that supporting points for the interpolation are shifted by half a time interval compared to the times when other meteorological fields are available (Hittmeir et al. 2018).</span><a class="headerlink" href="#id2" title="Permalink to this image">¶</a></p> </div> -<p>Disaggregation is done for four adjacent timespans (<span class="math notranslate nohighlight">\(a_0, a_1, a_2, a_3\)</span>) which generates a new, disaggregated value which is output at the central point of the four adjacent timespans.</p> +<p>Disaggregation is done for four adjacent time intervals (<span class="math notranslate nohighlight">\(a_0, a_1, a_2, a_3\)</span>) which generates a new, disaggregated value which is output at the central point of the four adjacent time intervals.</p> <div class="math notranslate nohighlight"> -\[\begin{split} p_{ac} &= 0.5 * a_1\\ +\[\begin{split} p_{ac} &= 0.5 a_1\\ m &= a_0 + a_2 > 0.\\ -p_{ac}(m) &= a_1(m) * a_2(m) / (a_0(m) + a_2(m))\\ +p_{ac}(m) &= a_1(m) a_2(m) / (a_0(m) + a_2(m))\\ p_{bd} &= 0.5 * a_2\\ m &= a_1 + a_3 > 0.\\ -p_{bd}(m) &= a_1(m) * a_2(m) / (a_1(m) + a_3(m))\\\end{split}\]</div> -<p>This new point <span class="math notranslate nohighlight">\(p\)</span> is used for linear interpolation of the complete timeseries afterwards. If one of the four original timespans has a value below 0, it is set to 0 prior to the calculation.</p> +p_{bd}(m) &= a_1(m) a_2(m) / (a_1(m) + a_3(m))\\\end{split}\]</div> +<p>This new point <span class="math notranslate nohighlight">\(p\)</span> is used for linear interpolation of the complete timeseries afterwards. If one of the four original time intervals has a value below 0, it is set to 0 prior to the calculation.</p> <div class="math notranslate nohighlight"> \[p = p_{ac} + p_{bd}\]</div> </div> @@ -312,7 +312,7 @@ The height is thereby determined by the condition of conservation of the integra <h2>Disaggregation for the other flux fields<a class="headerlink" href="#disaggregation-for-the-other-flux-fields" title="Permalink to this headline">¶</a></h2> <p>The accumulated values for the other variables are first divided by the number of hours and then interpolated to the exact times using a bicubic interpolation which conserves the integrals of the fluxes within each timespan. -Disaggregation is done for four adjacent timespans (<span class="math notranslate nohighlight">\(p_a, p_b, p_c, p_d\)</span>) which produces a new, disaggregated value that is the output at the central point of the four adjacent timespans.</p> +Disaggregation is done for four adjacent time intervals (<span class="math notranslate nohighlight">\(p_a, p_b, p_c, p_d\)</span>) which produces a new, disaggregated value that is the output at the central point of the four adjacent time intervals.</p> <div class="math notranslate nohighlight"> \[\begin{split}p_a &= (a_3 - a_0 + 3. * (a_1 - a_2)) / 6. \\ p_b &= (a_2 + a_0) / 2. - a_1 - 9. * p_a / 2. \\ @@ -346,7 +346,7 @@ p_d &= a_0 - p_a / 4. - p_b / 3. - p_c / 2.\end{split}\]</div> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/input.html b/Documentation/html/Documentation/input.html index 4a3873de0654b3b5e900ea2bd06b204d6e06f6fc..b799afb6ae2a2183e729d8f5334c206955177e4c 100644 --- a/Documentation/html/Documentation/input.html +++ b/Documentation/html/Documentation/input.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Control & input data — flex_extract 7.1 alpha documentation</title> + <title>Control & input data — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="overview.html">Overview</a></li> <li class="toctree-l2 current"><a class="current reference internal" href="#">Control & input data</a><ul> <li class="toctree-l3"><a class="reference internal" href="Input/setup.html">The installation script - <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code></a></li> @@ -165,7 +165,7 @@ <li><a href="../index.html">Docs</a> »</li> - <li><a href="../documentation.html">Documentation</a> »</li> + <li><a href="../documentation.html">Code-Level Documentation</a> »</li> <li>Control & input data</li> @@ -219,7 +219,7 @@ python3 Source/Python/submit.py --help </pre></div> </div> <dl class="simple"> -<dt>With version 7.1, we provide also wrapper shell scripts <a class="reference external" href="Input/setup.html">setup</a> and <a class="reference external" href="Input/run.html">run</a> which set the command-line parameters, do some checks, and execute the corresponing Python scripts <code class="docutils literal notranslate"><span class="pre">install.py</span></code> and <code class="docutils literal notranslate"><span class="pre">submit.py</span></code>, respectively.</dt><dd><p>It might be faster and easier for beginners if they are used. See <a class="reference internal" href="../quick_start.html"><span class="doc">Quick Start</span></a> for information on how to use them.</p> +<dt>With version 7.1, we provide also wrapper shell scripts <a class="reference external" href="Input/setup.html">setup</a> and <a class="reference external" href="Input/run.html">run</a> which set the command-line parameters, do some checks, and execute the corresponing Python scripts <code class="docutils literal notranslate"><span class="pre">install.py</span></code> and <code class="docutils literal notranslate"><span class="pre">submit.py</span></code>, respectively.</dt><dd><p>It might be faster and easier for beginners if they are used. See <a class="reference internal" href="../quick_start.html"><span class="doc">Usage</span></a> for information on how to use them.</p> </dd> </dl> <p><code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> also creates the Korn shell scripts <a class="reference internal" href="Input/compilejob.html"><span class="doc">The compilation job script compilejob.ksh</span></a> and <a class="reference internal" href="Input/jobscript.html"><span class="doc">The job script job.ksh</span></a> which will be sent to the ECMWF servers in the <strong>remote mode</strong> and the <strong>gateway mode</strong> for starting batch jobs.</p> @@ -264,7 +264,7 @@ python3 Source/Python/submit.py --help <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/output.html b/Documentation/html/Documentation/output.html index e11aa69110d0d4b666fc825817d2028f23186d4c..463712a3c8ed189bab0fac677ea06d7ef0317557 100644 --- a/Documentation/html/Documentation/output.html +++ b/Documentation/html/Documentation/output.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Output data — flex_extract 7.1 alpha documentation</title> + <title>Output data — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="overview.html">Overview</a></li> <li class="toctree-l2"><a class="reference internal" href="input.html">Control & input data</a></li> <li class="toctree-l2 current"><a class="current reference internal" href="#">Output data</a><ul> @@ -170,7 +170,7 @@ <li><a href="../index.html">Docs</a> »</li> - <li><a href="../documentation.html">Documentation</a> »</li> + <li><a href="../documentation.html">Code-Level Documentation</a> »</li> <li>Output data</li> @@ -520,7 +520,7 @@ The following table defines the numbers and the corresponding content:</p> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/overview.html b/Documentation/html/Documentation/overview.html index 62075620ccd53e6f9ab6f30c42fe0e573d56dbaf..7ed14471d7c2ca4cbb87e2078793ed91d4aa27a4 100644 --- a/Documentation/html/Documentation/overview.html +++ b/Documentation/html/Documentation/overview.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Overview — flex_extract 7.1 alpha documentation</title> + <title>Overview — flex_extract 7.1.1 documentation</title> @@ -39,7 +39,7 @@ <link rel="index" title="Index" href="../genindex.html" /> <link rel="search" title="Search" href="../search.html" /> <link rel="next" title="Application modes" href="Overview/app_modes.html" /> - <link rel="prev" title="Documentation" href="../documentation.html" /> + <link rel="prev" title="Code-Level Documentation" href="../documentation.html" /> </head> <body class="wy-body-for-nav"> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2 current"><a class="current reference internal" href="#">Overview</a><ul> <li class="toctree-l3"><a class="reference internal" href="Overview/app_modes.html">Application modes</a></li> <li class="toctree-l3"><a class="reference internal" href="Overview/prog_flow.html">Program flow</a></li> @@ -156,7 +156,7 @@ <li><a href="../index.html">Docs</a> »</li> - <li><a href="../documentation.html">Documentation</a> »</li> + <li><a href="../documentation.html">Code-Level Documentation</a> »</li> <li>Overview</li> @@ -208,7 +208,7 @@ The software retrieves the minimum set of parameters needed by <code class="docu <a href="Overview/app_modes.html" class="btn btn-neutral float-right" title="Application modes" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> - <a href="../documentation.html" class="btn btn-neutral float-left" title="Documentation" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> + <a href="../documentation.html" class="btn btn-neutral float-left" title="Code-Level Documentation" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> </div> @@ -217,7 +217,7 @@ The software retrieves the minimum set of parameters needed by <code class="docu <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Documentation/vertco.html b/Documentation/html/Documentation/vertco.html index 7635340bcb92e7840d388b2ced60923a08cb8c46..369a39311d71b41b1b79e14a9d8b5da15b170e71 100644 --- a/Documentation/html/Documentation/vertco.html +++ b/Documentation/html/Documentation/vertco.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Vertical wind — flex_extract 7.1 alpha documentation</title> + <title>Vertical wind — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="reference internal" href="../documentation.html">Documentation</a><ul class="current"> +<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 current"><a class="reference internal" href="../documentation.html">Code-Level Documentation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="overview.html">Overview</a></li> <li class="toctree-l2"><a class="reference internal" href="input.html">Control & input data</a></li> <li class="toctree-l2"><a class="reference internal" href="output.html">Output data</a></li> @@ -159,7 +159,7 @@ <li><a href="../index.html">Docs</a> »</li> - <li><a href="../documentation.html">Documentation</a> »</li> + <li><a href="../documentation.html">Code-Level Documentation</a> »</li> <li>Vertical wind</li> @@ -261,7 +261,7 @@ following guidance can be given for choosing the right parameters:</p> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Ecmwf/access.html b/Documentation/html/Ecmwf/access.html index 0d880c714fe3fdf7fa864a7b6d92285e98873c32..055965d74b530b46ddf562e77f00f0073e57f8f6 100644 --- a/Documentation/html/Ecmwf/access.html +++ b/Documentation/html/Ecmwf/access.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Access modes — flex_extract 7.1 alpha documentation</title> + <title>Access modes — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,8 +89,6 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1 current"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a><ul class="current"> <li class="toctree-l2 current"><a class="current reference internal" href="#">Access modes</a><ul class="simple"> </ul> @@ -101,7 +99,9 @@ <li class="toctree-l2"><a class="reference internal" href="ec-links.html">Link collection</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -212,7 +212,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Ecmwf/ec-links.html b/Documentation/html/Ecmwf/ec-links.html index ef9cad81013cce4873182563f1431e2faea5af15..322312f9a163ee383e4bc3811a24500462bef4c7 100644 --- a/Documentation/html/Ecmwf/ec-links.html +++ b/Documentation/html/Ecmwf/ec-links.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Link collection — flex_extract 7.1 alpha documentation</title> + <title>Link collection — flex_extract 7.1.1 documentation</title> @@ -38,7 +38,7 @@ <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="Documentation" href="../documentation.html" /> + <link rel="next" title="Installation" href="../installation.html" /> <link rel="prev" title="Hints for data set selection" href="hintsecmwf.html" /> </head> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,8 +89,6 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1 current"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="access.html">Access modes</a></li> <li class="toctree-l2"><a class="reference internal" href="msdata.html">Available data sets for member-state users</a></li> @@ -101,7 +99,9 @@ </li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -258,7 +258,7 @@ <div class="rst-footer-buttons" role="navigation" aria-label="footer navigation"> - <a href="../documentation.html" class="btn btn-neutral float-right" title="Documentation" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> + <a href="../installation.html" class="btn btn-neutral float-right" title="Installation" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> <a href="hintsecmwf.html" class="btn btn-neutral float-left" title="Hints for data set selection" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> @@ -270,7 +270,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Ecmwf/hintsecmwf.html b/Documentation/html/Ecmwf/hintsecmwf.html index 697c36c17c49bb41279207761bb3369f6eb05cd3..d749c68b0f8da030d67fe3bef5fb7c96c00ad8f5 100644 --- a/Documentation/html/Ecmwf/hintsecmwf.html +++ b/Documentation/html/Ecmwf/hintsecmwf.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Hints for data set selection — flex_extract 7.1 alpha documentation</title> + <title>Hints for data set selection — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,8 +89,6 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1 current"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="access.html">Access modes</a></li> <li class="toctree-l2"><a class="reference internal" href="msdata.html">Available data sets for member-state users</a></li> @@ -104,7 +102,9 @@ <li class="toctree-l2"><a class="reference internal" href="ec-links.html">Link collection</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -214,7 +214,7 @@ and click yourself through the steps to define your set of data and see what is <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Ecmwf/msdata.html b/Documentation/html/Ecmwf/msdata.html index 9e5eefb49aa90d036e010e0397bb0c1d142a7732..52096894ebb8243a7f851848ad1a63522ab5a86a 100644 --- a/Documentation/html/Ecmwf/msdata.html +++ b/Documentation/html/Ecmwf/msdata.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Available data sets for member-state users — flex_extract 7.1 alpha documentation</title> + <title>Available data sets for member-state users — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,8 +89,6 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1 current"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="access.html">Access modes</a></li> <li class="toctree-l2 current"><a class="current reference internal" href="#">Available data sets for member-state users</a><ul> @@ -105,7 +103,9 @@ <li class="toctree-l2"><a class="reference internal" href="ec-links.html">Link collection</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -219,7 +219,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Ecmwf/pubdata.html b/Documentation/html/Ecmwf/pubdata.html index 32205a99dcf89cbe97f4baca0b75930f587ce857..46b69a4cf29da88bf6b76f82a48788fa22d98061 100644 --- a/Documentation/html/Ecmwf/pubdata.html +++ b/Documentation/html/Ecmwf/pubdata.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Available data sets for public users — flex_extract 7.1 alpha documentation</title> + <title>Available data sets for public users — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,8 +89,6 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1 current"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="access.html">Access modes</a></li> <li class="toctree-l2"><a class="reference internal" href="msdata.html">Available data sets for member-state users</a></li> @@ -101,7 +99,9 @@ <li class="toctree-l2"><a class="reference internal" href="ec-links.html">Link collection</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -203,7 +203,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Evaluation/metrics.html b/Documentation/html/Evaluation/metrics.html index bb80168958e83ae8b7043937101946c6acd7f548..2986296500dbb09bb421c95ace71c42257a768f3 100644 --- a/Documentation/html/Evaluation/metrics.html +++ b/Documentation/html/Evaluation/metrics.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Metrics — flex_extract 7.1 alpha documentation</title> + <title>Metrics — flex_extract 7.1.1 documentation</title> @@ -39,7 +39,7 @@ <link rel="index" title="Index" href="../genindex.html" /> <link rel="search" title="Search" href="../search.html" /> <link rel="next" title="Developer Guide" href="../dev_guide.html" /> - <link rel="prev" title="Testcases" href="testcases.html" /> + <link rel="prev" title="Test cases" href="testcases.html" /> </head> <body class="wy-body-for-nav"> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,13 +89,13 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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 current"><a class="reference internal" href="../evaluation.html">Evaluation</a><ul class="current"> -<li class="toctree-l2"><a class="reference internal" href="staticcode.html">Static Code Analysis</a></li> -<li class="toctree-l2"><a class="reference internal" href="testcases.html">Testcases</a></li> +<li class="toctree-l2"><a class="reference internal" href="staticcode.html">Static code analysis</a></li> +<li class="toctree-l2"><a class="reference internal" href="testcases.html">Test cases</a></li> <li class="toctree-l2 current"><a class="current reference internal" href="#">Metrics</a><ul class="simple"> </ul> </li> @@ -192,7 +192,7 @@ <a href="../dev_guide.html" class="btn btn-neutral float-right" title="Developer Guide" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> - <a href="testcases.html" class="btn btn-neutral float-left" title="Testcases" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> + <a href="testcases.html" class="btn btn-neutral float-left" title="Test cases" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> </div> @@ -201,7 +201,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Evaluation/staticcode.html b/Documentation/html/Evaluation/staticcode.html index 4dd23bc397b9b59621d607ca9f1838568ce0c891..9d2673e736dc86d204b7b19236944ff1e365b3b2 100644 --- a/Documentation/html/Evaluation/staticcode.html +++ b/Documentation/html/Evaluation/staticcode.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Static code analysis — flex_extract 7.1 alpha documentation</title> + <title>Static code analysis — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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 current"><a class="reference internal" href="../evaluation.html">Evaluation</a><ul class="current"> <li class="toctree-l2 current"><a class="current reference internal" href="#">Static code analysis</a><ul class="simple"> </ul> @@ -201,7 +201,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Evaluation/testcases.html b/Documentation/html/Evaluation/testcases.html index 944014427f685da329c5f0c6d130e7fbc3d02680..14246cb2e5ae3d78562046ebd48236ab5e83d036 100644 --- a/Documentation/html/Evaluation/testcases.html +++ b/Documentation/html/Evaluation/testcases.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Test cases — flex_extract 7.1 alpha documentation</title> + <title>Test cases — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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 current"><a class="reference internal" href="../evaluation.html">Evaluation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="staticcode.html">Static code analysis</a></li> <li class="toctree-l2 current"><a class="current reference internal" href="#">Test cases</a><ul> @@ -214,7 +214,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Installation/gateway.html b/Documentation/html/Installation/gateway.html index 43725a53b81fc20c34b4315fd7a103b097218caa..ec5611476c245e2e28521e2b55efd0754e4deceb 100644 --- a/Documentation/html/Installation/gateway.html +++ b/Documentation/html/Installation/gateway.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Gateway mode installation — flex_extract 7.1 alpha documentation</title> + <title>Gateway mode installation — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,9 +89,10 @@ <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 current"><a class="reference internal" href="../installation.html">Installation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../installation.html#registration-at-ecmwf">Registration at ECMWF</a></li> -<li class="toctree-l2"><a class="reference internal" href="../installation.html#licence-agreement-for-public-datasets">Licence agreement for public datasets</a></li> +<li class="toctree-l2"><a class="reference internal" href="../installation.html#accept-licences-for-public-datasets">Accept licences for public datasets</a></li> <li class="toctree-l2"><a class="reference internal" href="../installation.html#download-flex-extract">Download <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code></a></li> <li class="toctree-l2"><a class="reference internal" href="../installation.html#dependencies">Dependencies</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../installation.html#installation-of-flex-extract">Installation of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code></a><ul class="current"> @@ -110,9 +111,8 @@ <li class="toctree-l2"><a class="reference internal" href="../installation.html#test-installation">Test installation</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../quick_start.html">Quick Start</a></li> -<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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -230,7 +230,7 @@ If there are no error messages, you succeeded in setting up the environment.</p> </div> <div class="section" id="gateway-installation"> <span id="ref-install-gateway"></span><h2>Gateway installation<a class="headerlink" href="#gateway-installation" title="Permalink to this headline">¶</a></h2> -<p><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> will be run on an ECMWF server which makes the setup the same as for the <strong>remote mode</strong>. In the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script <a class="reference internal" href="../Documentation/Input/setup.html"><span class="doc">The Installation Script - setup.sh</span></a>, select the <code class="docutils literal notranslate"><span class="pre">makefile_ecgate</span></code> or <code class="docutils literal notranslate"><span class="pre">makefile_cray</span></code> for the <code class="docutils literal notranslate"><span class="pre">calc_etadot</span></code> Fortran program and the ECMWF server (<em>target</em>) you would like to use. +<p><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> will be run on an ECMWF server which makes the setup the same as for the <strong>remote mode</strong>. In the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script <a class="reference internal" href="../Documentation/Input/setup.html"><span class="doc">The installation script - setup.sh</span></a>, select the <code class="docutils literal notranslate"><span class="pre">makefile_ecgate</span></code> or <code class="docutils literal notranslate"><span class="pre">makefile_cray</span></code> for the <code class="docutils literal notranslate"><span class="pre">calc_etadot</span></code> Fortran program and the ECMWF server (<em>target</em>) you would like to use. The job script, send to the job queue via the ECaccess software, loads the required modules from the module system. For enabling the file transfer via the gateway, you have to set the <em>ECUID</em>, <em>ECGID</em>, <em>GATEWAY</em> and <em>DESTINATION</em> parameter values.</p> <p>Open <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> with your preferred editor (e.g., nano) and adapt the values:</p> <table class="docutils align-default"> @@ -330,7 +330,7 @@ SUCCESS! <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Installation/local.html b/Documentation/html/Installation/local.html index 7684e468c09f9c6513fdd15f30d7bbdf9b5a28d1..650175a28f5e86b12cf8c5597dd7e61438bdf87a 100644 --- a/Documentation/html/Installation/local.html +++ b/Documentation/html/Installation/local.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Local mode installation — flex_extract 7.1 alpha documentation</title> + <title>Local mode installation — flex_extract 7.1.1 documentation</title> @@ -38,7 +38,7 @@ <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="Quick Start" href="../quick_start.html" /> + <link rel="next" title="Usage" href="../quick_start.html" /> <link rel="prev" title="Gateway mode installation" href="gateway.html" /> </head> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,6 +89,7 @@ <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 current"><a class="reference internal" href="../installation.html">Installation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../installation.html#registration-at-ecmwf">Registration at ECMWF</a></li> <li class="toctree-l2"><a class="reference internal" href="../installation.html#accept-licences-for-public-datasets">Accept licences for public datasets</a></li> @@ -110,9 +111,8 @@ <li class="toctree-l2"><a class="reference internal" href="../installation.html#test-installation">Test installation</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../quick_start.html">Quick Start</a></li> -<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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -196,28 +196,28 @@ and libraries, since the preparation of the extraction and the post-processing is done on the local machine:</p> <table class="docutils align-default"> <colgroup> -<col style="width: 74%" /> -<col style="width: 26%" /> +<col style="width: 75%" /> +<col style="width: 25%" /> </colgroup> <tbody> -<tr class="row-odd"><td><p>Python part</p></td> -<td><p>Fortran part</p></td> +<tr class="row-odd"><td><p>Python code</p></td> +<td><p>Fortran code</p></td> </tr> -<tr class="row-even"><td><ol class="arabic simple"> -<li><p><a class="reference external" href="https://www.python.org/downloads/">Python3</a></p></li> +<tr class="row-even"><td><ul class="simple"> +<li><p><a class="reference external" href="https://www.python.org/">Python3</a></p></li> <li><p><a class="reference external" href="http://www.numpy.org/">numpy</a></p></li> <li><p><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></p></li> -<li><p><a class="reference external" href="https://packages.debian.org/sid/python3-eccodes">eccodes for python</a></p></li> +<li><p><a class="reference external" href="https://pypi.org/project/eccodes-python/">eccodes for python</a></p></li> <li><p><a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home">ecmwf-api-client</a> (everything except ERA5)</p></li> <li><p><a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">cdsapi</a> (just for ERA5 and member user)</p></li> -</ol> +</ul> </td> -<td><ol class="arabic simple"> +<td><ul class="simple"> <li><p><a class="reference external" href="https://gcc.gnu.org/wiki/GFortran">gfortran</a></p></li> <li><p><a class="reference external" href="http://www.fftw.org">fftw3</a></p></li> <li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">eccodes</a></p></li> <li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">emoslib</a></p></li> -</ol> +</ul> </td> </tr> </tbody> @@ -393,41 +393,11 @@ import ecmwfapi</p> </div> <div class="section" id="local-installation"> <span id="ref-install-local"></span><h2>Local installation<a class="headerlink" href="#local-installation" title="Permalink to this headline">¶</a></h2> -<p>First, adapt the Fortran <code class="docutils literal notranslate"><span class="pre">makefile</span></code> for your environment (if necessary) and insert it into <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script (see <a class="reference internal" href="../Documentation/Input/fortran_makefile.html#ref-convert"><span class="std std-ref">Fortran Makefile</span></a> for more information). -They can be found at <code class="docutils literal notranslate"><span class="pre">flex_extract_vX.X/Source/Fortran/</span></code>, where <code class="docutils literal notranslate"><span class="pre">vX.X</span></code> should be substituted by the current flex_extract version number.</p> -<div class="admonition caution"> -<p class="admonition-title">Caution</p> -<p>It is necessary to adapt <strong>ECCODES_INCLUDE_DIR</strong> and <strong>ECCODES_LIB</strong> in these -<code class="docutils literal notranslate"><span class="pre">makefiles</span></code> if other than standard paths are used.</p> -</div> -<p>Thus, go to the <code class="docutils literal notranslate"><span class="pre">Fortran</span></code> source directory and open the <code class="docutils literal notranslate"><span class="pre">makefile</span></code> of your -choice, and check / modify with an editor of your choice:</p> -<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="nb">cd</span> flex_extract_vX.X/Source/Fortran -nedit makefile_fast -</pre></div> -</div> -<p>Set the paths to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library on your local machine, if necessary.</p> -<div class="admonition caution"> -<p class="admonition-title">Caution</p> -<p>This can vary from system to system. -It is suggested to use a command like</p> -<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># for the ECCODES_INCLUDE_DIR path do:</span> -$ dpkg -L libeccodes-dev <span class="p">|</span> grep eccodes.mod -<span class="c1"># for the ECCODES_LIB path do:</span> -$ dpkg -L libeccodes-dev <span class="p">|</span> grep libeccodes.so -</pre></div> -</div> -<p>to find out the path to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library.</p> -</div> -<p>Assign these paths to the parameters <strong>ECCODES_INCLUDE_DIR</strong> -and <strong>ECCODES_LIB</strong> in the makefile, and save it.</p> -<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># these are the paths on Debian Buster:</span> -<span class="nv">ECCODES_INCLUDE_DIR</span><span class="o">=</span>/usr/lib/x86_64-linux-gnu/fortran/gfortran-mod-15/ -<span class="nv">ECCODES_LIB</span><span class="o">=</span> -L/usr/lib -leccodes_f90 -leccodes -lm -</pre></div> -</div> <p>The Fortran program called <code class="docutils literal notranslate"><span class="pre">calc_etadot</span></code> will be compiled during the -installation process. Therefore, the name of the <code class="docutils literal notranslate"><span class="pre">makefile</span></code> to be used needs to be given in <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code>.</p> +installation process. A suitable makefile (<code class="docutils literal notranslate"><span class="pre">makefile_local_gfortran</span></code>) for the compilation is set by default. +This may be overwritten by the <code class="docutils literal notranslate"><span class="pre">MAKEFILE</span></code> parameter in <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code>.</p> +<p>However, you may have to adapt the makefile for your environment (the current default makefile works on Debian stretch and similar GNU/Linux distributions). If you use a new name for it, you will have to insert it into <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> +For details on the makefile and how to adapt them, see <a class="reference internal" href="../Documentation/Input/fortran_makefile.html#ref-convert"><span class="std std-ref">Fortran Makefile</span></a>.</p> <p>In the root directory of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>, open the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script with an editor and adapt the installation parameters in the section labelled with “AVAILABLE COMMANDLINE ARGUMENTS TO SET” as shown below:</p> @@ -440,7 +410,6 @@ with an editor and adapt the installation parameters in the section labelled wit <span class="c1"># THE USER HAS TO SPECIFY THESE PARAMETER</span> <span class="c1">#</span> <span class="nv">TARGET</span><span class="o">=</span><span class="s1">'local'</span> -<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">'makefile_fast'</span> <span class="nv">ECUID</span><span class="o">=</span>None <span class="nv">ECGID</span><span class="o">=</span>None <span class="nv">GATEWAY</span><span class="o">=</span>None @@ -462,7 +431,7 @@ with an editor and adapt the installation parameters in the section labelled wit flex_extract will be installed in here by compiling the Fortran <span class="nb">source</span> in <path-to-flex_extract>/flex_extract_v7.1/Source/Fortran Install flex_extract_v7.1 software at <span class="nb">local</span> in directory <path-to-flex_extract>/flex_extract_v7.1 - Using makefile: makefile_fast + Using makefile: makefile_local_gfortran gfortran -O3 -march<span class="o">=</span>native -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -ljasper -lemosR64 -I. -I/usr/local/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./rwgrib2.f90 gfortran -O3 -march<span class="o">=</span>native -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -ljasper -lemosR64 -I. -I/usr/local/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./phgrreal.f90 gfortran -O3 -march<span class="o">=</span>native -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -ljasper -lemosR64 -I. -I/usr/local/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./grphreal.f90 @@ -486,7 +455,7 @@ with an editor and adapt the installation parameters in the section labelled wit <div class="rst-footer-buttons" role="navigation" aria-label="footer navigation"> - <a href="../quick_start.html" class="btn btn-neutral float-right" title="Quick Start" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> + <a href="../quick_start.html" class="btn btn-neutral float-right" title="Usage" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> <a href="gateway.html" class="btn btn-neutral float-left" title="Gateway mode installation" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> @@ -498,7 +467,7 @@ with an editor and adapt the installation parameters in the section labelled wit <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Installation/remote.html b/Documentation/html/Installation/remote.html index 10d265e38743a51953d3970a9debf7b36f83b0f8..33e73245a12c114b6505438394759ae3e207b1d9 100644 --- a/Documentation/html/Installation/remote.html +++ b/Documentation/html/Installation/remote.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Remote mode installation — flex_extract 7.1 alpha documentation</title> + <title>Remote mode installation — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,9 +89,10 @@ <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 current"><a class="reference internal" href="../installation.html">Installation</a><ul class="current"> <li class="toctree-l2"><a class="reference internal" href="../installation.html#registration-at-ecmwf">Registration at ECMWF</a></li> -<li class="toctree-l2"><a class="reference internal" href="../installation.html#licence-agreement-for-public-datasets">Licence agreement for public datasets</a></li> +<li class="toctree-l2"><a class="reference internal" href="../installation.html#accept-licences-for-public-datasets">Accept licences for public datasets</a></li> <li class="toctree-l2"><a class="reference internal" href="../installation.html#download-flex-extract">Download <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code></a></li> <li class="toctree-l2"><a class="reference internal" href="../installation.html#dependencies">Dependencies</a></li> <li class="toctree-l2 current"><a class="reference internal" href="../installation.html#installation-of-flex-extract">Installation of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code></a><ul class="current"> @@ -109,9 +110,8 @@ <li class="toctree-l2"><a class="reference internal" href="../installation.html#test-installation">Test installation</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="../quick_start.html">Quick Start</a></li> -<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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -197,8 +197,8 @@ <col style="width: 39%" /> </colgroup> <tbody> -<tr class="row-odd"><td><p>Python part</p></td> -<td><p>Fortran part</p></td> +<tr class="row-odd"><td><p>Python code</p></td> +<td><p>Fortran code</p></td> </tr> <tr class="row-even"><td><ul class="simple"> <li><p><a class="reference external" href="https://www.python.org/downloads/">Python3</a></p></li> @@ -262,7 +262,7 @@ tar xvf flex_extract_vX.X.tar.gz </div> <p>Execute the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script from the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>’s root directory. Before executing it, it is necessary to adapt some parameters from <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> -described in <a class="reference internal" href="../Documentation/Input/setup.html"><span class="doc">The Installation Script - setup.sh</span></a>.</p> +described in <a class="reference internal" href="../Documentation/Input/setup.html"><span class="doc">The installation script - setup.sh</span></a>.</p> <p>Open <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> with your preferred editor (e.g., nano) and adapt the values:</p> <table class="docutils align-default"> <colgroup> @@ -368,7 +368,7 @@ SUCCESS! <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Support/faq.html b/Documentation/html/Support/faq.html index 9d3b481463f39ba041b8b440f34a2ce3b7f1f1a0..6a0de9105c9099ca27fb2716565d7763b2ac6980 100644 --- a/Documentation/html/Support/faq.html +++ b/Documentation/html/Support/faq.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>FAQ - Frequently asked questions — flex_extract 7.1 alpha documentation</title> + <title>FAQ - Frequently asked questions — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,16 +89,16 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></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 current"><a class="current reference internal" href="#">FAQ - Frequently asked questions</a><ul> -<li class="toctree-l2"><a class="reference internal" href="#what-can-i-do-if-i-can-t-install-the-third-party-libraries-from-distribution-packages">What can I do if I can’t install the third party libraries from distribution packages?</a><ul class="simple"> +<li class="toctree-l2"><a class="reference internal" href="#what-can-i-do-if-i-can-t-install-the-third-party-libraries-from-distribution-packages">What can I do if I can’t install the third-party libraries from distribution packages?</a><ul class="simple"> </ul> </li> </ul> @@ -172,26 +172,25 @@ <h1>FAQ - Frequently asked questions<a class="headerlink" href="#faq-frequently-asked-questions" title="Permalink to this headline">¶</a></h1> <div class="contents local topic" id="contents"> <ul class="simple"> -<li><p><a class="reference internal" href="#what-can-i-do-if-i-can-t-install-the-third-party-libraries-from-distribution-packages" id="id1">What can I do if I can’t install the third party libraries from distribution packages?</a></p></li> +<li><p><a class="reference internal" href="#what-can-i-do-if-i-can-t-install-the-third-party-libraries-from-distribution-packages" id="id1">What can I do if I can’t install the third-party libraries from distribution packages?</a></p></li> </ul> </div> <div class="section" id="what-can-i-do-if-i-can-t-install-the-third-party-libraries-from-distribution-packages"> -<h2><a class="toc-backref" href="#id1">What can I do if I can’t install the third party libraries from distribution packages?</a><a class="headerlink" href="#what-can-i-do-if-i-can-t-install-the-third-party-libraries-from-distribution-packages" title="Permalink to this headline">¶</a></h2> -<p>This can be the case if the user does not have admin rights. -It is possible to install the necessary libraries locally from source. -For this case you should follow the following steps:</p> +<h2><a class="toc-backref" href="#id1">What can I do if I can’t install the third-party libraries from distribution packages?</a><a class="headerlink" href="#what-can-i-do-if-i-can-t-install-the-third-party-libraries-from-distribution-packages" title="Permalink to this headline">¶</a></h2> +<p>This can be the case if the user does not have admin rights and the sysadmins would not want to provide the libraries. +In this case, a workaround is to install the necessary libraries from source into a user directory, following these steps:</p> <dl class="simple"> -<dt>Installation hints:</dt><dd><ol class="arabic simple"> +<dt>Steps to install libraries from source:</dt><dd><ol class="arabic simple"> <li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">Read Emoslib installation instructions</a></p></li> <li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/SUP/2015/05/11/Building+ECMWF+software+with+gfortran">Read ECMWF blog about gfortran</a></p></li> <li><p><a class="reference external" href="http://www.fftw.org">Install FFTW</a></p></li> -<li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">Install EMOSLIB</a> (2 times make! one without any options and one with single precision option)</p></li> +<li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">Install EMOSLIB</a> (execute <code class="docutils literal notranslate"><span class="pre">make</span></code> two times! One time without any options, and another time with the single-precision option.)</p></li> <li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">Install ECCODES</a></p></li> -<li><p>Register at Mars (<a class="reference internal" href="../installation.html#ref-registration"><span class="std std-ref">Registration at ECMWF</span></a>)</p></li> +<li><p>Register for MARS access (<a class="reference internal" href="../installation.html#ref-registration"><span class="std std-ref">Registration at ECMWF</span></a>)</p></li> <li><p>Install Web API’s <a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">CDS API</a> and <a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home">ECMWF Web API</a></p></li> -<li><p>Check LD_LIBRARY_PATH environment variable if it contains all paths to the libs</p></li> -<li><p>Check available python packages (e.g. import eccodes / import grib_api / import ecmwfapi)</p></li> -<li><p>Start test retrieval (<a class="reference internal" href="../Installation/local.html#ref-test-local"><span class="std std-ref">Test local environment</span></a>)</p></li> +<li><p>Check whether LD_LIBRARY_PATH environment variable contains the paths to all the libs</p></li> +<li><p>Check available Python packages (e.g. <code class="docutils literal notranslate"><span class="pre">import</span> <span class="pre">eccodes</span></code> / <code class="docutils literal notranslate"><span class="pre">import</span> <span class="pre">grib_api</span></code> / <code class="docutils literal notranslate"><span class="pre">import</span> <span class="pre">ecmwfapi</span></code>)</p></li> +<li><p>Start test retrieval (<a class="reference internal" href="../Installation/local.html#ref-test-local"><span class="std std-ref">Testing the local environment</span></a>)</p></li> <li><p>Install <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> (<a class="reference internal" href="../installation.html"><span class="doc">Installation</span></a>)</p></li> </ol> </dd> @@ -229,7 +228,7 @@ For this case you should follow the following steps:</p> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/Support/known_bugs_issues.html b/Documentation/html/Support/known_bugs_issues.html index 68a750937a46f4ec522feb43529a639ee40593cc..8f166fda369b1fb2df578838afc89cde9aac0500 100644 --- a/Documentation/html/Support/known_bugs_issues.html +++ b/Documentation/html/Support/known_bugs_issues.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Known Bugs and Issues — flex_extract 7.1 alpha documentation</title> + <title>Known Bugs and Issues — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -174,18 +174,18 @@ <div class="section" id="installation-problems-with-gateway-and-destination-parameters"> <h3>Installation problems with <code class="docutils literal notranslate"><span class="pre">GATEWAY</span></code> and <code class="docutils literal notranslate"><span class="pre">DESTINATION</span></code> parameters<a class="headerlink" href="#installation-problems-with-gateway-and-destination-parameters" title="Permalink to this headline">¶</a></h3> <blockquote> -<div><p>See ticket <a class="reference external" href="https://www.flexpart.eu/ticket/263">#263</a> on flexpart.eu for information.</p> +<div><p>See ticket <a class="reference external" href="https://www.flexpart.eu/ticket/263">#263</a> on flexpart.eu for information. Fixed in v7.1.1.</p> </div></blockquote> </div> <div class="section" id="installation-problems-with-the-fortran-program-calc-etadot"> <h3>Installation problems with the Fortran program <code class="docutils literal notranslate"><span class="pre">calc_etadot</span></code><a class="headerlink" href="#installation-problems-with-the-fortran-program-calc-etadot" title="Permalink to this headline">¶</a></h3> <blockquote> -<div><p>See ticket <a class="reference external" href="https://www.flexpart.eu/ticket/264">#264</a> on flexpart.eu for information.</p> +<div><p>See ticket <a class="reference external" href="https://www.flexpart.eu/ticket/264">#264</a> on flexpart.eu for information. Fixed in v7.1.1.</p> </div></blockquote> </div> <div class="section" id="eccodes-error-code-250"> <h3>ECCODES Error Code 250<a class="headerlink" href="#eccodes-error-code-250" title="Permalink to this headline">¶</a></h3> -<p>If you get an error message from ECCODES with code 250, locking like this:</p> +<p>If you get an error message from ECCODES with code 250, looking like this:</p> <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>ECCODES ERROR : wrong size <span class="o">(</span><span class="m">184</span><span class="o">)</span> <span class="k">for</span> pv it contains <span class="m">276</span> values ECCODES ERROR : get: pv Passed array is too small ... ERROR CODE: <span class="m">250</span> @@ -195,10 +195,12 @@ ECCODES ERROR : get: pv Passed array is too small </pre></div> </div> <p>then you have set a wrong maximum level in the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file! -It is important to properly select the maximum level depending on the data set you would like to retrieve. The following model level definitions (number of model levels available) are limited to [16, 19, 31, 40, 50, 60, 62, 91, 137]. The ERA-Interim data set uses 62 model levels and <em>ERA5</em> as well as <em>CERA-20C</em> uses 137. The operational data set uses different model levels depending on the date. For example, on the 25/06/2013 the operational system started to use 137 model levels. Therefore, everytime you extract data from a date later than 25/06/2013 you have to select LEVEL=137 in the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file or define a LEVELLIST=1/to/137. Of course you can stop before the top of the atmosphere, such as 60/to/137, but you have to select the maximum level number as the last one. Table 2 in the <a class="reference external" href="https://www.geosci-model-dev-discuss.net/gmd-2019-358/">scientific model description paper</a> gives an overview of the level lists and the corresponding introducstion date.</p> +It is important to properly select the maximum level depending on the data set you would like to retrieve. Only the following values of the number of model levels available are valid: 16, 19, 31, 40, 50, 60, 62, 91, 137.</p> +<p>The ERA-Interim data set uses 62 model levels and <em>ERA5</em> as well as <em>CERA-20C</em> uses 137.</p> +<p>The operational data sets use different numbers, depending on the date. For example, from 25/06/2013 on, 137 model levels were used in the operational system. Therefore, every time you extract data from a date later than 25/06/2013 you have to select LEVEL=137 in the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file, or you have to define LEVELLIST=1/to/137. Of course, you can stop before the top of the atmosphere, such as 60/to/137, but you have to include the maximum level number (i. e., the lowest level, see note below!) number as the last one. Table 2 in the <a class="reference external" href="https://www.geosci-model-dev-discuss.net/gmd-2019-358/">scientific model description paper</a> gives an overview of the level lists and the corresponding date they were introduced.</p> <div class="admonition note"> <p class="admonition-title">Note</p> -<p>Remember that model level 1 corresponds to the top of the atmosphere and then increases in the direction of the surface.</p> +<p>Be aware that the ECMWF model counts the levels from the top of the atmosphere downward to the surface. Level 1 is the topmost level, and e.g. 137 would be the level closest to the ground.</p> </div> </div> </div> @@ -215,7 +217,7 @@ It is important to properly select the maximum level depending on the data set y <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/ControlFile.html b/Documentation/html/_modules/ControlFile.html index 2affed2b09f3f4ab273bfddd601e3425157082f7..8fad03ccf8b6a726ca764fdf42660ccea2225f9e 100644 --- a/Documentation/html/_modules/ControlFile.html +++ b/Documentation/html/_modules/ControlFile.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>ControlFile — flex_extract 7.1 alpha documentation</title> + <title>ControlFile — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -864,7 +864,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/EcFlexpart.html b/Documentation/html/_modules/EcFlexpart.html index c3fb4881b5f73dfde24b4fbbc7462c68ed4df2d1..789f353a48216ba5402403544d9c725d5b466c73 100644 --- a/Documentation/html/_modules/EcFlexpart.html +++ b/Documentation/html/_modules/EcFlexpart.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>EcFlexpart — flex_extract 7.1 alpha documentation</title> + <title>EcFlexpart — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -2087,7 +2087,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/GribUtil.html b/Documentation/html/_modules/GribUtil.html index 446c248db1966a67cc232add7ce1c28ba8d13edc..3506e58f3bf2e961864a4c1adf172fcf02fd25bc 100644 --- a/Documentation/html/_modules/GribUtil.html +++ b/Documentation/html/_modules/GribUtil.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>GribUtil — flex_extract 7.1 alpha documentation</title> + <title>GribUtil — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -480,7 +480,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/MarsRetrieval.html b/Documentation/html/_modules/MarsRetrieval.html index 77cc971eceb9ad44cbb0756cd2d8f0e7eb088b81..d61076ca8867272cf0292feb0b9c52094fed1a46 100644 --- a/Documentation/html/_modules/MarsRetrieval.html +++ b/Documentation/html/_modules/MarsRetrieval.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>MarsRetrieval — flex_extract 7.1 alpha documentation</title> + <title>MarsRetrieval — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -712,7 +712,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/UioFiles.html b/Documentation/html/_modules/UioFiles.html index a0fc159601408fd858ff63ae99d115afd6300b20..3c25272e83fcacc6c10cfefbea05314d8473f08f 100644 --- a/Documentation/html/_modules/UioFiles.html +++ b/Documentation/html/_modules/UioFiles.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>UioFiles — flex_extract 7.1 alpha documentation</title> + <title>UioFiles — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -329,7 +329,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/checks.html b/Documentation/html/_modules/checks.html index 17ab1e555c3eb9164c54fdf8f40b4cdfdeb148ee..2bcab08e2bb2d54d5d1af4cbc31ce1b426b00126 100644 --- a/Documentation/html/_modules/checks.html +++ b/Documentation/html/_modules/checks.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>checks — flex_extract 7.1 alpha documentation</title> + <title>checks — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -1060,7 +1060,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/disaggregation.html b/Documentation/html/_modules/disaggregation.html index a89c057951e8813880cf0084e36346a7bdeb56aa..001f47aacabcec56831c14f60e9eab2b62eb0e6b 100644 --- a/Documentation/html/_modules/disaggregation.html +++ b/Documentation/html/_modules/disaggregation.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>disaggregation — flex_extract 7.1 alpha documentation</title> + <title>disaggregation — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -590,7 +590,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/get_mars_data.html b/Documentation/html/_modules/get_mars_data.html index 584c5c741d2ec027a06d5f79218d7fdb806498bd..d7abc19a5659becca92ae751ea59856d133f0bf5 100644 --- a/Documentation/html/_modules/get_mars_data.html +++ b/Documentation/html/_modules/get_mars_data.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>get_mars_data — flex_extract 7.1 alpha documentation</title> + <title>get_mars_data — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -565,7 +565,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/index.html b/Documentation/html/_modules/index.html index f833113de9e7708bdd5f9e676bdd05f6de9ee51c..e094c3724f69c7a29010bcbfd9702d16217bc603 100644 --- a/Documentation/html/_modules/index.html +++ b/Documentation/html/_modules/index.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Overview: module code — flex_extract 7.1 alpha documentation</title> + <title>Overview: module code — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -182,7 +182,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/install.html b/Documentation/html/_modules/install.html index 6187f4ff8054811fbfbef9ccd1a1ddc555193f82..31f7762898d39233dd685506e2b0c73533bb858b 100644 --- a/Documentation/html/_modules/install.html +++ b/Documentation/html/_modules/install.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>install — flex_extract 7.1 alpha documentation</title> + <title>install — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -878,7 +878,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/prepare_flexpart.html b/Documentation/html/_modules/prepare_flexpart.html index 1624023ea84871fe3b2fae4c1c9f77bf1982b351..86971b289363c5aa01d0a7c33440ca0583cb9a36 100644 --- a/Documentation/html/_modules/prepare_flexpart.html +++ b/Documentation/html/_modules/prepare_flexpart.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>prepare_flexpart — flex_extract 7.1 alpha documentation</title> + <title>prepare_flexpart — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -356,7 +356,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/submit.html b/Documentation/html/_modules/submit.html index 20230472e5004435c5482316df32420e004e8b16..f61eb0a3c730450ae8cf57a6659c68d658aa22e3 100644 --- a/Documentation/html/_modules/submit.html +++ b/Documentation/html/_modules/submit.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>submit — flex_extract 7.1 alpha documentation</title> + <title>submit — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -439,7 +439,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_modules/tools.html b/Documentation/html/_modules/tools.html index a6eb2c2a0e50b9fc2951e91448db2a7b4e101326..0222c7c23d5ed083d5f254cab1c4905c03caae93 100644 --- a/Documentation/html/_modules/tools.html +++ b/Documentation/html/_modules/tools.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>tools — flex_extract 7.1 alpha documentation</title> + <title>tools — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="../documentation.html">Documentation</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"><a class="reference internal" href="../dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="../changelog.html">Changelog</a></li> @@ -1083,7 +1083,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/_sources/Developers/gen_docu.rst.txt b/Documentation/html/_sources/Developers/gen_docu.rst.txt index dd4959cb4ff22c336e2049f41d465054a1bf4d80..bde699516ddf38ad78c8e45e0bb92c3dc651fb98 100644 --- a/Documentation/html/_sources/Developers/gen_docu.rst.txt +++ b/Documentation/html/_sources/Developers/gen_docu.rst.txt @@ -1,13 +1,13 @@ ******************** -Update Documentation +Updating the documentation ******************** UNDER CONSTRUCTION -Additional Software +Additional software =================== -Developers working on ``flex_extract`` should make extensive use of the prepared test cases, unit tests and update the documentation. For this, some additional software is necessary: +Developers working on ``flex_extract`` 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: .. code-block:: sh @@ -26,19 +26,19 @@ Developers working on ``flex_extract`` should make extensive use of the prepared -Online-documentation with Sphinx +On-line documentation with Sphinx ================================ -Use the scriot ``gen_docu.sh`` to generate an update of the online documentation of the python component. +Use the script ``gen_docu.sh`` to generate an update of the on-line documentation of the Python component. -It uses ``pyreverse`` to generate a class and a package diagram with graphviz and overwrites the old files in the developers directory. -``pyreverse`` creates ``dot`` files and with the ``dot`` program of the ``graphviz`` software the ``png`` files are created. Everything happens in the Python source directory before moving them finally to the ``For_developers`` directory. The Sphinx source code has a ``_files`` directory which contains links to these ``png`` files and therefore they should not be renamed. +It uses ``pyreverse`` to generate class and package diagrams with ``graphviz`` and overwrites the old files in the developers directory. +``pyreverse`` creates ``dot`` files, and with the ``dot`` program of the ``graphviz`` software, the ``png`` files are created. Everything happens in the Python source directory before moving them finally to the ``For_developers`` directory. The Sphinx source code has a ``_files`` directory which contains links to these ``png`` files and therefore they should not be renamed. Sequence diagramms ------------------ -You might need to adapt the fonts path for the diagrams to a true type font. Currently it is set to: +You might need to adapt the fonts path for the diagrams to a true-type font. Currently it is set to: .. code-block:: bash @@ -49,7 +49,7 @@ You might need to adapt the fonts path for the diagrams to a true type font. Cur Block diagramms ------------------ -You might need to adapt the fonts path for the diagrams to a true type font. Currently it is set to: +You might need to adapt the fonts path for the diagrams to a true-type font. Currently it is set to: .. code-block:: bash diff --git a/Documentation/html/_sources/Documentation/Input/fortran_makefile.rst.txt b/Documentation/html/_sources/Documentation/Input/fortran_makefile.rst.txt index b88cbd41a0633cf36994cf752db41039504e9080..7b377d78fde06d89b8cf346a1854f1c7c88b4fd3 100644 --- a/Documentation/html/_sources/Documentation/Input/fortran_makefile.rst.txt +++ b/Documentation/html/_sources/Documentation/Input/fortran_makefile.rst.txt @@ -15,21 +15,58 @@ A list of these ``makefiles`` is shown below: | **Remote/Gateway mode**: | Files to be used as they are! - | **makefile_ecgate**: For use on ECMWF's server **ecgate**. - | **makefile_cray**: For use on ECMWF's server **cca/ccb**. + | **makefile_ecgate**: For use on the ECMWF server **ecgate**. + | **makefile_cray**: For use on the ECMWF servers **cca/ccb**. | **Local mode** | It is necessary to adapt **ECCODES_INCLUDE_DIR** and **ECCODES_LIB** if they don't correspond to the standard paths pre-set in the makefiles. | **makefile_fast**: For use with the gfortran compiler and optimisation mode. | **makefile_debug**: For use with the gfortran compiler and debugging mode. Primarily for developers. + | **makefile_local_gfortran**: Linked to makefile_fast. Default value. + +They can be found at ``flex_extract_vX.X/Source/Fortran/``, where ``vX.X`` should be substituted by the current flex_extract version number. + +.. caution:: + It is necessary to adapt **ECCODES_INCLUDE_DIR** and **ECCODES_LIB** in these + ``makefiles`` if other than standard paths are used. + +Thus, go to the ``Fortran`` source directory and open the ``makefile`` of your +choice, and check / modify with an editor of your choice: + +.. code-block:: bash + + cd flex_extract_vX.X/Source/Fortran + nedit makefile_fast + +Set the paths to the ``eccodes`` library on your local machine, if necessary. + +.. caution:: + This can vary from system to system. + It is suggested to use a command like + + .. code-block:: bash + + # for the ECCODES_INCLUDE_DIR path do: + $ dpkg -L libeccodes-dev | grep eccodes.mod + # for the ECCODES_LIB path do: + $ dpkg -L libeccodes-dev | grep libeccodes.so + + to find out the path to the ``eccodes`` library. + +Assign these paths to the parameters **ECCODES_INCLUDE_DIR** +and **ECCODES_LIB** in the makefile, and save it. + +.. code-block:: bash + + # these are the paths on Debian Buster: + ECCODES_INCLUDE_DIR=/usr/lib/x86_64-linux-gnu/fortran/gfortran-mod-15/ + ECCODES_LIB= -L/usr/lib -leccodes_f90 -leccodes -lm + If you want to use another compiler than gfortran locally, you can still take ``makefile_fast``, and adapt everything that is compiler-specific in this file. -For instructions on how to adapt the ``makefile`` (local application mode only), -please see :ref:`ref-install-local`. - .. toctree:: :hidden: diff --git a/Documentation/html/_sources/Documentation/Input/jobscript.rst.txt b/Documentation/html/_sources/Documentation/Input/jobscript.rst.txt index 24ef07e50e18d14a50b0976fa50a222ed3e2f0fc..6a8b7600ea32b442140b22d465e7c93e907dd1bf 100644 --- a/Documentation/html/_sources/Documentation/Input/jobscript.rst.txt +++ b/Documentation/html/_sources/Documentation/Input/jobscript.rst.txt @@ -138,7 +138,6 @@ Example ``jobscript.ksh`` lower 10. mailfail ${USER} mailops ${USER} - makefile Makefile.gfortran marsclass EP maxstep 0 number 000 diff --git a/Documentation/html/_sources/Documentation/Input/setup.rst.txt b/Documentation/html/_sources/Documentation/Input/setup.rst.txt index 7160ae88978f273a89365d45e73b7564e4a4c306..ee4469db9cd5714bf31c3a16b20a16a90e1cfcc8 100644 --- a/Documentation/html/_sources/Documentation/Input/setup.rst.txt +++ b/Documentation/html/_sources/Documentation/Input/setup.rst.txt @@ -173,8 +173,9 @@ we see again all possible command line parameters. --target INSTALL_TARGET Valid targets: local | ecgate | cca , the latter two are at ECMWF (default: None) - --makefile MAKEFILE Name of Makefile to use for compiling the Fortran - program (default: None) + --makefile MAKEFILE Name of makefile to compile the Fortran + code. (default depends on `target`: local - makefile_local_gfortran, + ecgate - makefile_ecgate, cca - makefile_cray) --ecuid ECUID The user id at ECMWF. (default: None) --ecgid ECGID The group id at ECMWF. (default: None) --gateway GATEWAY The IP name (or IP address) of the local gateway server. (default: None) diff --git a/Documentation/html/_sources/Documentation/disagg.rst.txt b/Documentation/html/_sources/Documentation/disagg.rst.txt index 5a035f8be97175182318fbe97ca1d8f8e4edcd8f..64a3e3de5ad8e75ec093c6745af8152b52ec69ec 100644 --- a/Documentation/html/_sources/Documentation/disagg.rst.txt +++ b/Documentation/html/_sources/Documentation/disagg.rst.txt @@ -16,12 +16,12 @@ pre-processing has to be applied. :align: center :widths: 5,15,5,10 - LSP, "large-scale precipitation", ":math:`m`", "modified linear interpolation" - CP, "convective precipitation", ":math:`m`", "modified linear interpolation" - SSHF, "surface sensible heat flux", ":math:`J m^{-2}`", "bicubic interpolation" - EWSS, "eastward turbulent surface stress", ":math:`N m^{-2} s`", "bicubic interpolation" - NSSS, "northward turbulent surface stress", ":math:`N m^{-2} s`", "bicubic interpolation" - SSR, "surface net solar radiation", ":math:`J m^{-2}`", "bicubic interpolation" + LSP, "large-scale precipitation", "m", "modified linear interpolation" + CP, "convective precipitation", "m", "modified linear interpolation" + SSHF, "surface sensible heat flux", "J m:math:`^{-2}`", "bicubic interpolation" + EWSS, "eastward turbulent surface stress", "N m:math:`^{-2}` s", "bicubic interpolation" + NSSS, "northward turbulent surface stress", "N m:math:`^{-2}` s", "bicubic interpolation" + SSR, "surface net solar radiation", "J m:math:`^{-2}`", "bicubic interpolation" The first step is to *de-accumulate* the fields in time so that each value represents non-overlapping integrals in x-, y-, and t-space. @@ -61,19 +61,19 @@ However, the supporting points in space are not shifted between precipitation an -Disaggregation is done for four adjacent timespans (:math:`a_0, a_1, a_2, a_3`) which generates a new, disaggregated value which is output at the central point of the four adjacent timespans. +Disaggregation is done for four adjacent time intervals (:math:`a_0, a_1, a_2, a_3`) which generates a new, disaggregated value which is output at the central point of the four adjacent time intervals. .. math:: - p_{ac} &= 0.5 * a_1\\ + p_{ac} &= 0.5 a_1\\ m &= a_0 + a_2 > 0.\\ - p_{ac}(m) &= a_1(m) * a_2(m) / (a_0(m) + a_2(m))\\ + p_{ac}(m) &= a_1(m) a_2(m) / (a_0(m) + a_2(m))\\ p_{bd} &= 0.5 * a_2\\ m &= a_1 + a_3 > 0.\\ - p_{bd}(m) &= a_1(m) * a_2(m) / (a_1(m) + a_3(m))\\ + p_{bd}(m) &= a_1(m) a_2(m) / (a_1(m) + a_3(m))\\ -This new point :math:`p` is used for linear interpolation of the complete timeseries afterwards. If one of the four original timespans has a value below 0, it is set to 0 prior to the calculation. +This new point :math:`p` is used for linear interpolation of the complete timeseries afterwards. If one of the four original time intervals has a value below 0, it is set to 0 prior to the calculation. .. math:: @@ -161,7 +161,7 @@ Disaggregation for the other flux fields The accumulated values for the other variables are first divided by the number of hours and then interpolated to the exact times using a bicubic interpolation which conserves the integrals of the fluxes within each timespan. -Disaggregation is done for four adjacent timespans (:math:`p_a, p_b, p_c, p_d`) which produces a new, disaggregated value that is the output at the central point of the four adjacent timespans. +Disaggregation is done for four adjacent time intervals (:math:`p_a, p_b, p_c, p_d`) which produces a new, disaggregated value that is the output at the central point of the four adjacent time intervals. .. math:: diff --git a/Documentation/html/_sources/Installation/local.rst.txt b/Documentation/html/_sources/Installation/local.rst.txt index 6a7cecca50ad076461827a9ffc7898e1370965d8..5e20d27a5564d8b317b247d021d39c9a9ebe06a7 100644 --- a/Documentation/html/_sources/Installation/local.rst.txt +++ b/Documentation/html/_sources/Installation/local.rst.txt @@ -10,15 +10,13 @@ Local mode installation :maxdepth: 2 -.. _Python 3: https://docs.python.org/3/ -.. _Python3: https://www.python.org/downloads/ -.. _Anaconda Python3: https://www.anaconda.com/distribution/#download-section - +.. _Python3: https://www.python.org/ +.. _Anaconda Python3: https://www.anaconda.com/distribution/ .. _numpy: http://www.numpy.org/ .. _ecmwf-api-client: https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home .. _cdsapi: https://cds.climate.copernicus.eu/api-how-to .. _genshi: https://genshi.edgewall.org/ -.. _eccodes for python: https://packages.debian.org/sid/python3-eccodes +.. _eccodes for python: https://pypi.org/project/eccodes-python/ .. _eccodes for conda: https://anaconda.org/conda-forge/eccodes .. _gfortran: https://gcc.gnu.org/wiki/GFortran .. _fftw3: http://www.fftw.org @@ -29,20 +27,14 @@ Local mode installation .. _CDS API registration: https://cds.climate.copernicus.eu/user/register .. _ECMWF ectrans site: https://confluence.ecmwf.int/display/ECAC/Unattended+file+transfer+-+ectrans .. _ECaccess Presentation: https://confluence.ecmwf.int/download/attachments/45759146/ECaccess.pdf -.. _ECMWF's instructions on gateway server: https://confluence.ecmwf.int/display/ECAC/ECaccess+Home +.. _ECMWF instructions on gateway servers: https://confluence.ecmwf.int/display/ECAC/ECaccess+Home .. _Computing Representative: https://www.ecmwf.int/en/about/contact-us/computing-representatives .. _MARS access: https://confluence.ecmwf.int//display/WEBAPI/Access+MARS - .. _download section: https://www.flexpart.eu/downloads - - - - + .. _ref-local-mode: - - .. _ref-req-local: Local mode - dependencies @@ -53,16 +45,16 @@ The installation is the same for the access modes **member** and **public**. The environment on your local system has to provide the following software packages and libraries, since the preparation of the extraction and the post-processing is done on the local machine: -+-------------------------------------------------+-----------------+ -| Python part | Fortran part | -+-------------------------------------------------+-----------------+ -| 1. `Python3`_ | 1. `gfortran`_ | -| 2. `numpy`_ | 2. `fftw3`_ | -| 3. `genshi`_ | 3. `eccodes`_ | -| 4. `eccodes for python`_ | 4. `emoslib`_ | -| 5. `ecmwf-api-client`_ (everything except ERA5) | | -| 6. `cdsapi`_ (just for ERA5 and member user) | | -+-------------------------------------------------+-----------------+ ++------------------------------------------------+----------------+ +| Python code | Fortran code | ++------------------------------------------------+----------------+ +| * `Python3`_ | * `gfortran`_ | +| * `numpy`_ | * `fftw3`_ | +| * `genshi`_ | * `eccodes`_ | +| * `eccodes for python`_ | * `emoslib`_ | +| * `ecmwf-api-client`_ (everything except ERA5) | | +| * `cdsapi`_ (just for ERA5 and member user) | | ++------------------------------------------------+----------------+ .. _ref-prep-local: @@ -264,55 +256,20 @@ Please use the following Python code snippet to retrieve a small *ERA5* data sam - .. _ref-install-local: Local installation ================== -First, adapt the Fortran ``makefile`` for your environment (if necessary) and insert it into ``setup.sh`` script (see :ref:`Fortran Makefile <ref-convert>` for more information). -They can be found at ``flex_extract_vX.X/Source/Fortran/``, where ``vX.X`` should be substituted by the current flex_extract version number. - -.. caution:: - It is necessary to adapt **ECCODES_INCLUDE_DIR** and **ECCODES_LIB** in these - ``makefiles`` if other than standard paths are used. - -Thus, go to the ``Fortran`` source directory and open the ``makefile`` of your -choice, and check / modify with an editor of your choice: - -.. code-block:: bash - - cd flex_extract_vX.X/Source/Fortran - nedit makefile_fast - -Set the paths to the ``eccodes`` library on your local machine, if necessary. - -.. caution:: - This can vary from system to system. - It is suggested to use a command like - - .. code-block:: bash - - # for the ECCODES_INCLUDE_DIR path do: - $ dpkg -L libeccodes-dev | grep eccodes.mod - # for the ECCODES_LIB path do: - $ dpkg -L libeccodes-dev | grep libeccodes.so - - to find out the path to the ``eccodes`` library. - -Assign these paths to the parameters **ECCODES_INCLUDE_DIR** -and **ECCODES_LIB** in the makefile, and save it. - -.. code-block:: bash - - # these are the paths on Debian Buster: - ECCODES_INCLUDE_DIR=/usr/lib/x86_64-linux-gnu/fortran/gfortran-mod-15/ - ECCODES_LIB= -L/usr/lib -leccodes_f90 -leccodes -lm - The Fortran program called ``calc_etadot`` will be compiled during the -installation process. Therefore, the name of the ``makefile`` to be used needs to be given in ``setup.sh``. +installation process. A suitable makefile (``makefile_local_gfortran``) for the compilation is set by default. +This may be overwritten by the ``MAKEFILE`` parameter in ``setup.sh``. + +However, you may have to adapt the makefile for your environment (the current default makefile works on Debian stretch and similar GNU/Linux distributions). If you use a new name for it, you will have to insert it into ``setup.sh`` +For details on the makefile and how to adapt them, see :ref:`Fortran Makefile <ref-convert>`. + In the root directory of ``flex_extract``, open the ``setup.sh`` script with an editor and adapt the installation parameters in the section labelled with "AVAILABLE COMMANDLINE ARGUMENTS TO SET" as shown below: @@ -329,7 +286,6 @@ with an editor and adapt the installation parameters in the section labelled wit # THE USER HAS TO SPECIFY THESE PARAMETER # TARGET='local' - MAKEFILE='makefile_fast' ECUID=None ECGID=None GATEWAY=None @@ -356,7 +312,7 @@ to start the installation. You should see the following standard output. flex_extract will be installed in here by compiling the Fortran source in <path-to-flex_extract>/flex_extract_v7.1/Source/Fortran Install flex_extract_v7.1 software at local in directory <path-to-flex_extract>/flex_extract_v7.1 - Using makefile: makefile_fast + Using makefile: makefile_local_gfortran gfortran -O3 -march=native -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -ljasper -lemosR64 -I. -I/usr/local/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./rwgrib2.f90 gfortran -O3 -march=native -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -ljasper -lemosR64 -I. -I/usr/local/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./phgrreal.f90 gfortran -O3 -march=native -Bstatic -leccodes_f90 -leccodes -Bdynamic -lm -ljasper -lemosR64 -I. -I/usr/local/include -fdefault-real-8 -fopenmp -fconvert=big-endian -c ./grphreal.f90 diff --git a/Documentation/html/_sources/Installation/remote.rst.txt b/Documentation/html/_sources/Installation/remote.rst.txt index a5f863409acbb33d511de8fa96b4f163f2c795ba..95f0c63eb8dde3542ad1fdc0eaf44f7341cf24e7 100644 --- a/Documentation/html/_sources/Installation/remote.rst.txt +++ b/Documentation/html/_sources/Installation/remote.rst.txt @@ -47,7 +47,7 @@ Remote mode - dependencies The following software is required, and already available at the ECMWF servers: +---------------------------+-----------------+ -| Python part | Fortran part | +| Python code | Fortran code | +---------------------------+-----------------+ | * `Python3`_ | * `gfortran`_ | | * `numpy`_ | * `fftw3`_ | diff --git a/Documentation/html/_sources/Support/faq.rst.txt b/Documentation/html/_sources/Support/faq.rst.txt index 616850d36a761c822195752b7686d7665de6fc7a..bda2f516462398204a8a1dfccc26a1f813d05806 100644 --- a/Documentation/html/_sources/Support/faq.rst.txt +++ b/Documentation/html/_sources/Support/faq.rst.txt @@ -7,23 +7,22 @@ FAQ - Frequently asked questions -What can I do if I can't install the third party libraries from distribution packages? +What can I do if I can't install the third-party libraries from distribution packages? ====================================================================================== -This can be the case if the user does not have admin rights. -It is possible to install the necessary libraries locally from source. -For this case you should follow the following steps: +This can be the case if the user does not have admin rights and the sysadmins would not want to provide the libraries. +In this case, a workaround is to install the necessary libraries from source into a user directory, following these steps: -Installation hints: +Steps to install libraries from source: 1. `Read Emoslib installation instructions <https://software.ecmwf.int/wiki/display/EMOS/Emoslib>`_ 2. `Read ECMWF blog about gfortran <https://software.ecmwf.int/wiki/display/SUP/2015/05/11/Building+ECMWF+software+with+gfortran>`_ 3. `Install FFTW <http://www.fftw.org>`_ - 4. `Install EMOSLIB <https://software.ecmwf.int/wiki/display/EMOS/Emoslib>`_ (2 times make! one without any options and one with single precision option) + 4. `Install EMOSLIB <https://software.ecmwf.int/wiki/display/EMOS/Emoslib>`_ (execute ``make`` two times! One time without any options, and another time with the single-precision option.) 5. `Install ECCODES <https://software.ecmwf.int/wiki/display/ECC>`_ - 6. Register at Mars (:ref:`ref-registration`) + 6. Register for MARS access (:ref:`ref-registration`) 7. Install Web API's `CDS API <https://cds.climate.copernicus.eu/api-how-to>`_ and `ECMWF Web API <https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home>`_ - 8. Check LD_LIBRARY_PATH environment variable if it contains all paths to the libs - 9. Check available python packages (e.g. import eccodes / import grib_api / import ecmwfapi) + 8. Check whether LD_LIBRARY_PATH environment variable contains the paths to all the libs + 9. Check available Python packages (e.g. ``import eccodes`` / ``import grib_api`` / ``import ecmwfapi``) 10. Start test retrieval (:ref:`ref-test-local`) 11. Install ``flex_extract`` (:doc:`../installation`) diff --git a/Documentation/html/_sources/Support/known_bugs_issues.rst.txt b/Documentation/html/_sources/Support/known_bugs_issues.rst.txt index aab5e630aef4729dcff5ad70217ffc8491e8f21a..7e2ba0ba0efa792b3420c94a8f2705ac01465d99 100644 --- a/Documentation/html/_sources/Support/known_bugs_issues.rst.txt +++ b/Documentation/html/_sources/Support/known_bugs_issues.rst.txt @@ -14,18 +14,19 @@ CDS API and ERA5 data Installation problems with ``GATEWAY`` and ``DESTINATION`` parameters --------------------------------------------------------------------- - See ticket `#263 <https://www.flexpart.eu/ticket/263>`_ on flexpart.eu for information. + See ticket `#263 <https://www.flexpart.eu/ticket/263>`_ on flexpart.eu for information. Fixed in v7.1.1. Installation problems with the Fortran program ``calc_etadot`` -------------------------------------------------------------- - See ticket `#264 <https://www.flexpart.eu/ticket/264>`_ on flexpart.eu for information. + See ticket `#264 <https://www.flexpart.eu/ticket/264>`_ on flexpart.eu for information. Fixed in v7.1.1. + ECCODES Error Code 250 ---------------------- -If you get an error message from ECCODES with code 250, locking like this: +If you get an error message from ECCODES with code 250, looking like this: .. code-block:: bash @@ -37,9 +38,13 @@ If you get an error message from ECCODES with code 250, locking like this: ... FORTRAN PROGRAM FAILED! then you have set a wrong maximum level in the :literal:`CONTROL` file! -It is important to properly select the maximum level depending on the data set you would like to retrieve. The following model level definitions (number of model levels available) are limited to [16, 19, 31, 40, 50, 60, 62, 91, 137]. The ERA-Interim data set uses 62 model levels and *ERA5* as well as *CERA-20C* uses 137. The operational data set uses different model levels depending on the date. For example, on the 25/06/2013 the operational system started to use 137 model levels. Therefore, everytime you extract data from a date later than 25/06/2013 you have to select LEVEL=137 in the :literal:`CONTROL` file or define a LEVELLIST=1/to/137. Of course you can stop before the top of the atmosphere, such as 60/to/137, but you have to select the maximum level number as the last one. Table 2 in the `scientific model description paper <https://www.geosci-model-dev-discuss.net/gmd-2019-358/>`_ gives an overview of the level lists and the corresponding introducstion date. +It is important to properly select the maximum level depending on the data set you would like to retrieve. Only the following values of the number of model levels available are valid: 16, 19, 31, 40, 50, 60, 62, 91, 137. + +The ERA-Interim data set uses 62 model levels and *ERA5* as well as *CERA-20C* uses 137. + +The operational data sets use different numbers, depending on the date. For example, from 25/06/2013 on, 137 model levels were used in the operational system. Therefore, every time you extract data from a date later than 25/06/2013 you have to select LEVEL=137 in the :literal:`CONTROL` file, or you have to define LEVELLIST=1/to/137. Of course, you can stop before the top of the atmosphere, such as 60/to/137, but you have to include the maximum level number (i. e., the lowest level, see note below!) number as the last one. Table 2 in the `scientific model description paper <https://www.geosci-model-dev-discuss.net/gmd-2019-358/>`_ gives an overview of the level lists and the corresponding date they were introduced. .. note:: - Remember that model level 1 corresponds to the top of the atmosphere and then increases in the direction of the surface. + Be aware that the ECMWF model counts the levels from the top of the atmosphere downward to the surface. Level 1 is the topmost level, and e.g. 137 would be the level closest to the ground. diff --git a/Documentation/html/_sources/changelog.rst.txt b/Documentation/html/_sources/changelog.rst.txt index dc8b3d387e8d4a76c4b17b95360041b0cd18d3c4..b3f98e0544b60c1c70d0fc0804f71c9a1c80e60b 100644 --- a/Documentation/html/_sources/changelog.rst.txt +++ b/Documentation/html/_sources/changelog.rst.txt @@ -19,7 +19,7 @@ Bug fixes ######### * corrected naming of makefiles and Fortran program executable in online documentation * adapted checking for ``GATEWAY`` and ``DESTINATION`` parameter - * fixed makefiles to use f90 Fortran files for ECMWF server + * fixed Fortran makefiles to use the .f90 files on ECMWF servers .. _ref-v71: @@ -41,9 +41,9 @@ Changes * upgraded to Python3 * applied PEP8 style guide * use of genshi templates - * modularization of python source code + * modularization of Python source code * upgrade from grib_api to ecCodes - * completely revised/refactored python section + * completely revised/refactored Python section * restructured program directories * Fortran program name changed from ``CONVERT2`` to ``calc_etadot`` @@ -59,8 +59,8 @@ New Features Bug fixes ######### - * diverse problems with ERA 5 retrieval - * diverse problems with CERA-20C retrieval + * various problems with ERA 5 retrieval + * various problems with CERA-20C retrieval * BASETIME retrieval option * `CONVERT2` FORTRAN program: initialise fields to 0. (introduced initialization of :literal:`field` variable in the Fortran program @@ -73,7 +73,7 @@ Release v7.0.3 New Features ############ - * output of mars requests to an extra file (debugging and documentation) + * output of MARS requests to an extra file (debugging and documentation) * CERA-20C download * ERA 5 download * public user interface with `ECMWF Web API`_ @@ -86,16 +86,16 @@ Release v7.0.2 New Features ############ - * Python based version + * Python-based version Changes ####### - * korn shell scripts were substituted by python scripts + * korn shell scripts substituted by Python scripts .. _ref-v60: Release v0.1 - v6.0 ------------------- - * old version which should no longer be used anymore + * old version which should no longer be used diff --git a/Documentation/html/_sources/documentation.rst.txt b/Documentation/html/_sources/documentation.rst.txt index c7c8fc782cb867a7705224d60087031aeba39e2b..e2e3e56a6c1c2258dadb38aa5e5f378e4dc1869e 100644 --- a/Documentation/html/_sources/documentation.rst.txt +++ b/Documentation/html/_sources/documentation.rst.txt @@ -1,16 +1,16 @@ -************* -Documentation -************* +************************ +Code-Level Documentation +************************ Overview (under construction) - Control & input data + Scripts, control & input data Output data (under construction) Disaggregation of flux data (under construction) - Vertical coordinate (under construction) + Vertical wind (under construction) - methods (GAUSS, ETA, OMEGA) - calc_etadot diff --git a/Documentation/html/_sources/index.rst.txt b/Documentation/html/_sources/index.rst.txt index be0f055ced67a84c805ceb789406db524a059c4c..65e1911e5e48213bc4a56be0fbd72d5979ce9e33 100644 --- a/Documentation/html/_sources/index.rst.txt +++ b/Documentation/html/_sources/index.rst.txt @@ -3,9 +3,9 @@ You can adapt this file completely to your liking, but it should at least contain the root `toctree` directive. -================================================= -Welcome to ``flex_extract``'s user documentation! -================================================= +=================================================== +Welcome to the ``flex_extract`` Documentation! +=================================================== ``Flex_extract`` is an open-source software to retrieve meteorological fields from the MARS archive of the European Centre for Medium-Range Weather Forecasts (ECMWF) to serve as input for the FLEXTRA/FLEXPART atmospheric transport modelling system. @@ -13,17 +13,6 @@ Welcome to ``flex_extract``'s user documentation! <table style="width:100%;"> <tr> - <td style="width:30%;height:150px;"> - <div style="width:100%;height:60px;margin-left:20%;position:relative;"> - <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/install_icon.png"> - </div> - <h2><a href="installation.html">Installation</a></h2> - <ul> - <li><a href="installation.html#ref-requirements">Environment requirements</a></li> - <li><a href="installation.html#ref-download">Download flex_extract</a></li> - <li><a href="installation.html#ref-install-fe">Install flex_extract</a></li> - </ul> - </td> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/ecmwf_icon.png"> @@ -37,28 +26,38 @@ Welcome to ``flex_extract``'s user documentation! </td> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> - <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/prog_icon.png"> + <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/install_icon.png"> </div> - <h2><a href="documentation.html">Documentation</a></h2> + <h2><a href="installation.html">Installation</a></h2> <ul> - <li><a href="Documentation/overview.html">Overview</a></li> - <li><a href="Documentation/input.html">Control & input data</a></li> - <li><a href="Documentation/output.html">Output data</a></li> + <li><a href="installation.html#ref-requirements">Dependencies</a></li> + <li><a href="installation.html#ref-download">Download flex_extract</a></li> + <li><a href="installation.html#ref-install-fe">Install flex_extract</a></li> </ul> - </td> - </tr> - <tr> + </td> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/guide_icon.png"> </div> - <h2><a href="quick_start.html">Quick Start</a></h2> + <h2><a href="quick_start.html">Usage</a></h2> <ul> <li><a href="quick_start.html#job-preparation">Job preparation</a></li> - <li><a href="quick_start.html#selection-and-adjustment-of-control-files">Handling CONTROL files</a></li> + <li><a href="quick_start.html#selection-and-adjustment-of-control-files">CONTROL files</a></li> <li><a href="quick_start.html#hints-for-definition-of-some-parameter-combinations">Hints on parameter combinations</a></li> </ul> - </td> + </td> </tr> + <tr> + <td style="width:30%;height:150px;"> + <div style="width:100%;height:60px;margin-left:20%;position:relative;"> + <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/prog_icon.png"> + </div> + <h2><a href="documentation.html">Code-level documentation</a></h2> + <ul> + <li><a href="Documentation/overview.html">Overview</a></li> + <li><a href="Documentation/input.html">Scripts, control & input data</a></li> + <li><a href="Documentation/output.html">Output data</a></li> + </ul> + </td> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/check_icon.png"> @@ -74,9 +73,9 @@ Welcome to ``flex_extract``'s user documentation! <div style="width:100%;height:60px;margin-left:20%;position:relative;"> <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/dev_icon.png"> </div> - <h2><a href="dev_guide.html">Developer</a></h2> + <h2><a href="dev_guide.html">Developer guide</a></h2> <ul> - <li><a href="Developers/gen_docu.html">Updateing the documentation</a></li> + <li><a href="Developers/gen_docu.html">Updating the documentation</a></li> <li><a href=""></a><Placeholder></li> <li><a href=""></a><Placeholder></li> </ul> @@ -131,9 +130,9 @@ Welcome to ``flex_extract``'s user documentation! :maxdepth: 4 :caption: Table of Contents: + ecmwf_data installation quick_start - ecmwf_data documentation evaluation dev_guide diff --git a/Documentation/html/_sources/installation.rst.txt b/Documentation/html/_sources/installation.rst.txt index c78d3665b54cdd0571497d338f882ac445365075..6a0c8a56649245a1ead5dc7f1e77771c84875207 100644 --- a/Documentation/html/_sources/installation.rst.txt +++ b/Documentation/html/_sources/installation.rst.txt @@ -134,12 +134,12 @@ git repo Dependencies ============ -The software required for running ``flex_extract`` depends on the :doc:`Documentation/Overview/app_modes` and therefore is described in the respective specific installation sections. +The software required to run ``flex_extract`` depends on the :doc:`Documentation/Overview/app_modes` and therefore is described in the respective specific installation sections. Generally speaking, ``flex_extract`` requires `Python 3`_ and Fortran together with certain modules / libraries. -We tested ``flex_extract`` with the python3 package from the the GNU/Linux distribution and Anaconda Python. The required python3 modules should prefarably be installed as distribution packages, or alternatively using Python's own package manager ``pip`` (this may mess up some aspects of your python installation, especially if you use ``pip`` as root. Think about using virtual environments.). +We tested ``flex_extract`` with the Python3 package from the the GNU/Linux distribution and Anaconda Python. The required Python3 modules should prefarably be installed as distribution packages, or alternatively using Python's own package manager ``pip`` (this may mess up some aspects of your python installation, especially if you use ``pip`` as root. Think about using virtual environments.). -Before installing the system packages check the availability with ``dpkg -s <package-name> | grep Status`` or ``rpm -q <package_name>``, depending on your system. For example: +Before installing the system packages check the availability with (Debian-based system) ``dpkg -s <package-name> | grep Status`` or (Redhat-based system)``rpm -q <package_name>``. For example: .. code-block:: sh @@ -149,9 +149,6 @@ Before installing the system packages check the availability with ``dpkg -s <pac - - - .. _ref-install-fe: Installation of ``flex_extract`` @@ -182,23 +179,6 @@ Select one of the following modes to install: Installation/gateway Installation/local - - - - - - - - - - - - - - - - - ``Flex_extract`` in combination with ``FLEXPART`` @@ -207,13 +187,6 @@ Select one of the following modes to install: Some users might wish to incorporate ``flex_extract`` directly into the ``FLEXPART`` distribution. Then the installation path has to be changed by setting the parameter `installdir` in the ``setup.sh`` file to the ``script`` directory in the ``FLEXPART`` root directoy. - - - - - - - .. _ref-testinstallfe: Test installation diff --git a/Documentation/html/_sources/quick_start.rst.txt b/Documentation/html/_sources/quick_start.rst.txt index 5b927c2c8f3477a8a1e12dc1d35850999fefeb3a..baa36ca5f5c0014af22356a02c4807ad43796d02 100644 --- a/Documentation/html/_sources/quick_start.rst.txt +++ b/Documentation/html/_sources/quick_start.rst.txt @@ -1,6 +1,6 @@ -*********** -Quick Start -*********** +***** +Usage +***** ``flex_extract`` is a command-line tool. In the first versions, it was started via a korn shell script and since version 6, the entry point was a python script. From version 7.1, a bash shell script was implemented to call ``flex_extract`` with the command-line parameters. diff --git a/Documentation/html/_sources/support.rst.txt b/Documentation/html/_sources/support.rst.txt index 1bfcc5e5b6e1482401bcbe267a86a96d54ed74b5..1a11e5f8dac4d26b76dbacf0ce85c63c29475887 100644 --- a/Documentation/html/_sources/support.rst.txt +++ b/Documentation/html/_sources/support.rst.txt @@ -15,10 +15,10 @@ Ticket system ------------- .. _ticket system: https://www.flexpart.eu/report/1 -The community website http://flexpart.eu contains a -`ticket system`_ which can be used to report any issue or a proposition for a new feature. +The community website https://flexpart.eu/ contains a +`ticket system`_ which can be used to report any issue or to propose new features. -The tickets can be viewed by anyone, to create a ticket a registration is necessary. Since the automatic registration is unavailable, please send an email to the ``flexpart.eu[at]zamg.ac.at`` and you will receive your credentials (with some delay). +The tickets can be viewed by anyone, to create a ticket a registration is necessary. Since the automatic registration is unavailable, please send an email to the ``flexpart.eu[at]zamg.ac.at`` and you will receive your credentials (possibly with some delay). Event though a category "Support" is available, in most cases asking questions in the mailing list (see next paragraph below) will be more appropriate. .. _ref-mailing-list: @@ -26,11 +26,10 @@ The tickets can be viewed by anyone, to create a ticket a registration is necess Mailing list ------------ -The mailing list is mainly for the ``FLEXPART`` users to ask questions or share experiences regarding the whole ``FLEXPART`` process with the community. This can be a lot faster than asking only the developers for help. Since ``flex_extract`` is a preprocessor to ``FLEXPART`` this is the right place to ask for help. +A mailing list exists for the ``FLEXPART`` users to ask questions or share experiences with the community, regarding the whole ``FLEXPART`` process. This may be faster than asking only the developers for help through tickets. Since ``flex_extract`` is a preprocessor to ``FLEXPART`` this is the right place to ask for help. -Additionally, from time to time, there will be announcements for all FLEXPART users, such as new release versions of ``FLEXPART`` or ``flex_extract``. - -Just write a mail to: ``flexpart[at]lists.univie.ac.at`` +New release versions of ``FLEXPART`` or ``flex_extract`` or other important annoucements will also be made through this mailling list. +The subscription process is explained at the bottom of https://www.flexpart.eu/wiki/RegisteredUser. Once subscribed, write e-mail to ``flexpart[at]lists.univie.ac.at`` to post to the list. .. _ref-reporting: @@ -40,12 +39,11 @@ Reporting an issue To properly report a problem or bug, please provide as much information as possible. This includes: - -* the flex_extract version -* a flex_extract log file (output of submit.py script) -* the CONTROL file -* the commandline arguments or run(_local).sh settings and -* a description of the environment you used (Unix/Linux version, library version, application mode, etc.). +* the ``flex_extract`` version +* a ``flex_extract log`` file (output of ``submit.py`` script) +* the ``CONTROL`` file +* the command-line arguments or ``run(_local).sh`` settings and +* a description of your environment (Unix/Linux version, library version, application mode, etc.). .. _ref-known-issues: diff --git a/Documentation/html/_static/documentation_options.js b/Documentation/html/_static/documentation_options.js index 20b9bd7288928088ba6ab1dc03b32b582bee3e6b..3efa03045fc5699f2715a41c7a8cd3b34e2d1067 100644 --- a/Documentation/html/_static/documentation_options.js +++ b/Documentation/html/_static/documentation_options.js @@ -1,6 +1,6 @@ var DOCUMENTATION_OPTIONS = { URL_ROOT: document.getElementById("documentation_options").getAttribute('data-url_root'), - VERSION: '7.1 alpha', + VERSION: '7.1.1', LANGUAGE: 'None', COLLAPSE_INDEX: false, BUILDER: 'html', diff --git a/Documentation/html/authors.html b/Documentation/html/authors.html index 763a5e0daa04ab2bc7a56e92c0aa2d7e2aa532a8..1ca2cbcde86876163d115d141767b9e72a0dcc08 100644 --- a/Documentation/html/authors.html +++ b/Documentation/html/authors.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Developer Team — flex_extract 7.1 alpha documentation</title> + <title>Developer Team — flex_extract 7.1.1 documentation</title> @@ -62,7 +62,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -88,10 +88,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -205,7 +205,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/changelog.html b/Documentation/html/changelog.html index 9f06cd876f3220cb586100c6178aa2d01f2a34b9..a0eab663a6fff2a36e86305fa55ad280e35ffc20 100644 --- a/Documentation/html/changelog.html +++ b/Documentation/html/changelog.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Changelog — flex_extract 7.1 alpha documentation</title> + <title>Changelog — flex_extract 7.1.1 documentation</title> @@ -39,7 +39,7 @@ <link rel="index" title="Index" href="genindex.html" /> <link rel="search" title="Search" href="search.html" /> <link rel="next" title="Support" href="support.html" /> - <link rel="prev" title="Update Documentation" href="Developers/gen_docu.html" /> + <link rel="prev" title="Updating the documentation" href="Developers/gen_docu.html" /> </head> <body class="wy-body-for-nav"> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1 current"><a class="current reference internal" href="#">Changelog</a><ul> @@ -201,7 +201,7 @@ <div><ul class="simple"> <li><p>corrected naming of makefiles and Fortran program executable in online documentation</p></li> <li><p>adapted checking for <code class="docutils literal notranslate"><span class="pre">GATEWAY</span></code> and <code class="docutils literal notranslate"><span class="pre">DESTINATION</span></code> parameter</p></li> -<li><p>fixed makefiles to use f90 Fortran files for ECMWF server</p></li> +<li><p>fixed Fortran makefiles to use the .f90 files on ECMWF servers</p></li> </ul> </div></blockquote> </div> @@ -228,9 +228,9 @@ <li><p>upgraded to Python3</p></li> <li><p>applied PEP8 style guide</p></li> <li><p>use of genshi templates</p></li> -<li><p>modularization of python source code</p></li> +<li><p>modularization of Python source code</p></li> <li><p>upgrade from grib_api to ecCodes</p></li> -<li><p>completely revised/refactored python section</p></li> +<li><p>completely revised/refactored Python section</p></li> <li><p>restructured program directories</p></li> <li><p>Fortran program name changed from <code class="docutils literal notranslate"><span class="pre">CONVERT2</span></code> to <code class="docutils literal notranslate"><span class="pre">calc_etadot</span></code></p></li> </ul> @@ -251,8 +251,8 @@ <h3>Bug fixes<a class="headerlink" href="#id2" title="Permalink to this headline">¶</a></h3> <blockquote> <div><ul class="simple"> -<li><p>diverse problems with ERA 5 retrieval</p></li> -<li><p>diverse problems with CERA-20C retrieval</p></li> +<li><p>various problems with ERA 5 retrieval</p></li> +<li><p>various problems with CERA-20C retrieval</p></li> <li><p>BASETIME retrieval option</p></li> <li><p><cite>CONVERT2</cite> FORTRAN program: initialise fields to 0. (introduced initialization of <code class="docutils literal notranslate"><span class="pre">field</span></code> variable in the Fortran program @@ -267,7 +267,7 @@ with <code class="docutils literal notranslate"><span class="pre">field=0.</span <h3>New Features<a class="headerlink" href="#id3" title="Permalink to this headline">¶</a></h3> <blockquote> <div><ul class="simple"> -<li><p>output of mars requests to an extra file (debugging and documentation)</p></li> +<li><p>output of MARS requests to an extra file (debugging and documentation)</p></li> <li><p>CERA-20C download</p></li> <li><p>ERA 5 download</p></li> <li><p>public user interface with <a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home">ECMWF Web API</a></p></li> @@ -282,7 +282,7 @@ with <code class="docutils literal notranslate"><span class="pre">field=0.</span <h3>New Features<a class="headerlink" href="#id4" title="Permalink to this headline">¶</a></h3> <blockquote> <div><ul class="simple"> -<li><p>Python based version</p></li> +<li><p>Python-based version</p></li> </ul> </div></blockquote> </div> @@ -290,7 +290,7 @@ with <code class="docutils literal notranslate"><span class="pre">field=0.</span <h3>Changes<a class="headerlink" href="#id5" title="Permalink to this headline">¶</a></h3> <blockquote> <div><ul class="simple"> -<li><p>korn shell scripts were substituted by python scripts</p></li> +<li><p>korn shell scripts substituted by Python scripts</p></li> </ul> </div></blockquote> </div> @@ -299,7 +299,7 @@ with <code class="docutils literal notranslate"><span class="pre">field=0.</span <span id="ref-v60"></span><h2>Release v0.1 - v6.0<a class="headerlink" href="#release-v0-1-v6-0" title="Permalink to this headline">¶</a></h2> <blockquote> <div><ul class="simple"> -<li><p>old version which should no longer be used anymore</p></li> +<li><p>old version which should no longer be used</p></li> </ul> </div></blockquote> </div> @@ -316,7 +316,7 @@ with <code class="docutils literal notranslate"><span class="pre">field=0.</span <a href="support.html" class="btn btn-neutral float-right" title="Support" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> - <a href="Developers/gen_docu.html" class="btn btn-neutral float-left" title="Update Documentation" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> + <a href="Developers/gen_docu.html" class="btn btn-neutral float-left" title="Updating the documentation" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> </div> @@ -325,7 +325,7 @@ with <code class="docutils literal notranslate"><span class="pre">field=0.</span <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/dev_guide.html b/Documentation/html/dev_guide.html index 6332d59b50535062499419a5a562ceda99c660b7..0c8112ccbc23fa2940243cceac347efbcee2e12b 100644 --- a/Documentation/html/dev_guide.html +++ b/Documentation/html/dev_guide.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Developer Guide — flex_extract 7.1 alpha documentation</title> + <title>Developer Guide — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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="current reference internal" href="#">Developer Guide</a><ul> <li class="toctree-l2"><a class="reference internal" href="Developers/gen_docu.html">Updating the documentation</a></li> @@ -199,7 +199,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/documentation.html b/Documentation/html/documentation.html index 4fdf428dd2f6b0d7f003d17d79227ca3f241b961..9d1a864e5b8603cba03da701c309026e87ef88ff 100644 --- a/Documentation/html/documentation.html +++ b/Documentation/html/documentation.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Documentation — flex_extract 7.1 alpha documentation</title> + <title>Code-Level Documentation — flex_extract 7.1.1 documentation</title> @@ -39,7 +39,7 @@ <link rel="index" title="Index" href="genindex.html" /> <link rel="search" title="Search" href="search.html" /> <link rel="next" title="Overview" href="Documentation/overview.html" /> - <link rel="prev" title="Link collection" href="Ecmwf/ec-links.html" /> + <link rel="prev" title="Usage" href="quick_start.html" /> </head> <body class="wy-body-for-nav"> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1"><a class="reference internal" href="ecmwf_data.html">ECMWF Data</a></li> -<li class="toctree-l1 current"><a class="current reference internal" href="#">Documentation</a><ul> +<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 current"><a class="current reference internal" href="#">Code-Level Documentation</a><ul> <li class="toctree-l2"><a class="reference internal" href="Documentation/overview.html">Overview</a></li> <li class="toctree-l2"><a class="reference internal" href="Documentation/input.html">Control & input data</a></li> <li class="toctree-l2"><a class="reference internal" href="Documentation/output.html">Output data</a></li> @@ -152,7 +152,7 @@ <li><a href="index.html">Docs</a> »</li> - <li>Documentation</li> + <li>Code-Level Documentation</li> <li class="wy-breadcrumbs-aside"> @@ -171,15 +171,15 @@ <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article"> <div itemprop="articleBody"> - <div class="section" id="documentation"> -<h1>Documentation<a class="headerlink" href="#documentation" title="Permalink to this headline">¶</a></h1> + <div class="section" id="code-level-documentation"> +<h1>Code-Level Documentation<a class="headerlink" href="#code-level-documentation" title="Permalink to this headline">¶</a></h1> <blockquote> <div><p>Overview (under construction)</p> -<p>Control & input data</p> +<p>Scripts, control & input data</p> <p>Output data (under construction)</p> <p>Disaggregation of flux data (under construction)</p> <dl class="simple"> -<dt>Vertical coordinate (under construction)</dt><dd><ul class="simple"> +<dt>Vertical wind (under construction)</dt><dd><ul class="simple"> <li><p>methods (GAUSS, ETA, OMEGA)</p></li> <li><p>calc_etadot</p></li> </ul> @@ -206,7 +206,7 @@ <a href="Documentation/overview.html" class="btn btn-neutral float-right" title="Overview" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> - <a href="Ecmwf/ec-links.html" class="btn btn-neutral float-left" title="Link collection" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> + <a href="quick_start.html" class="btn btn-neutral float-left" title="Usage" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> </div> @@ -215,7 +215,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/ecmwf_data.html b/Documentation/html/ecmwf_data.html index af8de77de3bb241da4dae9d5448ae96033a68275..b5ca88a13e09f99ca4461dbe3071ccab95a6e2bc 100644 --- a/Documentation/html/ecmwf_data.html +++ b/Documentation/html/ecmwf_data.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>ECMWF Data — flex_extract 7.1 alpha documentation</title> + <title>ECMWF Data — flex_extract 7.1.1 documentation</title> @@ -39,7 +39,7 @@ <link rel="index" title="Index" href="genindex.html" /> <link rel="search" title="Search" href="search.html" /> <link rel="next" title="Access modes" href="Ecmwf/access.html" /> - <link rel="prev" title="Quick Start" href="quick_start.html" /> + <link rel="prev" title="Welcome to the flex_extract Documentation!" href="index.html" /> </head> <body class="wy-body-for-nav"> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,8 +89,6 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <li class="toctree-l1 current"><a class="current reference internal" href="#">ECMWF Data</a><ul> <li class="toctree-l2"><a class="reference internal" href="Ecmwf/access.html">Access modes</a></li> <li class="toctree-l2"><a class="reference internal" href="Ecmwf/msdata.html">Available data sets for member-state users</a></li> @@ -99,7 +97,9 @@ <li class="toctree-l2"><a class="reference internal" href="Ecmwf/ec-links.html">Link collection</a></li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -204,7 +204,7 @@ to define the content of the <code class="docutils literal notranslate"><span cl <a href="Ecmwf/access.html" class="btn btn-neutral float-right" title="Access modes" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> - <a href="quick_start.html" class="btn btn-neutral float-left" title="Quick Start" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> + <a href="index.html" class="btn btn-neutral float-left" title="Welcome to the flex_extract Documentation!" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> </div> @@ -213,7 +213,7 @@ to define the content of the <code class="docutils literal notranslate"><span cl <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/evaluation.html b/Documentation/html/evaluation.html index 9a5a54f4e2c2c10f209b4ffe1e509395bc8f271d..5e5e02020d9d4f323f6db68df07c1611e1be3a09 100644 --- a/Documentation/html/evaluation.html +++ b/Documentation/html/evaluation.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Evaluation — flex_extract 7.1 alpha documentation</title> + <title>Evaluation — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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 current"><a class="current reference internal" href="#">Evaluation</a><ul> <li class="toctree-l2"><a class="reference internal" href="Evaluation/staticcode.html">Static code analysis</a></li> <li class="toctree-l2"><a class="reference internal" href="Evaluation/testcases.html">Test cases</a></li> @@ -202,7 +202,7 @@ Currently, evaluation methods can be found in the <a class="reference external" <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/genindex.html b/Documentation/html/genindex.html index 995ea9ee1609c3557a5db7b60bb78362a118fafb..7aa6b98ab0fb896e8769c39e3c975c2651a2f686 100644 --- a/Documentation/html/genindex.html +++ b/Documentation/html/genindex.html @@ -9,7 +9,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Index — flex_extract 7.1 alpha documentation</title> + <title>Index — flex_extract 7.1.1 documentation</title> @@ -62,7 +62,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -88,10 +88,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -856,7 +856,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/index.html b/Documentation/html/index.html index 43b187ce95db3389feacde1dd789677c4d765564..97ce63ad3b749e82defad64dfa41edff329be7ad 100644 --- a/Documentation/html/index.html +++ b/Documentation/html/index.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Welcome to flex_extract’s user documentation! — flex_extract 7.1 alpha documentation</title> + <title>Welcome to the flex_extract Documentation! — flex_extract 7.1.1 documentation</title> @@ -38,7 +38,7 @@ <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="Installation" href="installation.html" /> + <link rel="next" title="ECMWF Data" href="ecmwf_data.html" /> </head> <body class="wy-body-for-nav"> @@ -62,7 +62,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -88,10 +88,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -143,7 +143,7 @@ <li><a href="#">Docs</a> »</li> - <li>Welcome to <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>’s user documentation!</li> + <li>Welcome to the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> Documentation!</li> <li class="wy-breadcrumbs-aside"> @@ -162,22 +162,11 @@ <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article"> <div itemprop="articleBody"> - <div class="section" id="welcome-to-flex-extract-s-user-documentation"> -<h1>Welcome to <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>’s user documentation!<a class="headerlink" href="#welcome-to-flex-extract-s-user-documentation" title="Permalink to this headline">¶</a></h1> + <div class="section" id="welcome-to-the-flex-extract-documentation"> +<h1>Welcome to the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> Documentation!<a class="headerlink" href="#welcome-to-the-flex-extract-documentation" title="Permalink to this headline">¶</a></h1> <p><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> is an open-source software to retrieve meteorological fields from the MARS archive of the European Centre for Medium-Range Weather Forecasts (ECMWF) to serve as input for the FLEXTRA/FLEXPART atmospheric transport modelling system.</p> <table style="width:100%;"> <tr> - <td style="width:30%;height:150px;"> - <div style="width:100%;height:60px;margin-left:20%;position:relative;"> - <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/install_icon.png"> - </div> - <h2><a href="installation.html">Installation</a></h2> - <ul> - <li><a href="installation.html#ref-requirements">Environment requirements</a></li> - <li><a href="installation.html#ref-download">Download flex_extract</a></li> - <li><a href="installation.html#ref-install-fe">Install flex_extract</a></li> - </ul> - </td> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/ecmwf_icon.png"> @@ -191,27 +180,37 @@ </td> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> - <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/prog_icon.png"> + <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/install_icon.png"> </div> - <h2><a href="documentation.html">Documentation</a></h2> + <h2><a href="installation.html">Installation</a></h2> <ul> - <li><a href="Documentation/overview.html">Overview</a></li> - <li><a href="Documentation/input.html">Control & input data</a></li> - <li><a href="Documentation/output.html">Output data</a></li> + <li><a href="installation.html#ref-requirements">Dependencies</a></li> + <li><a href="installation.html#ref-download">Download flex_extract</a></li> + <li><a href="installation.html#ref-install-fe">Install flex_extract</a></li> </ul> </td> - </tr> - <tr> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/guide_icon.png"> </div> - <h2><a href="quick_start.html">Quick Start</a></h2> + <h2><a href="quick_start.html">Usage</a></h2> <ul> <li><a href="quick_start.html#job-preparation">Job preparation</a></li> - <li><a href="quick_start.html#selection-and-adjustment-of-control-files">Handling CONTROL files</a></li> + <li><a href="quick_start.html#selection-and-adjustment-of-control-files">CONTROL files</a></li> <li><a href="quick_start.html#hints-for-definition-of-some-parameter-combinations">Hints on parameter combinations</a></li> </ul> + </td> </tr> + <tr> + <td style="width:30%;height:150px;"> + <div style="width:100%;height:60px;margin-left:20%;position:relative;"> + <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/prog_icon.png"> + </div> + <h2><a href="documentation.html">Code-level documentation</a></h2> + <ul> + <li><a href="Documentation/overview.html">Overview</a></li> + <li><a href="Documentation/input.html">Scripts, control & input data</a></li> + <li><a href="Documentation/output.html">Output data</a></li> + </ul> </td> <td style="width:30%;height:150px;"> <div style="width:100%;height:60px;margin-left:20%;position:relative;"> @@ -228,9 +227,9 @@ <div style="width:100%;height:60px;margin-left:20%;position:relative;"> <img style="position:absolute;height:90%;vertical-align:bottom;" src="_static/dev_icon.png"> </div> - <h2><a href="dev_guide.html">Developer</a></h2> + <h2><a href="dev_guide.html">Developer guide</a></h2> <ul> - <li><a href="Developers/gen_docu.html">Updateing the documentation</a></li> + <li><a href="Developers/gen_docu.html">Updating the documentation</a></li> <li><a href=""></a><Placeholder></li> <li><a href=""></a><Placeholder></li> </ul> @@ -282,6 +281,7 @@ Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</p> <div class="toctree-wrapper compound"> <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> +<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><ul> <li class="toctree-l2"><a class="reference internal" href="installation.html#registration-at-ecmwf">Registration at ECMWF</a></li> <li class="toctree-l2"><a class="reference internal" href="installation.html#accept-licences-for-public-datasets">Accept licences for public datasets</a></li> @@ -296,7 +296,7 @@ Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</p> </li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="quick_start.html">Quick Start</a><ul> +<li class="toctree-l1"><a class="reference internal" href="quick_start.html">Usage</a><ul> <li class="toctree-l2"><a class="reference internal" href="quick_start.html#job-preparation">Job preparation</a><ul> <li class="toctree-l3"><a class="reference internal" href="quick_start.html#remote-and-gateway-modes">Remote and gateway modes</a></li> <li class="toctree-l3"><a class="reference internal" href="quick_start.html#local-mode">Local mode</a></li> @@ -314,8 +314,7 @@ Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</p> </li> </ul> </li> -<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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a><ul> @@ -370,7 +369,7 @@ Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</p> <div class="rst-footer-buttons" role="navigation" aria-label="footer navigation"> - <a href="installation.html" class="btn btn-neutral float-right" title="Installation" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> + <a href="ecmwf_data.html" class="btn btn-neutral float-right" title="ECMWF Data" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> </div> @@ -380,7 +379,7 @@ Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</p> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/installation.html b/Documentation/html/installation.html index e93b2f6af7e5b2345397e4298606a080de2b0881..1985aa7f79de9ba91dee9d7377fedb1ed5889193 100644 --- a/Documentation/html/installation.html +++ b/Documentation/html/installation.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Installation — flex_extract 7.1 alpha documentation</title> + <title>Installation — flex_extract 7.1.1 documentation</title> @@ -39,7 +39,7 @@ <link rel="index" title="Index" href="genindex.html" /> <link rel="search" title="Search" href="search.html" /> <link rel="next" title="Remote mode installation" href="Installation/remote.html" /> - <link rel="prev" title="Welcome to flex_extract’s user documentation!" href="index.html" /> + <link rel="prev" title="Link collection" href="Ecmwf/ec-links.html" /> </head> <body class="wy-body-for-nav"> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,6 +89,7 @@ <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 current"><a class="current reference internal" href="#">Installation</a><ul> <li class="toctree-l2"><a class="reference internal" href="#registration-at-ecmwf">Registration at ECMWF</a></li> <li class="toctree-l2"><a class="reference internal" href="#accept-licences-for-public-datasets">Accept licences for public datasets</a></li> @@ -108,9 +109,8 @@ </li> </ul> </li> -<li class="toctree-l1"><a class="reference internal" href="quick_start.html">Quick Start</a></li> -<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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -282,10 +282,10 @@ </div> <div class="section" id="dependencies"> <span id="ref-requirements"></span><h2>Dependencies<a class="headerlink" href="#dependencies" title="Permalink to this headline">¶</a></h2> -<p>The software required for running <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> depends on the <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application modes</span></a> and therefore is described in the respective specific installation sections.</p> +<p>The software required to run <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> depends on the <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application modes</span></a> and therefore is described in the respective specific installation sections.</p> <p>Generally speaking, <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> requires <a class="reference external" href="https://docs.python.org/3/">Python 3</a> and Fortran together with certain modules / libraries. -We tested <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> with the python3 package from the the GNU/Linux distribution and Anaconda Python. The required python3 modules should prefarably be installed as distribution packages, or alternatively using Python’s own package manager <code class="docutils literal notranslate"><span class="pre">pip</span></code> (this may mess up some aspects of your python installation, especially if you use <code class="docutils literal notranslate"><span class="pre">pip</span></code> as root. Think about using virtual environments.).</p> -<p>Before installing the system packages check the availability with <code class="docutils literal notranslate"><span class="pre">dpkg</span> <span class="pre">-s</span> <span class="pre"><package-name></span> <span class="pre">|</span>  <span class="pre">grep</span> <span class="pre">Status</span></code> or <code class="docutils literal notranslate"><span class="pre">rpm</span> <span class="pre">-q</span> <span class="pre"><package_name></span></code>, depending on your system. For example:</p> +We tested <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> with the Python3 package from the the GNU/Linux distribution and Anaconda Python. The required Python3 modules should prefarably be installed as distribution packages, or alternatively using Python’s own package manager <code class="docutils literal notranslate"><span class="pre">pip</span></code> (this may mess up some aspects of your python installation, especially if you use <code class="docutils literal notranslate"><span class="pre">pip</span></code> as root. Think about using virtual environments.).</p> +<p>Before installing the system packages check the availability with (Debian-based system) <code class="docutils literal notranslate"><span class="pre">dpkg</span> <span class="pre">-s</span> <span class="pre"><package-name></span> <span class="pre">|</span>  <span class="pre">grep</span> <span class="pre">Status</span></code> or (Redhat-based system)``rpm -q <package_name>``. For example:</p> <div class="highlight-sh notranslate"><div class="highlight"><pre><span></span>$ dpkg -s libeccodes-dev <span class="p">|</span> grep Status <span class="c1"># or</span> $ rpm -q libeccodes-dev @@ -340,7 +340,7 @@ STOP SUCCESSFULLY FINISHED calc_etadot: CONGRATULATIONS <div class="section" id="full-test"> <h3>Full test<a class="headerlink" href="#full-test" title="Permalink to this headline">¶</a></h3> <blockquote> -<div><p>see <a class="reference internal" href="quick_start.html"><span class="doc">Quick Start</span></a></p> +<div><p>see <a class="reference internal" href="quick_start.html"><span class="doc">Usage</span></a></p> </div></blockquote> </div> </div> @@ -357,7 +357,7 @@ STOP SUCCESSFULLY FINISHED calc_etadot: CONGRATULATIONS <a href="Installation/remote.html" class="btn btn-neutral float-right" title="Remote mode installation" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> - <a href="index.html" class="btn btn-neutral float-left" title="Welcome to flex_extract’s user documentation!" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> + <a href="Ecmwf/ec-links.html" class="btn btn-neutral float-left" title="Link collection" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> </div> @@ -366,7 +366,7 @@ STOP SUCCESSFULLY FINISHED calc_etadot: CONGRATULATIONS <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/objects.inv b/Documentation/html/objects.inv index b61652e308e78d6f146dc827453ec7d96844023d..bbc9b03bab4eeae44caefa9ad02af7af4a3c06d0 100644 Binary files a/Documentation/html/objects.inv and b/Documentation/html/objects.inv differ diff --git a/Documentation/html/py-modindex.html b/Documentation/html/py-modindex.html index 1654e7a908fcc9b5889babd7e98cabb7721a724b..c1f0bff6130880322ddd546f0729c3cf47d7fc8a 100644 --- a/Documentation/html/py-modindex.html +++ b/Documentation/html/py-modindex.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Python Module Index — flex_extract 7.1 alpha documentation</title> + <title>Python Module Index — flex_extract 7.1.1 documentation</title> @@ -68,7 +68,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -94,10 +94,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -284,7 +284,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/quick_start.html b/Documentation/html/quick_start.html index 893850250b50cd53a7928f0a7360ed948cb9b4fd..1addb3583556f59d3e346367b65054c69c658cce 100644 --- a/Documentation/html/quick_start.html +++ b/Documentation/html/quick_start.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Quick Start — flex_extract 7.1 alpha documentation</title> + <title>Usage — flex_extract 7.1.1 documentation</title> @@ -38,7 +38,7 @@ <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="ECMWF Data" href="ecmwf_data.html" /> + <link rel="next" title="Code-Level Documentation" href="documentation.html" /> <link rel="prev" title="Local mode installation" href="Installation/local.html" /> </head> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,8 +89,9 @@ <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 current"><a class="current reference internal" href="#">Quick Start</a><ul> +<li class="toctree-l1 current"><a class="current reference internal" href="#">Usage</a><ul> <li class="toctree-l2"><a class="reference internal" href="#job-preparation">Job preparation</a><ul> <li class="toctree-l3"><a class="reference internal" href="#remote-and-gateway-modes">Remote and gateway modes</a></li> <li class="toctree-l3"><a class="reference internal" href="#local-mode">Local mode</a></li> @@ -110,8 +111,7 @@ </li> </ul> </li> -<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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -163,7 +163,7 @@ <li><a href="index.html">Docs</a> »</li> - <li>Quick Start</li> + <li>Usage</li> <li class="wy-breadcrumbs-aside"> @@ -182,8 +182,8 @@ <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article"> <div itemprop="articleBody"> - <div class="section" id="quick-start"> -<h1>Quick Start<a class="headerlink" href="#quick-start" title="Permalink to this headline">¶</a></h1> + <div class="section" id="usage"> +<h1>Usage<a class="headerlink" href="#usage" title="Permalink to this headline">¶</a></h1> <p><code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> is a command-line tool. In the first versions, it was started via a korn shell script and since version 6, the entry point was a python script. From version 7.1, a bash shell script was implemented to call <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> with the command-line parameters.</p> <p>To submit an extraction job, change the working directory to the subdirectory <code class="docutils literal notranslate"><span class="pre">Run</span></code> (directly under the <code class="docutils literal notranslate"><span class="pre">flex_extract_vX.X</span></code> root directory, where <code class="docutils literal notranslate"><span class="pre">X.X</span></code> is the version number):</p> <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="nb">cd</span> <path-to-flex_extract_vX.X>/Run @@ -206,7 +206,7 @@ </pre></div> </div> <p>The <code class="docutils literal notranslate"><span class="pre">Jobscripts</span></code> directory is used to store the Korn shell job scripts generated by a <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> run in the <strong>Remote</strong> or <strong>Gateway</strong> mode. They are used to submit the setup information to the ECMWF server and start the jobs in ECMWF’s batch mode. The typical user must not touch these files. They are generated from template files which are stored in the <code class="docutils literal notranslate"><span class="pre">Templates</span></code> directory under <code class="docutils literal notranslate"><span class="pre">flex_extract_vX.X</span></code>. Usually there will be a <code class="docutils literal notranslate"><span class="pre">compilejob.ksh</span></code> and a <code class="docutils literal notranslate"><span class="pre">job.ksh</span></code> script which are explained in the section <a class="reference internal" href="Documentation/input.html"><span class="doc">Control & input data</span></a>. In the rare case of operational data extraction there will be a <code class="docutils literal notranslate"><span class="pre">joboper.ksh</span></code> which reads time information from environment variables at the ECMWF servers.</p> -<p>The <code class="docutils literal notranslate"><span class="pre">Controls</span></code> directory contains a number of sample <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> files. They cover the current range of possible kinds of extractions. Some parameters in the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> files can be adapted and some others should not be changed. In this <a class="reference internal" href="#"><span class="doc">Quick Start</span></a> guide we explain how an extraction with <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> can be started in the different <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application modes</span></a> and point out some specifics of each dataset and <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file.</p> +<p>The <code class="docutils literal notranslate"><span class="pre">Controls</span></code> directory contains a number of sample <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> files. They cover the current range of possible kinds of extractions. Some parameters in the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> files can be adapted and some others should not be changed. In this <a class="reference internal" href="#"><span class="doc">Usage</span></a> guide we explain how an extraction with <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> can be started in the different <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application modes</span></a> and point out some specifics of each dataset and <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file.</p> <p>Directly under <code class="docutils literal notranslate"><span class="pre">Run</span></code> you find the files <code class="docutils literal notranslate"><span class="pre">run.sh</span></code> and <code class="docutils literal notranslate"><span class="pre">run_local.sh</span></code> and according to your selected <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application modes</span></a> there might also be a file named <code class="docutils literal notranslate"><span class="pre">ECMWF_ENV</span></code> for the user credentials to quickly and automatically access ECMWF servers.</p> <p>From version 7.1 on, the <code class="docutils literal notranslate"><span class="pre">run.sh</span></code> (or <code class="docutils literal notranslate"><span class="pre">run_local.sh</span></code>) script is the main entry point to <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>.</p> <div class="admonition note"> @@ -623,7 +623,7 @@ RIGHT <span class="m">180</span>. <div class="rst-footer-buttons" role="navigation" aria-label="footer navigation"> - <a href="ecmwf_data.html" class="btn btn-neutral float-right" title="ECMWF Data" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> + <a href="documentation.html" class="btn btn-neutral float-right" title="Code-Level Documentation" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a> <a href="Installation/local.html" class="btn btn-neutral float-left" title="Local mode installation" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a> @@ -635,7 +635,7 @@ RIGHT <span class="m">180</span>. <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/search.html b/Documentation/html/search.html index 5e757f0354cadae1b43c0f0e45e63514400b3420..9a1d20485d1dd70854c781aa2f278bb3eabc5ed0 100644 --- a/Documentation/html/search.html +++ b/Documentation/html/search.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Search — flex_extract 7.1 alpha documentation</title> + <title>Search — flex_extract 7.1.1 documentation</title> @@ -62,7 +62,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -88,10 +88,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -184,7 +184,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/searchindex.js b/Documentation/html/searchindex.js index f00b92b7cb647e9e7d0c37a820fdf4bb29757995..a19a783f517eea90310756bff022fb35b87391e4 100644 --- a/Documentation/html/searchindex.js +++ b/Documentation/html/searchindex.js @@ -1 +1 @@ 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the documentation","Auto-generated documentation for the Fortran programme","Auto-generated documentation for the Python scripts","CONTROL file changes","The compilation job script <code class=\"docutils literal notranslate\"><span class=\"pre\">compilejob.ksh</span></code>","The CONTROL file","The CONTROL parameters","ECMWF user credential file <code class=\"docutils literal notranslate\"><span class=\"pre\">ECMWF_ENV</span></code>","CONTROL file examples","The Fortran makefile for <code class=\"docutils literal notranslate\"><span class=\"pre\">calc_etadot</span></code>","The job script <code class=\"docutils literal notranslate\"><span class=\"pre\">job.ksh</span></code>","The executable script - <code class=\"docutils literal notranslate\"><span class=\"pre\">run.sh</span></code>","The installation script - <code class=\"docutils literal notranslate\"><span class=\"pre\">setup.sh</span></code>","Templates","Application modes","Program flow","Auto-generated documentation","Disaggregation of flux data","Control & input data","Output data","Overview","Vertical wind","Access modes","Link collection","Hints for data set selection","Available data sets for member-state users","Available data sets for public users","Metrics","Static code analysis","Test cases","Gateway mode installation","Local mode installation","Remote mode installation","FAQ - Frequently asked questions","Known Bugs and Issues","Developer Team","Changelog","Developer Guide","Code-Level Documentation","ECMWF Data","Evaluation","Welcome to the <code class=\"docutils literal notranslate\"><span class=\"pre\">flex_extract</span></code> 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\ No newline at end of file diff --git a/Documentation/html/support.html b/Documentation/html/support.html index d95f9fe4fbf79e47c66a4680cae5179d126db3b4..666510cc539e41800a8f0f965d099dcc0626ac7b 100644 --- a/Documentation/html/support.html +++ b/Documentation/html/support.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>Support — flex_extract 7.1 alpha documentation</title> + <title>Support — flex_extract 7.1.1 documentation</title> @@ -63,7 +63,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -89,10 +89,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul class="current"> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -185,27 +185,25 @@ </div> <div class="section" id="ticket-system"> <span id="ref-ticket-system"></span><h2><a class="toc-backref" href="#id2">Ticket system</a><a class="headerlink" href="#ticket-system" title="Permalink to this headline">¶</a></h2> -<p>The community website <a class="reference external" href="http://flexpart.eu">http://flexpart.eu</a> contains a -<a class="reference external" href="https://www.flexpart.eu/report/1">ticket system</a> which can be used to report any issue or a proposition for a new feature.</p> -<p>The tickets can be viewed by anyone, to create a ticket a registration is necessary. Since the automatic registration is unavailable, please send an email to the <code class="docutils literal notranslate"><span class="pre">flexpart.eu[at]zamg.ac.at</span></code> and you will receive your credentials (with some delay).</p> +<p>The community website <a class="reference external" href="https://flexpart.eu/">https://flexpart.eu/</a> contains a +<a class="reference external" href="https://www.flexpart.eu/report/1">ticket system</a> which can be used to report any issue or to propose new features.</p> +<p>The tickets can be viewed by anyone, to create a ticket a registration is necessary. Since the automatic registration is unavailable, please send an email to the <code class="docutils literal notranslate"><span class="pre">flexpart.eu[at]zamg.ac.at</span></code> and you will receive your credentials (possibly with some delay). Event though a category “Support” is available, in most cases asking questions in the mailing list (see next paragraph below) will be more appropriate.</p> </div> <div class="section" id="mailing-list"> <span id="ref-mailing-list"></span><h2><a class="toc-backref" href="#id3">Mailing list</a><a class="headerlink" href="#mailing-list" title="Permalink to this headline">¶</a></h2> -<p>The mailing list is mainly for the <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> users to ask questions or share experiences regarding the whole <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> process with the community. This can be a lot faster than asking only the developers for help. Since <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> is a preprocessor to <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> this is the right place to ask for help.</p> -<p>Additionally, from time to time, there will be announcements for all FLEXPART users, such as new release versions of <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> or <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>.</p> -<p>Just write a mail to: <code class="docutils literal notranslate"><span class="pre">flexpart[at]lists.univie.ac.at</span></code></p> +<p>A mailing list exists for the <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> users to ask questions or share experiences with the community, regarding the whole <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> process. This may be faster than asking only the developers for help through tickets. Since <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> is a preprocessor to <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> this is the right place to ask for help.</p> +<p>New release versions of <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> or <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> or other important annoucements will also be made through this mailling list. +The subscription process is explained at the bottom of <a class="reference external" href="https://www.flexpart.eu/wiki/RegisteredUser">https://www.flexpart.eu/wiki/RegisteredUser</a>. Once subscribed, write e-mail to <code class="docutils literal notranslate"><span class="pre">flexpart[at]lists.univie.ac.at</span></code> to post to the list.</p> </div> <div class="section" id="reporting-an-issue"> <span id="ref-reporting"></span><h2><a class="toc-backref" href="#id4">Reporting an issue</a><a class="headerlink" href="#reporting-an-issue" title="Permalink to this headline">¶</a></h2> <p>To properly report a problem or bug, please provide as much information as possible. -This includes:</p> -<ul class="simple"> -<li><p>the flex_extract version</p></li> -<li><p>a flex_extract log file (output of submit.py script)</p></li> -<li><p>the CONTROL file</p></li> -<li><p>the commandline arguments or run(_local).sh settings and</p></li> -<li><p>a description of the environment you used (Unix/Linux version, library version, application mode, etc.).</p></li> -</ul> +This includes: +* the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> version +* a <code class="docutils literal notranslate"><span class="pre">flex_extract</span> <span class="pre">log</span></code> file (output of <code class="docutils literal notranslate"><span class="pre">submit.py</span></code> script) +* the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file +* the command-line arguments or <code class="docutils literal notranslate"><span class="pre">run(_local).sh</span></code> settings and +* a description of your environment (Unix/Linux version, library version, application mode, etc.).</p> </div> <div class="section" id="known-bugs-and-issues"> <span id="ref-known-issues"></span><h2><a class="toc-backref" href="#id5">Known bugs and issues</a><a class="headerlink" href="#known-bugs-and-issues" title="Permalink to this headline">¶</a></h2> @@ -237,7 +235,7 @@ This includes:</p> <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/Documentation/html/todo.html b/Documentation/html/todo.html index df9cdab887281b144b9aceac9ff068e544df0387..feb3d584092b5e57ba5801537ac911e7837ebb05 100644 --- a/Documentation/html/todo.html +++ b/Documentation/html/todo.html @@ -8,7 +8,7 @@ <meta name="viewport" content="width=device-width, initial-scale=1.0"> - <title>ToDos — flex_extract 7.1 alpha documentation</title> + <title>ToDos — flex_extract 7.1.1 documentation</title> @@ -61,7 +61,7 @@ <div class="version"> - 7.1 + 7.1.1 </div> @@ -87,10 +87,10 @@ <p class="caption"><span class="caption-text">Table of Contents:</span></p> <ul> -<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">Quick Start</a></li> <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="documentation.html">Documentation</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"><a class="reference internal" href="dev_guide.html">Developer Guide</a></li> <li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li> @@ -201,7 +201,7 @@ <div role="contentinfo"> <p> - © Copyright 2020, Anne Philipp and Leopold Haimberger + © Copyright 2020, Anne Philipp, Leopold Haimberger and Petra Seibert </p> </div> diff --git a/For_developers/Sphinx/source/Developers/gen_docu.rst b/For_developers/Sphinx/source/Developers/gen_docu.rst index bde699516ddf38ad78c8e45e0bb92c3dc651fb98..dc7afe148e8893b997496b9bda0745d8ea4bf7c8 100644 --- a/For_developers/Sphinx/source/Developers/gen_docu.rst +++ b/For_developers/Sphinx/source/Developers/gen_docu.rst @@ -1,6 +1,6 @@ -******************** +************************** Updating the documentation -******************** +************************** UNDER CONSTRUCTION @@ -27,7 +27,7 @@ Developers working on ``flex_extract`` should make extensive use of the prepared On-line documentation with Sphinx -================================ +================================= Use the script ``gen_docu.sh`` to generate an update of the on-line documentation of the Python component. diff --git a/For_developers/Sphinx/source/conf.py b/For_developers/Sphinx/source/conf.py index a5567054c209d5e8201a5807ca746ccd9df18af0..2a077966650a7fd3eb51d737442a437e62a66a4c 100644 --- a/For_developers/Sphinx/source/conf.py +++ b/For_developers/Sphinx/source/conf.py @@ -27,13 +27,13 @@ sys.setrecursionlimit(1500) # -- Project information ----------------------------------------------------- project = u'flex_extract' -copyright = u'2020, Anne Philipp and Leopold Haimberger' -author = u'Anne Philipp and Leopold Haimberger' +copyright = u'2020, Anne Philipp, Leopold Haimberger and Petra Seibert' +author = u'Anne Philipp, Leopold Haimberger and Petra Seibert' # The short X.Y version -version = u'7.1' +version = u'7.1.1' # The full version, including alpha/beta/rc tags -release = u'7.1 alpha' +release = u'7.1.1' # -- General configuration ---------------------------------------------------