From 5bee29ab0b5c9f5512a6605b69fd094a6f083e10 Mon Sep 17 00:00:00 2001
From: anphi <anne.philipp@univie.ac.at>
Date: Mon, 1 Jun 2020 22:41:16 +0200
Subject: [PATCH] new compilation of Sphinx
---
Documentation/html/.buildinfo | 2 +-
Documentation/html/Developers/gen_docu.html | 42 ++++-----
.../html/Documentation/Api/api_fortran.html | 14 +--
.../html/Documentation/Api/api_python.html | 14 +--
.../html/Documentation/Input/changes.html | 14 +--
.../html/Documentation/Input/compilejob.html | 14 +--
.../html/Documentation/Input/control.html | 14 +--
.../Documentation/Input/control_params.html | 14 +--
.../html/Documentation/Input/ecmwf_env.html | 14 +--
.../html/Documentation/Input/examples.html | 14 +--
.../Documentation/Input/fortran_makefile.html | 53 ++++++++---
.../html/Documentation/Input/jobscript.html | 15 ++-
.../html/Documentation/Input/run.html | 14 +--
.../html/Documentation/Input/setup.html | 19 ++--
.../html/Documentation/Input/templates.html | 14 +--
.../Documentation/Overview/app_modes.html | 14 +--
.../Documentation/Overview/prog_flow.html | 14 +--
Documentation/html/Documentation/api.html | 14 +--
Documentation/html/Documentation/disagg.html | 38 ++++----
Documentation/html/Documentation/input.html | 16 ++--
Documentation/html/Documentation/output.html | 14 +--
.../html/Documentation/overview.html | 18 ++--
Documentation/html/Documentation/vertco.html | 14 +--
Documentation/html/Ecmwf/access.html | 12 +--
Documentation/html/Ecmwf/ec-links.html | 16 ++--
Documentation/html/Ecmwf/hintsecmwf.html | 12 +--
Documentation/html/Ecmwf/msdata.html | 12 +--
Documentation/html/Ecmwf/pubdata.html | 12 +--
Documentation/html/Evaluation/metrics.html | 20 ++--
Documentation/html/Evaluation/staticcode.html | 12 +--
Documentation/html/Evaluation/testcases.html | 12 +--
Documentation/html/Installation/gateway.html | 16 ++--
Documentation/html/Installation/local.html | 77 +++++----------
Documentation/html/Installation/remote.html | 20 ++--
Documentation/html/Support/faq.html | 35 ++++---
.../html/Support/known_bugs_issues.html | 24 ++---
Documentation/html/_modules/ControlFile.html | 12 +--
Documentation/html/_modules/EcFlexpart.html | 12 +--
Documentation/html/_modules/GribUtil.html | 12 +--
.../html/_modules/MarsRetrieval.html | 12 +--
Documentation/html/_modules/UioFiles.html | 12 +--
Documentation/html/_modules/checks.html | 12 +--
.../html/_modules/disaggregation.html | 12 +--
.../html/_modules/get_mars_data.html | 12 +--
Documentation/html/_modules/index.html | 12 +--
Documentation/html/_modules/install.html | 12 +--
.../html/_modules/prepare_flexpart.html | 12 +--
Documentation/html/_modules/submit.html | 12 +--
Documentation/html/_modules/tools.html | 12 +--
.../html/_sources/Developers/gen_docu.rst.txt | 18 ++--
.../Input/fortran_makefile.rst.txt | 47 +++++++++-
.../Documentation/Input/jobscript.rst.txt | 1 -
.../Documentation/Input/setup.rst.txt | 5 +-
.../_sources/Documentation/disagg.rst.txt | 24 ++---
.../html/_sources/Installation/local.rst.txt | 88 +++++-------------
.../html/_sources/Installation/remote.rst.txt | 2 +-
.../html/_sources/Support/faq.rst.txt | 17 ++--
.../Support/known_bugs_issues.rst.txt | 15 ++-
Documentation/html/_sources/changelog.rst.txt | 18 ++--
.../html/_sources/documentation.rst.txt | 10 +-
Documentation/html/_sources/index.rst.txt | 55 ++++++-----
.../html/_sources/installation.rst.txt | 33 +------
.../html/_sources/quick_start.rst.txt | 6 +-
Documentation/html/_sources/support.rst.txt | 24 +++--
.../html/_static/documentation_options.js | 2 +-
Documentation/html/authors.html | 12 +--
Documentation/html/changelog.html | 34 +++----
Documentation/html/dev_guide.html | 12 +--
Documentation/html/documentation.html | 26 +++---
Documentation/html/ecmwf_data.html | 16 ++--
Documentation/html/evaluation.html | 12 +--
Documentation/html/genindex.html | 12 +--
Documentation/html/index.html | 71 +++++++-------
Documentation/html/installation.html | 24 ++---
Documentation/html/objects.inv | Bin 7229 -> 7233 bytes
Documentation/html/py-modindex.html | 12 +--
Documentation/html/quick_start.html | 24 ++---
Documentation/html/search.html | 12 +--
Documentation/html/searchindex.js | 2 +-
Documentation/html/support.html | 38 ++++----
Documentation/html/todo.html | 12 +--
.../Sphinx/source/Developers/gen_docu.rst | 6 +-
For_developers/Sphinx/source/conf.py | 8 +-
83 files changed, 756 insertions(+), 791 deletions(-)
diff --git a/Documentation/html/.buildinfo b/Documentation/html/.buildinfo
index 6e1646e..48a3106 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 2d111da..de9a15c 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 baeb75a..a4d2f92 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 c13b3d6..b99d3b9 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 8c180ee..264eda3 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 2f34ede..7e3061f 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 9433ec1..4ae1207 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 93b27d5..52af3e4 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 1dbd81a..db8373a 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 262c550..d9f5d60 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 a7061a6..3d331fb 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 b213e30..058dd5e 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 787e6b6..6aa4c57 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 b84014e..425b45c 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 0dfedfb..72a9af3 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 1e436e6..e29f2fa 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 279c36d..42570c4 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 c87c3b7..fbe7fb5 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 7f0cb74..3ad7339 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 4a3873d..b799afb 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 e11aa69..463712a 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 6207562..7ed1447 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 7635340..369a393 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 0d880c7..055965d 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 ef9cad8..322312f 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 697c36c..d749c68 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 9e5eefb..5209689 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 32205a9..46b69a4 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 bb80168..2986296 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 4dd23bc..9d2673e 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 9440144..14246cb 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 43725a5..ec56114 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 7684e46..650175a 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 10d265e..33e7324 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 9d3b481..6a0de91 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 68a7509..8f166fd 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 2affed2..8fad03c 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 c3fb488..789f353 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 446c248..3506e58 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 77cc971..d61076c 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 a0fc159..3c25272 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 17ab1e5..2bcab08 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 a89c057..001f47a 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 584c5c7..d7abc19 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 f833113..e094c37 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 6187f4f..31f7762 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 1624023..86971b2 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 2023047..f61eb0a 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 a6eb2c2..0222c7c 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 dd4959c..bde6995 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 b88cbd4..7b377d7 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 24ef07e..6a8b760 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 7160ae8..ee4469d 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 5a035f8..64a3e3d 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 6a7cecc..5e20d27 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 a5f8634..95f0c63 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 616850d..bda2f51 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 aab5e63..7e2ba0b 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 dc8b3d3..b3f98e0 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 c7c8fc7..e2e3e56 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 be0f055..65e1911 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 c78d366..6a0c8a5 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 5b927c2..baa36ca 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 1bfcc5e..1a11e5f 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 20b9bd7..3efa030 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 763a5e0..1ca2cbc 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 9f06cd8..a0eab66 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 6332d59..0c8112c 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 4fdf428..9d1a864 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 af8de77..b5ca88a 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 9a5a54f..5e5e020 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 995ea9e..7aa6b98 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 43b187c..97ce63a 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 e93b2f6..1985aa7 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>
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diff --git a/Documentation/html/py-modindex.html b/Documentation/html/py-modindex.html
index 1654e7a..c1f0bff 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 8938502..1addb35 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 5e757f0..9a1d204 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 f00b92b..a19a783 100644
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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> Documentation!","Installation","Usage","Support","ToDos"],titleterms:{"case":29,"class":2,"new":[19,36],"public":[26,42,43],"static":28,CDS:[31,34],The:[4,5,6,9,10,11,12],accept:42,access:22,addit:[0,6,19],adjust:43,agreement:[],analysi:28,api:[31,34],applic:[14,15],ask:33,auto:[1,2,16],avail:[24,25,26],block:0,bug:[34,36,44],calc_etadot:[9,19,34],calcul:21,can:[24,33],cera:43,certain:43,chang:[3,36],changelog:36,check:2,code:[28,34,38],collect:23,combin:[42,43],comparison:29,compil:4,compilejob:[4,13],content:[7,11,12,19],continu:21,control:[3,5,6,8,18,43],controlfil:2,convert:13,coordin:[],credenti:7,data:[6,17,18,19,24,25,26,34,39,43],dataset:[42,43],definit:43,depend:[30,31,32,42],destin:34,develop:[35,37],diagramm:0,differ:15,disaggreg:[2,17,19],distribut:33,document:[0,1,2,16,38,41],doe:[4,10],domain:6,download:42,eccod:34,ecflexpart:2,ecmwf:[7,31,39,42],ecmwf_env:[7,13],ensembl:19,environ:[30,31,32],equat:21,era5:34,era:43,error:34,evalu:40,exampl:[4,5,8,10,15],execut:11,faq:[33,44],featur:[36,43],field:[6,17,19],file:[3,5,6,7,8,19,21,29,43],find:24,finder:[],fix:36,flex_extract:[41,42],flexpart:[19,42],flow:15,flux:[6,17,19],forecast:19,format:5,fort:19,fortran:[1,9,19,34,42],frequent:33,from:[21,33],full:42,gatewai:[30,34,43],gener:[1,2,6,15,16],get_mars_data:2,grib:[19,29],gributil:2,guid:37,hint:[24,43],horizont:21,how:24,index:19,input:[18,19],instal:[2,12,30,31,32,33,34,42],interim:43,issu:[34,44],job:[4,10,13,43],jobscript:10,known:[34,44],ksh:[4,10],level:[25,38],librari:33,licenc:42,line:0,link:23,list:44,local:[15,31,43],mail:44,makefil:9,mar:[19,21,29],marsretriev:2,member:[15,25],metric:27,mode:[14,15,22,30,31,32,43],model:25,modul:2,older:17,onlin:[],oper:43,option:[11,12],other:17,out:24,output:[19,21],overview:20,packag:33,paramet:[6,11,12,21,34,43],parti:33,pre:21,precipit:[17,19],predict:19,prepar:[21,30,31,32,43],prepare_flexpart:2,problem:34,program:[2,15,19,34,42],programm:1,proper:43,pure:19,python:2,question:33,quick:[],registr:42,releas:[34,36],remot:[32,43],report:44,request:[19,29],rest:[],retriev:[],run:11,script:[2,4,10,11,12],section:6,select:[24,43],sequenc:0,set:[15,24,25,26],setup:12,softwar:0,some:[],specif:43,specifi:[],sphinx:0,standard:19,start:[],state:25,submiss:11,submit:[2,11],support:44,surfac:25,system:44,team:35,temp:13,templat:13,temporari:19,test:[29,30,31,42],testcas:[],third:33,ticket:44,time:6,todo:[8,19,43,45],tool:2,uiofil:2,updat:0,usag:[11,12,43],user:[6,7,15,25,26],using:21,veloc:21,version:17,vertic:[6,19,21],web:31,welcom:41,what:[4,10,24,33],wind:[6,21],workflow:15}})
\ No newline at end of file
diff --git a/Documentation/html/support.html b/Documentation/html/support.html
index d95f9fe..666510c 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 df9cdab..feb3d58 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 bde6995..dc7afe1 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 a556705..2a07796 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 ---------------------------------------------------
--
GitLab