Index: Documentation/html/.buildinfo
===================================================================
--- Documentation/html/.buildinfo	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
+++ Documentation/html/.buildinfo	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -0,0 +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: 4fe8dea6f5157d998485e509f35babce
+tags: 645f666f9bcd5a90fca523b33c5a78b7
Index: Documentation/html/Documentation/Api/api_python.html
===================================================================
--- Documentation/html/Documentation/Api/api_python.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Documentation/Api/api_python.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -2216,7 +2216,15 @@
 <em class="property">class </em><code class="descclassname">GribUtil.</code><code class="descname">GribUtil</code><span class="sig-paren">(</span><em>filenames</em><span class="sig-paren">)</span><a class="reference internal" href="../../_modules/GribUtil.html#GribUtil"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#GribUtil.GribUtil" title="Permalink to this definition">¶</a></dt>
 <dd><p>Class for GRIB utilities (new methods) based on GRIB API</p>
+<p>The GRIB API provides all necessary tools to work directly with the
+grib files. Nevertheless, the GRIB API tools are very basic and are in
+direct connection with the grib files. This class provides some higher
+functions which apply a set of GRIB API tools together in the respective
+context. So, the class initially contains a list of grib files (their
+names) and the using program then applies the methods directly on the
+class objects without having to think about how the actual GRIB API
+tools have to be arranged.</p>
 <dl class="method">
 <dt id="GribUtil.GribUtil.copy_dummy_msg">
-<code class="descname">copy_dummy_msg</code><span class="sig-paren">(</span><em>filename_in</em>, <em>selectWhere=True</em>, <em>keynames=[]</em>, <em>keyvalues=[]</em>, <em>filemode='w'</em><span class="sig-paren">)</span><a class="reference internal" href="../../_modules/GribUtil.html#GribUtil.copy_dummy_msg"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#GribUtil.GribUtil.copy_dummy_msg" title="Permalink to this definition">¶</a></dt>
+<code class="descname">copy_dummy_msg</code><span class="sig-paren">(</span><em>filename_in</em>, <em>selectWhere=True</em>, <em>keynames=[]</em>, <em>keyvalues=[]</em>, <em>filemode='wb'</em><span class="sig-paren">)</span><a class="reference internal" href="../../_modules/GribUtil.html#GribUtil.copy_dummy_msg"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#GribUtil.GribUtil.copy_dummy_msg" title="Permalink to this definition">¶</a></dt>
 <dd><p>Add the content of another input grib file to the objects file but
 only messages corresponding to keys/values passed to the function.
@@ -2234,5 +2242,5 @@
 <li><strong>keynames</strong> (<code class="xref py py-obj docutils literal notranslate"><span class="pre">list</span></code> of <code class="xref py py-obj docutils literal notranslate"><span class="pre">string</span></code>, optional) – List of keynames. Default is an empty list.</li>
 <li><strong>keyvalues</strong> (<code class="xref py py-obj docutils literal notranslate"><span class="pre">list</span></code> of <code class="xref py py-obj docutils literal notranslate"><span class="pre">string</span></code>, optional) – List of keyvalues. Default is an empty list.</li>
-<li><strong>filemode</strong> (<code class="xref py py-obj docutils literal notranslate"><span class="pre">string</span></code>, optional) – Sets the mode for the output file. Default is “w”.</li>
+<li><strong>filemode</strong> (<code class="xref py py-obj docutils literal notranslate"><span class="pre">string</span></code>, optional) – Sets the mode for the output file. Default is “wb”.</li>
 </ul>
 </td>
@@ -2298,5 +2306,5 @@
 <dl class="method">
 <dt id="GribUtil.GribUtil.set_keys">
-<code class="descname">set_keys</code><span class="sig-paren">(</span><em>fromfile</em>, <em>keynames</em>, <em>keyvalues</em>, <em>wherekeynames=[]</em>, <em>wherekeyvalues=[]</em>, <em>strict=False</em>, <em>filemode='w'</em><span class="sig-paren">)</span><a class="reference internal" href="../../_modules/GribUtil.html#GribUtil.set_keys"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#GribUtil.GribUtil.set_keys" title="Permalink to this definition">¶</a></dt>
+<code class="descname">set_keys</code><span class="sig-paren">(</span><em>fromfile</em>, <em>keynames</em>, <em>keyvalues</em>, <em>wherekeynames=[]</em>, <em>wherekeyvalues=[]</em>, <em>strict=False</em>, <em>filemode='wb'</em><span class="sig-paren">)</span><a class="reference internal" href="../../_modules/GribUtil.html#GribUtil.set_keys"><span class="viewcode-link">[source]</span></a><a class="headerlink" href="#GribUtil.GribUtil.set_keys" title="Permalink to this definition">¶</a></dt>
 <dd><p>Opens the file to read the grib messages and then write
 the selected messages (with wherekeys) to a new output file.
@@ -2319,5 +2327,5 @@
 is written out the grib file (False) or only those
 meeting the where statement (True). Default is False.</li>
-<li><strong>filemode</strong> (<code class="xref py py-obj docutils literal notranslate"><span class="pre">string</span></code>, optional) – Sets the mode for the output file. Default is “w”.</li>
+<li><strong>filemode</strong> (<code class="xref py py-obj docutils literal notranslate"><span class="pre">string</span></code>, optional) – Sets the mode for the output file. Default is “wb”.</li>
 </ul>
 </td>
Index: Documentation/html/Documentation/Input/control.html
===================================================================
--- Documentation/html/Documentation/Input/control.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Documentation/Input/control.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -227,4 +227,124 @@
 detailed description with additional hints, possible values and some useful information about
 the setting of these parameters.</p>
+<div class="literal-block-wrapper docutils container" id="id1">
+<div class="code-block-caption"><span class="caption-text">CONTROL.documentation</span><a class="headerlink" href="#id1" title="Permalink to this code">¶</a></div>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1">################################################################################</span>
+<span class="c1"># Comprehensive list of relevant CONTROL file parameters with</span>
+<span class="c1"># short descriptions and default values. </span>
+<span class="c1">#</span>
+<span class="c1"># For more details on how to select and define parameters </span>
+<span class="c1"># please see Table of CONTROLparameters. </span>
+<span class="c1">#</span>
+<span class="c1"># AUTHOR: Anne Philipp</span>
+<span class="c1"># DATE:   05. February 2019</span>
+<span class="c1">################################################################################</span>
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># USER SECTION:</span>
+<span class="c1"># User specific information for ECMWF server.</span>
+<span class="c1"># Information are needed for storage or data transfer to local gateway server.</span>
+<span class="c1"># (OPTIONAL: INFORMATION ARE KNOWN THROUGH EXTRA FILE AFTER INSTALLATION)</span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+ECUID None
+ECGID None
+DESTINATION None
+GATEWAY None
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># GENERAL SECTION:</span>
+<span class="c1"># Specific storage, notification and data transfer settings.</span>
+<span class="c1"># Selection of ECMWF access interface and extra output options. </span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+DEBUG <span class="m">0</span>
+REQUEST <span class="m">0</span>
+PUBLIC <span class="m">0</span>
+OPER <span class="m">0</span>
+ECSTORAGE <span class="m">0</span>
+ECTRANS <span class="m">0</span>
+PREFIX <span class="s1">&#39;EN&#39;</span>
+ECFSDIR <span class="s1">&#39;ectmp:/${USER}/econdemand/&#39;</span>
+MAILFAIL <span class="o">[</span><span class="s1">&#39;${USER}&#39;</span><span class="o">]</span>
+MAILOPS <span class="o">[</span><span class="s1">&#39;${USER}&#39;</span><span class="o">]</span>
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># TIME SECTION:</span>
+<span class="c1"># Selection of time period and temporal resolution for extraction period.</span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+START_DATE 
+END_DATE
+DATE_CHUNK <span class="m">3</span>
+DTIME None
+BASETIME None
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># DATA SECTION:</span>
+<span class="c1"># General description of data set.</span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+CLASS None
+DATASET None
+STREAM None
+NUMBER <span class="s1">&#39;OFF&#39;</span>
+EXPVER <span class="s1">&#39;1&#39;</span>
+FORMAT <span class="s1">&#39;GRIB1&#39;</span>
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># DATA FIELDS SECTION:</span>
+<span class="c1"># Specific selection of field composition regarding type, analysis or forecast </span>
+<span class="c1"># time and the forecast time step.</span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+TYPE None
+TIME None
+STEP None
+MAXSTEP None
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># FLUX DATA FIELDS SECTION:</span>
+<span class="c1"># Specific selection of flux field composition regarding forecast field type</span>
+<span class="c1"># the forecast start times and the maximum forecast step per start time.</span>
+<span class="c1"># Specification of disaggregation method of precipitation data.</span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+ACCTYPE None
+ACCTIME None
+ACCMAXSTEP None
+RRINT <span class="m">0</span>
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># DOMAIN SECTION: </span>
+<span class="c1"># Definition of horizontal area, spatial resolution and vertical levels. </span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+GRID None
+RESOL None
+SMOOTH <span class="m">0</span>
+LEFT None
+LOWER None
+UPPER None
+RIGHT None
+LEVEL None
+LEVELIST None
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># VERTICAL WIND SECTION:</span>
+<span class="c1"># Selection of vertical wind calculation method.</span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+GAUSS <span class="m">0</span>
+ACCURACY <span class="m">24</span>
+OMEGA <span class="m">0</span>
+OMEGADIFF <span class="m">0</span>
+ETA <span class="m">0</span>
+ETADIFF <span class="m">0</span>
+DPDETA <span class="m">1</span>
+ETAPAR <span class="m">77</span>
+
+<span class="c1">#===============================================================================</span>
+<span class="c1"># ADDITIONAL DATA SECTION:</span>
+<span class="c1"># Specification of extra data fields to be extracted.</span>
+<span class="c1">#-------------------------------------------------------------------------------</span>
+CWC <span class="m">0</span>
+WRF <span class="m">0</span>
+DOUBLEELDA <span class="m">0</span> 
+ADDPAR None
+</pre></div>
+</div>
+</div>
 <div class="toctree-wrapper compound">
 </div>
Index: Documentation/html/Documentation/Input/control_params.html
===================================================================
--- Documentation/html/Documentation/Input/control_params.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Documentation/Input/control_params.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -422,17 +422,4 @@
 </td>
 </tr>
-<tr class="row-odd"><td><p class="first last">MAILFAIL</p>
-</td>
-<td><p class="first last">list of String [m1, m2, …]</p>
-</td>
-<td><p class="first last">any number of mail addresses, seperated by comma</p>
-</td>
-<td><p class="first last">[‘”${USER}”]</p>
-</td>
-<td><p class="first last">If there will be an error log on ECMWF servers, the log file will be sent to the list of emails stored in this parameter. The email addresses should be seperated by a comma.</p>
-</td>
-<td><p class="first last">For the ECMWF server it is enough to give ${USER} as input. On local system an actual email is prefered to operate correctly. </p>
-</td>
-</tr>
 </tbody>
 </table>
@@ -1092,18 +1079,5 @@
 </thead>
 <tbody valign="top">
-<tr class="row-even"><td><p class="first last">WRF</p>
-</td>
-<td><p class="first last">Integer</p>
-</td>
-<td><p class="first last">[0,1]</p>
-</td>
-<td><p class="first last">0</p>
-</td>
-<td><p class="first last">Switch to retrieve additional parameters needed to run WRF (1) or not (0).</p>
-</td>
-<td><p class="first last">Up to now, this is still experimental and not completely tested.</p>
-</td>
-</tr>
-<tr class="row-odd"><td><p class="first last">CWC</p>
+<tr class="row-even"><td><p class="first last">CWC</p>
 </td>
 <td><p class="first last">Integer</p>
@@ -1118,5 +1092,5 @@
 </td>
 </tr>
-<tr class="row-even"><td><p class="first last">DOUBLEELDA</p>
+<tr class="row-odd"><td><p class="first last">DOUBLEELDA</p>
 </td>
 <td><p class="first last">Integer</p>
@@ -1131,5 +1105,5 @@
 </td>
 </tr>
-<tr class="row-odd"><td><p class="first last">ADDPAR</p>
+<tr class="row-even"><td><p class="first last">ADDPAR</p>
 </td>
 <td><p class="first last">String [p1/p2/../pn]</p>
Index: Documentation/html/Documentation/Input/ecmwf_env.html
===================================================================
--- Documentation/html/Documentation/Input/ecmwf_env.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Documentation/Input/ecmwf_env.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -194,5 +194,5 @@
   <div class="section" id="ecmwf-user-credential-file-ecmwf-env">
 <h1>ECMWF User Credential file <code class="docutils literal notranslate"><span class="pre">ECMWF_ENV</span></code><a class="headerlink" href="#ecmwf-user-credential-file-ecmwf-env" title="Permalink to this headline">¶</a></h1>
-<p>This file contains the user credentials for working on ECMWF servers and transfering files between the ECMWF servers and the local gateway server. It is located in the <code class="docutils literal notranslate"><span class="pre">flex_extract_vX.X/run</span></code> directory and will be created in the installation process for the application modes <strong>remote</strong> and <strong>gateway</strong>.</p>
+<p>This file contains the user credentials for working on ECMWF servers and transferring files between the ECMWF servers and the local gateway server. It is located in the <code class="docutils literal notranslate"><span class="pre">flex_extract_vX.X/run</span></code> directory and will be created in the installation process for the application modes <strong>remote</strong> and <strong>gateway</strong>.</p>
 <p>This file is based on the template <code class="docutils literal notranslate"><span class="pre">ECMWF_ENV.template</span></code> which is located in the <code class="docutils literal notranslate"><span class="pre">templates</span></code> directory.</p>
 <div class="admonition note">
Index: Documentation/html/Documentation/Input/fortran_makefile.html
===================================================================
--- Documentation/html/Documentation/Input/fortran_makefile.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Documentation/Input/fortran_makefile.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -227,5 +227,5 @@
 </div></blockquote>
 <p>For instructions on how to adapt the <code class="docutils literal notranslate"><span class="pre">Makefiles</span></code> for the local application mode
-please see <a class="reference internal" href="../../installation.html#ref-install-local"><span class="std std-ref">Local installation</span></a>.</p>
+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>
Index: Documentation/html/Documentation/Input/run.html
===================================================================
--- Documentation/html/Documentation/Input/run.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Documentation/Input/run.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -478,4 +478,111 @@
 <div class="section" id="content-of-run-sh">
 <h2>Content of <code class="docutils literal notranslate"><span class="pre">run.sh</span></code><a class="headerlink" href="#content-of-run-sh" title="Permalink to this headline">¶</a></h2>
+<div class="literal-block-wrapper docutils container" id="id2">
+<div class="code-block-caption"><span class="caption-text">run.sh</span><a class="headerlink" href="#id2" title="Permalink to this code">¶</a></div>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="ch">#!/bin/bash</span>
+<span class="c1">#</span>
+<span class="c1"># @Author: Anne Philipp</span>
+<span class="c1">#</span>
+<span class="c1"># @Date: October, 4 2018</span>
+<span class="c1">#</span>
+<span class="c1"># @Description: </span>
+<span class="c1">#</span>
+
+
+<span class="c1"># -----------------------------------------------------------------</span>
+<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
+<span class="c1"># </span>
+<span class="c1"># THE USER HAS TO SPECIFY THESE PARAMETERS:</span>
+
+<span class="nv">QUEUE</span><span class="o">=</span><span class="s1">&#39;ecgate&#39;</span>
+<span class="nv">START_DATE</span><span class="o">=</span>None
+<span class="nv">END_DATE</span><span class="o">=</span>None
+<span class="nv">DATE_CHUNK</span><span class="o">=</span>None
+<span class="nv">JOB_CHUNK</span><span class="o">=</span><span class="m">3</span>
+<span class="nv">BASETIME</span><span class="o">=</span>None
+<span class="nv">STEP</span><span class="o">=</span>None
+<span class="nv">LEVELIST</span><span class="o">=</span>None
+<span class="nv">AREA</span><span class="o">=</span>None
+<span class="nv">INPUTDIR</span><span class="o">=</span>None
+<span class="nv">OUTPUTDIR</span><span class="o">=</span>None
+<span class="nv">PP_ID</span><span class="o">=</span>None
+<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.temp&#39;</span> 
+<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_OD.OPER.FC.gauss.global&#39;</span> 
+<span class="nv">DEBUG</span><span class="o">=</span><span class="m">0</span>
+<span class="nv">REQUEST</span><span class="o">=</span><span class="m">2</span>
+<span class="nv">PUBLIC</span><span class="o">=</span><span class="m">0</span>
+
+<span class="c1"># -----------------------------------------------------------------</span>
+<span class="c1">#</span>
+<span class="c1"># AFTER THIS LINE THE USER DOES NOT HAVE TO CHANGE ANYTHING !!!</span>
+<span class="c1">#</span>
+<span class="c1"># -----------------------------------------------------------------</span>
+
+<span class="c1"># PATH TO SUBMISSION SCRIPT</span>
+<span class="nv">pyscript</span><span class="o">=</span>../Source/Python/submit.py
+
+<span class="c1"># INITIALIZE EMPTY PARAMETERLIST</span>
+<span class="nv">parameterlist</span><span class="o">=</span><span class="s2">&quot;&quot;</span>
+
+<span class="c1"># CHECK FOR MORE PARAMETER </span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$START_DATE</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --start_date=</span><span class="nv">$START_DATE</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$END_DATE</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --end_date=</span><span class="nv">$END_DATE</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$DATE_CHUNK</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --date_chunk=</span><span class="nv">$DATE_CHUNK</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$JOB_CHUNK</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --job_chunk=</span><span class="nv">$JOB_CHUNK</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$BASETIME</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --basetime=</span><span class="nv">$BASETIME</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$STEP</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --step=</span><span class="nv">$STEP</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$LEVELIST</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --levelist=</span><span class="nv">$LEVELIST</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$AREA</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --area=</span><span class="nv">$AREA</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$INPUTDIR</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --inputdir=</span><span class="nv">$INPUTDIR</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$OUTPUTDIR</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --outputdir=</span><span class="nv">$OUTPUTDIR</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$PP_ID</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --ppid=</span><span class="nv">$PP_ID</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$JOB_TEMPLATE</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --job_template=</span><span class="nv">$JOB_TEMPLATE</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$QUEUE</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --queue=</span><span class="nv">$QUEUE</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$CONTROLFILE</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --controlfile=</span><span class="nv">$CONTROLFILE</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$DEBUG</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --debug=</span><span class="nv">$DEBUG</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$REQUEST</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --request=</span><span class="nv">$REQUEST</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+<span class="k">if</span> <span class="o">[</span> -n <span class="s2">&quot;</span><span class="nv">$PUBLIC</span><span class="s2">&quot;</span> <span class="o">]</span><span class="p">;</span> <span class="k">then</span>
+  <span class="nv">parameterlist</span><span class="o">+=</span><span class="s2">&quot; --public=</span><span class="nv">$PUBLIC</span><span class="s2">&quot;</span>
+<span class="k">fi</span>
+
+<span class="c1"># -----------------------------------------------------------------</span>
+<span class="c1"># CALL SCRIPT WITH DETERMINED COMMANDLINE ARGUMENTS</span>
+
+<span class="nv">$pyscript</span> <span class="nv">$parameterlist</span>
+</pre></div>
+</div>
+</div>
 </div>
 <div class="section" id="usage-of-submit-py-optional">
Index: Documentation/html/Documentation/Overview/app_modes.html
===================================================================
--- Documentation/html/Documentation/Overview/app_modes.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Documentation/Overview/app_modes.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -99,5 +99,4 @@
 </li>
 <li class="toctree-l3"><a class="reference internal" href="prog_flow.html">Program Flow</a></li>
-<li class="toctree-l3"><a class="reference internal" href="convert.html">CONVERT</a></li>
 </ul>
 </li>
@@ -199,5 +198,5 @@
 <li><dl class="first docutils">
 <dt>Gateway (member)</dt>
-<dd>The <strong>Gateway mode</strong> can be used if a local member state gateway server is in place. Then the job scripts can be submitted to the ECMWF Linux member state server via the ECMWF web access tool <code class="docutils literal notranslate"><span class="pre">ecaccess</span></code>. The installation script of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> must be executed at the local gateway server such that the software will be installed in the <code class="docutils literal notranslate"><span class="pre">$HOME</span></code> directory at the ECMWF server and some extra setup is done in the local <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> directory at the local gateway server. For more information about establishing a gateway server please see section ???. For the <strong>Gateway mode</strong> the necessary environment has to be established which is described in <a class="reference internal" href="../../installation.html#ref-prep-gateway"><span class="std std-ref">Prepare gateway environment</span></a>.</dd>
+<dd>The <strong>Gateway mode</strong> can be used if a local member state gateway server is in place. Then the job scripts can be submitted to the ECMWF Linux member state server via the ECMWF web access tool <code class="docutils literal notranslate"><span class="pre">ecaccess</span></code>. The installation script of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> must be executed at the local gateway server such that the software will be installed in the <code class="docutils literal notranslate"><span class="pre">$HOME</span></code> directory at the ECMWF server and some extra setup is done in the local <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> directory at the local gateway server. For more information about establishing a gateway server please see section ???. For the <strong>Gateway mode</strong> the necessary environment has to be established which is described in <a class="reference internal" href="../../Installation/gateway.html#ref-prep-gateway"><span class="std std-ref">Prepare gateway environment</span></a>.</dd>
 </dl>
 </li>
@@ -208,10 +207,10 @@
 <li><dl class="first docutils">
 <dt>Local member</dt>
-<dd>Scripts are installed and executed on a local machine, either in the current <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> directory or in a path given to the installation script. Under this scenario a software environment similar to that at ECMWF is required. Additionally, Web API’s have to be installed to access ECMWF server. The complete installation process is described in <a class="reference internal" href="../../installation.html#ref-local-mode"><span class="std std-ref">Local mode</span></a>.</dd>
+<dd>Scripts are installed and executed on a local machine, either in the current <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> directory or in a path given to the installation script. Under this scenario a software environment similar to that at ECMWF is required. Additionally, Web API’s have to be installed to access ECMWF server. The complete installation process is described in <a class="reference internal" href="../../Installation/local.html#ref-local-mode"><span class="std std-ref">Local mode</span></a>.</dd>
 </dl>
 </li>
 <li><dl class="first docutils">
 <dt>Local public</dt>
-<dd>Scripts are installed and executed on a local machine, either in the current <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> directory or in a path given to the installation script. Under this scenario a software environment similar to that at ECMWF is required. Additionally, Web API’s have to be installed to access ECMWF server. The complete installation process is described in <a class="reference internal" href="../../installation.html#ref-local-mode"><span class="std std-ref">Local mode</span></a>. In this case a direct registration at ECMWF is necessary and the user has to accept a specific license agreement for each dataset he/she intends to retrieve.</dd>
+<dd>Scripts are installed and executed on a local machine, either in the current <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> directory or in a path given to the installation script. Under this scenario a software environment similar to that at ECMWF is required. Additionally, Web API’s have to be installed to access ECMWF server. The complete installation process is described in <a class="reference internal" href="../../Installation/local.html#ref-local-mode"><span class="std std-ref">Local mode</span></a>. In this case a direct registration at ECMWF is necessary and the user has to accept a specific license agreement for each dataset he/she intends to retrieve.</dd>
 </dl>
 </li>
Index: Documentation/html/Ecmwf/access.html
===================================================================
--- Documentation/html/Ecmwf/access.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Ecmwf/access.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -182,5 +182,5 @@
 <dd>This access mode allows the user to work directly on the ECMWF Linux Member State Servers or via a Web Access Toolkit <code class="docutils literal notranslate"><span class="pre">ecaccess</span></code> through a local Member State Gateway Server. This enables the user to have direct and full access to the Mars archive. There might be some limitations in user rights such as the declined access to the latest forecasts. This has to be discussed with the <a class="reference external" href="https://www.ecmwf.int/en/about/contact-us/computing-representatives">Computing Representative</a>. This user group is also able to work from their local facilities without a gateway server in the same way a <strong>public</strong> user would. The only difference is the connection with the Web API. However, this is automatically selected by <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>.</dd>
 <dt><strong>Public user</strong>:</dt>
-<dd>This access mode allows every user to access the ECMWF <a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/Available+ECMWF+Public+Datasets">public datasets</a> from their local facilities. <code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> is able (tested for the use with <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code>) to extract the re-analysis datasets such as ERA-Interim and CERA-20C. The main difference to the <strong>member state user</strong> is the method of access with the Web API and the availability of data. For example, in ERA-Interim there is only a 6-hourly temporal resolution instead of 3 hours. The access method is selected by providing the command line argument “public=1” and providing the MARS keyword “dataset” in the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file. Also, the user has to explicitly accept the license of the dataset to be retrieved. This can be done as described in the installation process at section <a class="reference internal" href="../installation.html#ref-licence"><span class="std std-ref">Agree on licences for public datasets</span></a>.</dd>
+<dd>This access mode allows every user to access the ECMWF <a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/Available+ECMWF+Public+Datasets">public datasets</a> from their local facilities. <code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> is able (tested for the use with <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code>) to extract the re-analysis datasets such as ERA-Interim and CERA-20C. The main difference to the <strong>member state user</strong> is the method of access with the Web API and the availability of data. For example, in ERA-Interim there is only a 6-hourly temporal resolution instead of 3 hours. The access method is selected by providing the command line argument “public=1” and providing the MARS keyword “dataset” in the <code class="docutils literal notranslate"><span class="pre">CONTROL</span></code> file. Also, the user has to explicitly accept the license of the dataset to be retrieved. This can be done as described in the installation process at section <a class="reference internal" href="../installation.html#ref-licence"><span class="std std-ref">Licence agreement for public datasets</span></a>.</dd>
 </dl>
 <div class="admonition note">
Index: Documentation/html/Installation/gateway.html
===================================================================
--- Documentation/html/Installation/gateway.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
+++ Documentation/html/Installation/gateway.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -0,0 +1,335 @@
+
+
+<!DOCTYPE html>
+<!--[if IE 8]><html class="no-js lt-ie9" lang="en" > <![endif]-->
+<!--[if gt IE 8]><!--> <html class="no-js" lang="en" > <!--<![endif]-->
+<head>
+  <meta charset="utf-8">
+  
+  <meta name="viewport" content="width=device-width, initial-scale=1.0">
+  
+  <title>Gateway mode installation &mdash; flex_extract 7.1 alpha documentation</title>
+  
+
+  
+  
+  
+  
+
+  
+  <script type="text/javascript" src="../_static/js/modernizr.min.js"></script>
+  
+    
+      <script type="text/javascript" id="documentation_options" data-url_root="../" src="../_static/documentation_options.js"></script>
+        <script type="text/javascript" src="../_static/jquery.js"></script>
+        <script type="text/javascript" src="../_static/underscore.js"></script>
+        <script type="text/javascript" src="../_static/doctools.js"></script>
+        <script type="text/javascript" src="../_static/language_data.js"></script>
+        <script async="async" type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/latest.js?config=TeX-AMS-MML_HTMLorMML"></script>
+    
+    <script type="text/javascript" src="../_static/js/theme.js"></script>
+
+    
+
+  
+  <link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/css/custom.css" type="text/css" />
+  <link rel="stylesheet" href="../_static/css/theme_overrides.css" type="text/css" />
+    <link rel="index" title="Index" href="../genindex.html" />
+    <link rel="search" title="Search" href="../search.html" />
+    <link rel="next" title="Local mode installation" href="local.html" />
+    <link rel="prev" title="Remote mode installation" href="remote.html" /> 
+</head>
+
+<body class="wy-body-for-nav">
+
+   
+  <div class="wy-grid-for-nav">
+    
+    <nav data-toggle="wy-nav-shift" class="wy-nav-side">
+      <div class="wy-side-scroll">
+        <div class="wy-side-nav-search" >
+          
+
+          
+            <a href="../index.html" class="icon icon-home"> flex_extract
+          
+
+          
+          </a>
+
+          
+            
+            
+              <div class="version">
+                7.1
+              </div>
+            
+          
+
+          
+<div role="search">
+  <form id="rtd-search-form" class="wy-form" action="../search.html" method="get">
+    <input type="text" name="q" placeholder="Search docs" />
+    <input type="hidden" name="check_keywords" value="yes" />
+    <input type="hidden" name="area" value="default" />
+  </form>
+</div>
+
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+        </div>
+
+        <div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="main navigation">
+          
+            
+            
+              
+            
+            
+              <p class="caption"><span class="caption-text">Table of Contents:</span></p>
+<ul class="current">
+<li class="toctree-l1 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#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#environment-requirements">Environment requirements</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">
+<li class="toctree-l3"><a class="reference internal" href="remote.html">Remote mode installation</a></li>
+<li class="toctree-l3 current"><a class="current reference internal" href="#">Gateway mode installation</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="#gateway-environment-requirements">Gateway environment requirements</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#prepare-gateway-environment">Prepare gateway environment</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#test-gateway-environment">Test gateway environment</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#gateway-installation">Gateway installation</a></li>
+</ul>
+</li>
+<li class="toctree-l3"><a class="reference internal" href="local.html">Local mode installation</a></li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../installation.html#flex-extract-in-combination-with-flexpart"><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> in combination with <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code></a></li>
+<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="../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"><a class="reference internal" href="../Support/faq.html">FAQ - Frequently asked questions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../authors.html">Developer Team</a></li>
+</ul>
+
+            
+          
+        </div>
+      </div>
+    </nav>
+
+    <section data-toggle="wy-nav-shift" class="wy-nav-content-wrap">
+
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+      <nav class="wy-nav-top" aria-label="top navigation">
+        
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+          <a href="../index.html">flex_extract</a>
+        
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+        
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+<div role="navigation" aria-label="breadcrumbs navigation">
+
+  <ul class="wy-breadcrumbs">
+    
+      <li><a href="../index.html">Docs</a> &raquo;</li>
+        
+          <li><a href="../installation.html">Installation</a> &raquo;</li>
+        
+      <li>Gateway mode installation</li>
+    
+    
+      <li class="wy-breadcrumbs-aside">
+        
+            
+            <a href="../_sources/Installation/gateway.rst.txt" rel="nofollow"> View page source</a>
+          
+        
+      </li>
+    
+  </ul>
+
+  
+  <hr/>
+</div>
+          <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
+           <div itemprop="articleBody">
+            
+  <div class="section" id="gateway-mode-installation">
+<h1>Gateway mode installation<a class="headerlink" href="#gateway-mode-installation" title="Permalink to this headline">¶</a></h1>
+<div class="toctree-wrapper compound">
+</div>
+<div class="section" id="gateway-environment-requirements">
+<span id="ref-req-gateway"></span><span id="ref-gateway-mode"></span><h2>Gateway environment requirements<a class="headerlink" href="#gateway-environment-requirements" title="Permalink to this headline">¶</a></h2>
+<p>The environment on your local system has to provide these software packages
+and libraries, since <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> does only prepare the job script and send
+it to the ECMWF servers:</p>
+<ul class="simple">
+<li><a class="reference external" href="https://www.python.org/downloads/">Python3</a> or <a class="reference external" href="https://www.anaconda.com/distribution/#download-section">Anaconda Python3</a></li>
+<li><a class="reference external" href="http://www.numpy.org/">numpy</a></li>
+<li><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></li>
+</ul>
+</div>
+<div class="section" id="prepare-gateway-environment">
+<span id="ref-prep-gateway"></span><h2>Prepare gateway environment<a class="headerlink" href="#prepare-gateway-environment" title="Permalink to this headline">¶</a></h2>
+<p>The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
+The installation was tested on a <em>GNU/Linux Debian buster</em> and an <em>Ubuntu 18.04 Bionic Beaver</em> system.</p>
+<div class="highlight-sh notranslate"><div class="highlight"><pre><span></span><span class="c1"># On a Linux Debian or Ubuntu system do</span>
+<span class="c1"># (if not already available):</span>
+apt-get install python3
+apt-get install pip
+apt-get install genshi
+apt-get install numpy
+</pre></div>
+</div>
+</div>
+<div class="section" id="test-gateway-environment">
+<span id="ref-test-gateway"></span><h2>Test gateway environment<a class="headerlink" href="#test-gateway-environment" title="Permalink to this headline">¶</a></h2>
+<p>Check the availability of the python packages by typing <code class="docutils literal notranslate"><span class="pre">python3</span></code> in
+a terminal window and run the <code class="docutils literal notranslate"><span class="pre">import</span></code> commands in the python shell.
+If there are no error messages, you succeeded in setting up the environment.</p>
+<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="c1"># check in python3 console</span>
+<span class="kn">import</span> <span class="nn">genshi</span>
+<span class="kn">import</span> <span class="nn">numpy</span>
+</pre></div>
+</div>
+</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>In this mode, access to the ECMWF computing and archiving facilities is enabled through an ECaccess gateway server on a local member state server. The ECaccess framework is necessary to interactively submit jobs to the ECMWF batch system and to transfer files between ECMWF and local gateway server.</p>
+<p>Please see <a class="reference external" href="https://confluence.ecmwf.int/display/ECAC/ECaccess+Home">ECMWF’s instructions on gateway server</a> to establish the gateway server if not already in place.
+Additionally, to be able to use the Ecaccess file transfer service <strong>ectrans</strong> please also create an association.
+The easiest way is to visit the ECaccess Member State Gateway website (e.g. msgatway.ecmwf.int) and follow the instructions in the short <a class="reference external" href="https://confluence.ecmwf.int/download/attachments/45759146/ECaccess.pdf">ECaccess Presentation</a> (page 17 ff.). Additional documentation can be found on the <a class="reference external" href="https://confluence.ecmwf.int/display/ECAC/Unattended+file+transfer+-+ectrans">ECMWF ectrans site</a>.</p>
+<p>After everything is set up you have to create an <em>ecaccess certificate</em> to be able to send and receive files from and to the ECMWF server. You can do this by using the <code class="docutils literal notranslate"><span class="pre">ecaccess-certificate-create</span></code> command on the gateway server. You will be prompted for your ECMWF member state user name and a password (which will be usually generated by a Token). This certificate has to be re-newed periodically (every 7 days).</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ecaccess-certificate-create
+Please enter your user-id: example_username
+Your passcode: ***
+</pre></div>
+</div>
+<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 external" href="Documentation/Input/setup.html">[ref]</a>, select the <code class="docutils literal notranslate"><span class="pre">Makefile.gfortran</span></code> for the <code class="docutils literal notranslate"><span class="pre">CONVERT2</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, selects again automatically the correct libraries from the module system. For enableing the file transfer you have to set the <em>ECUID</em>, <em>ECGID</em>, <em>GATEWAY</em> and <em>DESTINATION</em> parameter values.</p>
+<div class="literal-block-wrapper docutils container" id="setup-sh">
+<div class="code-block-caption"><span class="caption-text">‘Example settings for a gateway installation.’</span><a class="headerlink" href="#setup-sh" title="Permalink to this code">¶</a></div>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># -----------------------------------------------------------------</span>
+<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
+<span class="c1">#</span>
+<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">&#39;ecgate&#39;</span>
+<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.gfortran&#39;</span>
+<span class="nv">ECUID</span><span class="o">=</span><span class="s1">&#39;uid&#39;</span>
+<span class="nv">ECGID</span><span class="o">=</span><span class="s1">&#39;gid&#39;</span>
+<span class="nv">GATEWAY</span><span class="o">=</span><span class="s1">&#39;server.example.edu&#39;</span>
+<span class="nv">DESTINATION</span><span class="o">=</span><span class="s1">&#39;example@genericSftp&#39;</span>
+<span class="nv">INSTALLDIR</span><span class="o">=</span>None
+<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
+<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
+</pre></div>
+</div>
+</div>
+<p>Afterwards, type:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ./setup.sh
+</pre></div>
+</div>
+<p>to start the installation. You should see the following output at the command line.</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Output of setup.sh</span>
+Create tarball ...
+Job compilation script has been submitted to ecgate <span class="k">for</span> installation in <span class="si">${</span><span class="nv">HOME</span><span class="si">}</span>/flex_extract_vX.X
+You should get an email with subject <span class="s2">&quot;flexcompile&quot;</span> within the next few minutes!
+</pre></div>
+</div>
+<p>The email content should look like this with a “SUCCESS” statement in the last line:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp phgrreal.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp grphreal.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp ftrafo.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3
+-rwxr-x---. <span class="m">1</span> USER at <span class="m">353134</span> May <span class="m">23</span> <span class="m">12</span>:27 CONVERT2
+SUCCESS!
+</pre></div>
+</div>
+</div>
+</div>
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+++ Documentation/html/Installation/local.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
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+<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#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#environment-requirements">Environment requirements</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">
+<li class="toctree-l3"><a class="reference internal" href="remote.html">Remote mode installation</a></li>
+<li class="toctree-l3"><a class="reference internal" href="gateway.html">Gateway mode installation</a></li>
+<li class="toctree-l3 current"><a class="current reference internal" href="#">Local mode installation</a><ul>
+<li class="toctree-l4"><a class="reference internal" href="#local-environment-requirements">Local environment requirements</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#prepare-local-environment">Prepare local environment</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#test-local-environment">Test local environment</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#local-installation">Local installation</a></li>
+</ul>
+</li>
+</ul>
+</li>
+<li class="toctree-l2"><a class="reference internal" href="../installation.html#flex-extract-in-combination-with-flexpart"><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> in combination with <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code></a></li>
+<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="../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"><a class="reference internal" href="../Support/faq.html">FAQ - Frequently asked questions</a></li>
+<li class="toctree-l1"><a class="reference internal" href="../authors.html">Developer Team</a></li>
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+           <div itemprop="articleBody">
+            
+  <div class="section" id="local-mode-installation">
+<h1>Local mode installation<a class="headerlink" href="#local-mode-installation" title="Permalink to this headline">¶</a></h1>
+<div class="toctree-wrapper compound">
+</div>
+<div class="section" id="local-environment-requirements">
+<span id="ref-req-local"></span><span id="ref-local-mode"></span><h2>Local environment requirements<a class="headerlink" href="#local-environment-requirements" title="Permalink to this headline">¶</a></h2>
+<p>For the local access modes <strong>member</strong> and <strong>public</strong> there is no difference in
+the installation process.</p>
+<p>The environment on your local system has to provide these software packages
+and libraries, since all extraction and preparation is done at the local system:</p>
+<table border="1" class="docutils">
+<colgroup>
+<col width="74%" />
+<col width="26%" />
+</colgroup>
+<tbody valign="top">
+<tr class="row-odd"><td>Python part</td>
+<td>Fortran part</td>
+</tr>
+<tr class="row-even"><td><ul class="first last simple">
+<li><a class="reference external" href="https://www.python.org/downloads/">Python3</a></li>
+<li><a class="reference external" href="http://www.numpy.org/">numpy</a></li>
+<li><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></li>
+<li><a class="reference external" href="https://packages.debian.org/sid/python3-eccodes">eccodes for python</a></li>
+<li><a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home">ecmwf-api-client</a> (everything except ERA5)</li>
+<li><a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">cdsapi</a> (just for ERA5)</li>
+</ul>
+</td>
+<td><ul class="first last simple">
+<li><a class="reference external" href="https://gcc.gnu.org/wiki/GFortran">gfortran</a></li>
+<li><a class="reference external" href="http://www.fftw.org">fftw3</a></li>
+<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">eccodes</a></li>
+<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">emoslib</a></li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</div>
+<div class="section" id="prepare-local-environment">
+<span id="ref-prep-local"></span><h2>Prepare local environment<a class="headerlink" href="#prepare-local-environment" title="Permalink to this headline">¶</a></h2>
+<p>The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
+The installation was tested on a <em>Debian GNU/Linux buster/sid</em> and an <em>Ubuntu 18.04 Bionic Beaver</em> system.</p>
+<div class="highlight-sh notranslate"><div class="highlight"><pre><span></span><span class="c1"># On a Linux Debian or Ubuntu system do</span>
+<span class="c1"># (if not already available):</span>
+apt-get install python3 <span class="o">(</span>usually available on normal Linux systems<span class="o">)</span>
+apt-get install pip
+apt-get install gfortran
+apt-get install fftw3-dev
+apt-get install libeccodes-dev
+apt-get install libemos-dev
+apt-get install python3-eccodes
+apt-get install genshi
+apt-get install numpy
+pip install cdsapi
+pip install ecmwf-api-client
+</pre></div>
+</div>
+<div class="admonition note">
+<p class="first admonition-title">Note</p>
+<p>In case you would like to use Anaconda Python we recommend you follow the installation instructions of
+<a class="reference external" href="https://docs.anaconda.com/anaconda/install/linux/">Anaconda Python Installation for Linux</a> and then install the
+<code class="docutils literal notranslate"><span class="pre">eccodes</span></code> package from <code class="docutils literal notranslate"><span class="pre">conda</span></code> with:</p>
+<div class="last highlight-bash notranslate"><div class="highlight"><pre><span></span>conda install conda-forge::python-eccodes
+</pre></div>
+</div>
+</div>
+<p>The CDS API (cdsapi) and the ECMWF Web API (ecmwf-api-client) have both to be installed since ERA5 can only be retrieved with the <code class="docutils literal notranslate"><span class="pre">CDS</span> <span class="pre">API</span></code> and all other datasets with the <code class="docutils literal notranslate"><span class="pre">ECMWF</span> <span class="pre">Web</span> <span class="pre">API</span></code>.</p>
+<div class="admonition note">
+<p class="first admonition-title">Note</p>
+<p class="last">Since <strong>public users</strong> currently don’t have access to the full <em>ERA5</em> dataset they can skip the installation of the <code class="docutils literal notranslate"><span class="pre">CDS</span> <span class="pre">API</span></code>.</p>
+</div>
+<p>Both user groups have to provide key’s with their credentials for the Web API’s in their home directory. Therefore, follow these instructions:</p>
+<dl class="docutils">
+<dt>ECMWF Web API:</dt>
+<dd>Go to <a class="reference external" href="https://confluence.ecmwf.int//display/WEBAPI/Access+MARS">MARS access</a> website and log in with your credentials. Afterwards, on this site in section “Install ECMWF KEY” the key for the ECMWF Web API should be listed. Please follow the instructions in this section under point 1 (save the key in a file <cite>.ecmwfapirc</cite> in your home directory).</dd>
+<dt>CDS API:</dt>
+<dd>Go to ‘CDS API registration’_ and register there too. Log in at the <a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">cdsapi</a> website and follow the instructions at section “Install the CDS API key” to save your credentials in a <cite>.cdsapirc</cite> file.</dd>
+</dl>
+</div>
+<div class="section" id="test-local-environment">
+<span id="ref-test-local"></span><h2>Test local environment<a class="headerlink" href="#test-local-environment" title="Permalink to this headline">¶</a></h2>
+<p>Check the availability of the system packages with <code class="docutils literal notranslate"><span class="pre">dpkg</span> <span class="pre">-s</span> <span class="pre">&lt;package-name&gt;</span> <span class="pre">|</span>&#160; <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">&lt;package_name&gt;</span></code>, depending on your system. 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
+</pre></div>
+</div>
+<p>Afterwards, check the availability of the python packages by typing <code class="docutils literal notranslate"><span class="pre">python3</span></code> in
+a terminal window and run the <code class="docutils literal notranslate"><span class="pre">import</span></code> commands in the python shell. If there are no error messages, you succeeded in setting up the environment.</p>
+<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="c1"># check in python3 console</span>
+<span class="kn">import</span> <span class="nn">eccodes</span>
+<span class="kn">import</span> <span class="nn">genshi</span>
+<span class="kn">import</span> <span class="nn">numpy</span>
+<span class="kn">import</span> <span class="nn">cdsapi</span>
+<span class="kn">import</span> <span class="nn">ecmwfapi</span>
+</pre></div>
+</div>
+<div class="section" id="test-the-web-api-s">
+<h3>Test the Web API’s<a class="headerlink" href="#test-the-web-api-s" title="Permalink to this headline">¶</a></h3>
+<p>You can start very simple test retrievals for both Web API’s to be sure that everything works. This is recommended to minimize the range of possible errors using <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> later on.</p>
+<div class="section" id="ecmwf-web-api">
+<h4>ECMWF Web API<a class="headerlink" href="#ecmwf-web-api" title="Permalink to this headline">¶</a></h4>
+<table border="1" class="docutils">
+<colgroup>
+<col width="50%" />
+<col width="50%" />
+</colgroup>
+<tbody valign="top">
+<tr class="row-odd"><td>Please use this piece of python code for <strong>Member user</strong>:</td>
+<td>Please use this piece of python code for <strong>Public user</strong>:</td>
+</tr>
+<tr class="row-even"><td><div class="first last highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">from</span> <span class="nn">ecmwfapi</span> <span class="kn">import</span> <span class="n">ECMWFService</span>
+
+<span class="n">server</span> <span class="o">=</span> <span class="n">ECMWFService</span><span class="p">(</span><span class="s1">&#39;mars&#39;</span><span class="p">)</span>
+
+<span class="n">server</span><span class="o">.</span><span class="n">retrieve</span><span class="p">({</span>
+    <span class="s1">&#39;stream&#39;</span>    <span class="p">:</span> <span class="s2">&quot;oper&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;levtype&#39;</span>   <span class="p">:</span> <span class="s2">&quot;sfc&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;param&#39;</span>     <span class="p">:</span> <span class="s2">&quot;165.128/166.128/167.128&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;dataset&#39;</span>   <span class="p">:</span> <span class="s2">&quot;interim&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;step&#39;</span>      <span class="p">:</span> <span class="s2">&quot;0&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;grid&#39;</span>      <span class="p">:</span> <span class="s2">&quot;0.75/0.75&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;time&#39;</span>      <span class="p">:</span> <span class="s2">&quot;00/06/12/18&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;date&#39;</span>      <span class="p">:</span> <span class="s2">&quot;2014-07-01/to/2014-07-31&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;type&#39;</span>      <span class="p">:</span> <span class="s2">&quot;an&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;class&#39;</span>     <span class="p">:</span> <span class="s2">&quot;ei&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;target&#39;</span>    <span class="p">:</span> <span class="s2">&quot;download_erainterim_ecmwfapi.grib&quot;</span>
+<span class="p">})</span>
+</pre></div>
+</div>
+</td>
+<td><div class="first last highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">from</span> <span class="nn">ecmwfapi</span> <span class="kn">import</span> <span class="n">ECMWFDataServer</span>
+
+<span class="n">server</span> <span class="o">=</span> <span class="n">ECMWFDataServer</span><span class="p">()</span>
+
+<span class="n">server</span><span class="o">.</span><span class="n">retrieve</span><span class="p">({</span>
+    <span class="s1">&#39;stream&#39;</span>    <span class="p">:</span> <span class="s2">&quot;enda&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;levtype&#39;</span>   <span class="p">:</span> <span class="s2">&quot;sfc&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;param&#39;</span>     <span class="p">:</span> <span class="s2">&quot;165.128/166.128/167.128&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;dataset&#39;</span>   <span class="p">:</span> <span class="s2">&quot;cera20c&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;step&#39;</span>      <span class="p">:</span> <span class="s2">&quot;0&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;grid&#39;</span>      <span class="p">:</span> <span class="s2">&quot;1./1.&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;time&#39;</span>      <span class="p">:</span> <span class="s2">&quot;00/06/12/18&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;date&#39;</span>      <span class="p">:</span> <span class="s2">&quot;2000-07-01/to/2000-07-31&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;type&#39;</span>      <span class="p">:</span> <span class="s2">&quot;an&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;class&#39;</span>     <span class="p">:</span> <span class="s2">&quot;ep&quot;</span><span class="p">,</span>
+    <span class="s1">&#39;target&#39;</span>    <span class="p">:</span> <span class="s2">&quot;download_cera20c_ecmwfapi.grib&quot;</span>
+<span class="p">})</span>
+</pre></div>
+</div>
+</td>
+</tr>
+</tbody>
+</table>
+</div>
+<div class="section" id="cds-api">
+<h4>CDS API<a class="headerlink" href="#cds-api" title="Permalink to this headline">¶</a></h4>
+<p>Since ERA5 extraction with CDS API might take some time due to the very high number of requests, you can start by retrieving some online stored pressure levels (not from MARS). This is usually much faster and gives a quick result to find out if the web API works:</p>
+<p>Please use this piece of python code to retrieve a small sample of <em>ERA5</em> pressure levels:</p>
+<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">cdsapi</span>
+
+<span class="n">c</span> <span class="o">=</span> <span class="n">cdsapi</span><span class="o">.</span><span class="n">Client</span><span class="p">()</span>
+
+<span class="n">c</span><span class="o">.</span><span class="n">retrieve</span><span class="p">(</span><span class="s2">&quot;reanalysis-era5-pressure-levels&quot;</span><span class="p">,</span>
+<span class="p">{</span>
+<span class="s2">&quot;variable&quot;</span><span class="p">:</span> <span class="s2">&quot;temperature&quot;</span><span class="p">,</span>
+<span class="s2">&quot;pressure_level&quot;</span><span class="p">:</span> <span class="s2">&quot;1000&quot;</span><span class="p">,</span>
+<span class="s2">&quot;product_type&quot;</span><span class="p">:</span> <span class="s2">&quot;reanalysis&quot;</span><span class="p">,</span>
+<span class="s2">&quot;year&quot;</span><span class="p">:</span> <span class="s2">&quot;2008&quot;</span><span class="p">,</span>
+<span class="s2">&quot;month&quot;</span><span class="p">:</span> <span class="s2">&quot;01&quot;</span><span class="p">,</span>
+<span class="s2">&quot;day&quot;</span><span class="p">:</span> <span class="s2">&quot;01&quot;</span><span class="p">,</span>
+<span class="s2">&quot;time&quot;</span><span class="p">:</span> <span class="s2">&quot;12:00&quot;</span><span class="p">,</span>
+<span class="s2">&quot;format&quot;</span><span class="p">:</span> <span class="s2">&quot;grib&quot;</span>
+<span class="p">},</span>
+<span class="s2">&quot;download_cdsapi.grib&quot;</span><span class="p">)</span>
+</pre></div>
+</div>
+<p>Afterwards, when you know that the CDS API generally works, you can try to extract some
+data from the MARS archive. From the latest experience we know that this can take a while.</p>
+<p>Please use this piece of python code to retrieve a small <em>ERA5</em> data sample as a <strong>member user</strong>! The <strong>public user</strong> doesn’t have access to the full <em>ERA5</em> dataset!</p>
+<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">cdsapi</span>
+
+<span class="n">c</span> <span class="o">=</span> <span class="n">cdsapi</span><span class="o">.</span><span class="n">Client</span><span class="p">()</span>
+
+<span class="n">c</span><span class="o">.</span><span class="n">retrieve</span><span class="p">(</span><span class="s1">&#39;reanalysis-era5-complete&#39;</span><span class="p">,</span>
+<span class="p">{</span>
+    <span class="s1">&#39;class&#39;</span>   <span class="p">:</span> <span class="s1">&#39;ea&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;expver&#39;</span>  <span class="p">:</span> <span class="s1">&#39;1&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;stream&#39;</span>  <span class="p">:</span> <span class="s1">&#39;oper&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;type&#39;</span>    <span class="p">:</span> <span class="s1">&#39;fc&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;step&#39;</span>    <span class="p">:</span> <span class="s1">&#39;3/to/12/by/3&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;param&#39;</span>   <span class="p">:</span> <span class="s1">&#39;130.128&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;levtype&#39;</span> <span class="p">:</span> <span class="s1">&#39;ml&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;levelist&#39;</span><span class="p">:</span> <span class="s1">&#39;135/to/137&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;date&#39;</span>    <span class="p">:</span> <span class="s1">&#39;2013-01-01&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;time&#39;</span>    <span class="p">:</span> <span class="s1">&#39;06/18&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;area&#39;</span>    <span class="p">:</span> <span class="s1">&#39;50/-5/40/5&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;grid&#39;</span>    <span class="p">:</span> <span class="s1">&#39;1.0/1.0&#39;</span><span class="p">,</span>
+    <span class="s1">&#39;format&#39;</span>  <span class="p">:</span> <span class="s1">&#39;grib&#39;</span><span class="p">,</span>
+<span class="p">},</span> <span class="s1">&#39;download_era5_cdsapi.grib&#39;</span><span class="p">)</span>
+</pre></div>
+</div>
+</div>
+</div>
+</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 prepare the Fortran <code class="docutils literal notranslate"><span class="pre">Makefile</span></code> for your environment and set it
+in the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script. (See section <span class="xref std std-ref">ref-convert</span> for information on
+the Fortran program.)
+<code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> has already two <code class="docutils literal notranslate"><span class="pre">Makefiles</span></code> prepared for te <code class="docutils literal notranslate"><span class="pre">gfortran</span></code> and
+the <code class="docutils literal notranslate"><span class="pre">ifort</span></code> compiler:</p>
+<blockquote>
+<div><ul class="simple">
+<li>Makefile.local.gfortran</li>
+<li>Makefile.local.ifort</li>
+</ul>
+</div></blockquote>
+<p>They can be found in the path <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 with the current version number.</p>
+<div class="admonition caution">
+<p class="first admonition-title">Caution</p>
+<p class="last">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>.</p>
+</div>
+<p>So starting from the root directory of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>,
+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 to modify with an editor of your choice. We use the <code class="docutils literal notranslate"><span class="pre">nedit</span></code> in this case.</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.local.gfortran
+</pre></div>
+</div>
+<p>Edit the pathes to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library on your local machine.</p>
+<div class="admonition caution">
+<p class="first 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 class="last">to find out the path to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library.</p>
+</div>
+<p>Substitute these paths in the <code class="docutils literal notranslate"><span class="pre">Makefile</span></code> for parameters <strong>ECCODES_INCLUDE_DIR</strong>
+and <strong>ECCODES_LIB</strong> and save it.</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># these are the paths on a current Debian 10 Testing system (May 2019)</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">CONVERT2</span></code> will be compiled during the
+installation process to get an executable. Therefore the <code class="docutils literal notranslate"><span class="pre">Makefile</span></code>
+has to be set in the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script.</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
+and adapt the installation parameters in the section labelled with
+“AVAILABLE COMMANDLINE ARGUMENTS TO SET” like shown below.</p>
+<div class="literal-block-wrapper docutils container" id="setup-sh">
+<div class="code-block-caption"><span class="caption-text">‘Example settings for a local installation.’</span><a class="headerlink" href="#setup-sh" title="Permalink to this code">¶</a></div>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>...
+<span class="c1"># -----------------------------------------------------------------</span>
+<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
+<span class="c1">#</span>
+<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">&#39;local&#39;</span>
+<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.local.gfortran&#39;</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
+<span class="nv">DESTINATION</span><span class="o">=</span>None
+<span class="nv">INSTALLDIR</span><span class="o">=</span>None
+<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
+<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
+...
+</pre></div>
+</div>
+</div>
+<p>Afterwards, type:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ./setup.sh
+</pre></div>
+</div>
+<p>to start the installation. You should see the following output at the command line.</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Output of setup.sh</span>
+WARNING: installdir has not been specified
+flex_extract will be installed in here by compiling the Fortran <span class="nb">source</span> in /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1/source/fortran
+Install flex_extract_v7.1 software at <span class="nb">local</span> in directory /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1
+
+Using makefile: Makefile.local.gfortran
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp phgrreal.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp grphreal.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp ftrafo.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 rwGRIB2.f90
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 posnam.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 preconvert.f90
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -O3 -O3 -fopenmp -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/gcc-4.9.3/grib_api-1.14.3/lib -Bstatic  -lgrib_api_f77 -lgrib_api_f90 -lgrib_api -Bdynamic  -lm  -ljasper -lemosR64
+
+-rwxrwxr-x. <span class="m">1</span> philipa8 tmc <span class="m">282992</span> May <span class="m">23</span> <span class="m">22</span>:27 ./CONVERT2
+</pre></div>
+</div>
+</div>
+</div>
+
+
+           </div>
+           
+          </div>
+          <footer>
+  
+    <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>
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+
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Index: Documentation/html/Installation/remote.html
===================================================================
--- Documentation/html/Installation/remote.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
+++ Documentation/html/Installation/remote.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -0,0 +1,414 @@
+
+
+<!DOCTYPE html>
+<!--[if IE 8]><html class="no-js lt-ie9" lang="en" > <![endif]-->
+<!--[if gt IE 8]><!--> <html class="no-js" lang="en" > <!--<![endif]-->
+<head>
+  <meta charset="utf-8">
+  
+  <meta name="viewport" content="width=device-width, initial-scale=1.0">
+  
+  <title>Remote mode installation &mdash; flex_extract 7.1 alpha documentation</title>
+  
+
+  
+  
+  
+  
+
+  
+  <script type="text/javascript" src="../_static/js/modernizr.min.js"></script>
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+<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#download-flex-extract">Download <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code></a></li>
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+<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">
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+<li class="toctree-l4"><a class="reference internal" href="#remote-environment-requirements">Remote environment requirements</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#prepare-remote-environment">Prepare remote environment</a></li>
+<li class="toctree-l4"><a class="reference internal" href="#remote-installation">Remote installation</a></li>
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+<li class="toctree-l2"><a class="reference internal" href="../installation.html#flex-extract-in-combination-with-flexpart"><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> in combination with <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code></a></li>
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+            
+  <div class="section" id="remote-mode-installation">
+<h1>Remote mode installation<a class="headerlink" href="#remote-mode-installation" title="Permalink to this headline">¶</a></h1>
+<div class="toctree-wrapper compound">
+</div>
+<div class="section" id="remote-environment-requirements">
+<span id="ref-req-remote"></span><span id="ref-remote-mode"></span><h2>Remote environment requirements<a class="headerlink" href="#remote-environment-requirements" title="Permalink to this headline">¶</a></h2>
+<p>The environment for <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> on ECMWF servers has to provide these
+software packages and libraries:</p>
+<table border="1" class="docutils">
+<colgroup>
+<col width="61%" />
+<col width="39%" />
+</colgroup>
+<tbody valign="top">
+<tr class="row-odd"><td>Python part</td>
+<td>Fortran part</td>
+</tr>
+<tr class="row-even"><td><ul class="first last simple">
+<li><a class="reference external" href="https://www.python.org/downloads/">Python3</a></li>
+<li><a class="reference external" href="http://www.numpy.org/">numpy</a></li>
+<li><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></li>
+<li><a class="reference external" href="https://packages.debian.org/sid/python3-eccodes">eccodes for python</a></li>
+</ul>
+</td>
+<td><ul class="first last simple">
+<li><a class="reference external" href="https://gcc.gnu.org/wiki/GFortran">gfortran</a></li>
+<li><a class="reference external" href="http://www.fftw.org">fftw3</a></li>
+<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">eccodes</a></li>
+<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">emoslib</a></li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+</div>
+<div class="section" id="prepare-remote-environment">
+<span id="ref-prep-remote"></span><h2>Prepare remote environment<a class="headerlink" href="#prepare-remote-environment" title="Permalink to this headline">¶</a></h2>
+<p>The environment on the ECMWF server (such as <em>ecgate</em> or <em>cca</em>) is already
+prepared. ECMWF server provide all libraries via a module system which is
+going to be selected by <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> automatically.</p>
+</div>
+<div class="section" id="remote-installation">
+<span id="ref-install-remote"></span><h2>Remote installation<a class="headerlink" href="#remote-installation" title="Permalink to this headline">¶</a></h2>
+<p>First, log in on one of the ECMWF Linux server, such as <em>ecgate</em> or <em>cca/ccb</em>.
+Substitute <em>&lt;ecuid&gt;</em> with your ECMWF user name:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>ssh -X &lt;ecuid&gt;@ecaccess.ecmwf.int
+</pre></div>
+</div>
+<p>This will lead to the following output on the command line, asking for your
+password:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>Authorized access only.
+
+***************************************************************
+   For further information, read the ECaccess documentation at:
+
+   https://software.ecmwf.int/wiki/display/ECAC/ECaccess+Home
+
+   You can also use ECaccess to load &amp; download files from your
+   EChome, ECscratch or ECfs directories using the ECaccess FTP
+   server:
+
+   ftp://uid@ecaccess.ecmwf.int/
+
+   Please note you must use your UID and ActivID code to login!
+***************************************************************
+
+&lt;ecuid&gt;@131.130.157.5&#39;s password: ***
+Select hostname (ecgate, cca, ccb) [ecgate]: ecgate
+
+[&lt;ecuid&gt;@ecgb11 ~]$
+</pre></div>
+</div>
+<p>Then, copy the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> tar ball (from section <a class="reference internal" href="../installation.html#ref-download"><span class="std std-ref">Download flex_extract</span></a>)
+to the <code class="docutils literal notranslate"><span class="pre">$HOME</span></code> directory of the ECMWF Linux server via <code class="docutils literal notranslate"><span class="pre">scp</span></code>.
+Substitute the <em>&lt;localuser&gt;</em> and <em>&lt;server.edu&gt;</em> placeholders with your credentials.
+Untar the file and change into the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> root directory.</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>scp &lt;localuser&gt;@&lt;server.edu&gt;:/path/to/tarfile/flex_extract_vX.X.tar.gz  <span class="nv">$HOME</span>/
+<span class="nb">cd</span> <span class="nv">$HOME</span>
+tar xvf flex_extract_vX.X.tar.gz
+<span class="nb">cd</span> flex_extract_vX.X
+</pre></div>
+</div>
+<p>On these ECMWF servers, it is not necessary to prepare the environment or the
+<code class="docutils literal notranslate"><span class="pre">Makefile</span></code> for the Fortran program (<code class="docutils literal notranslate"><span class="pre">CONVERT2</span></code>) as described above.
+All third party libraries are available from a module system. The <code class="docutils literal notranslate"><span class="pre">Makefile</span></code>
+is optimized for ECMWF servers and the compilation
+script <code class="docutils literal notranslate"><span class="pre">compilejob.ksh</span></code>, which will be submitted by <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> to the
+batch job queue at ECMWF, does load all relevant modules from the ECMWF’s module system.</p>
+<p>So there is just the need to 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> root directory for installation.
+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 <span class="xref std std-doc">Documentation/Input/setup</span>.</p>
+<p>Open <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> with your editor and adapt the values:</p>
+<table border="1" class="docutils">
+<colgroup>
+<col width="50%" />
+<col width="50%" />
+</colgroup>
+<tbody valign="top">
+<tr class="row-odd"><td>Take this for target = <strong>ectrans</strong></td>
+<td>Take this for target = <strong>cca</strong></td>
+</tr>
+<tr class="row-even"><td><div class="first last highlight-bash notranslate"><div class="highlight"><pre><span></span>...
+<span class="c1"># -----------------------------------------</span>
+<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
+<span class="c1">#</span>
+<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">&#39;ecgate&#39;</span>
+<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.gfortran&#39;</span>
+<span class="nv">ECUID</span><span class="o">=</span><span class="s1">&#39;uid&#39;</span>
+<span class="nv">ECGID</span><span class="o">=</span><span class="s1">&#39;gid&#39;</span>
+<span class="nv">GATEWAY</span><span class="o">=</span>None
+<span class="nv">DESTINATION</span><span class="o">=</span>None
+<span class="nv">INSTALLDIR</span><span class="o">=</span>None
+<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
+<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
+...
+</pre></div>
+</div>
+</td>
+<td><div class="first last highlight-bash notranslate"><div class="highlight"><pre><span></span>...
+<span class="c1"># -----------------------------------------</span>
+<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
+<span class="c1">#</span>
+<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">&#39;cca&#39;</span>
+<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.CRAY&#39;</span>
+<span class="nv">ECUID</span><span class="o">=</span><span class="s1">&#39;uid&#39;</span>
+<span class="nv">ECGID</span><span class="o">=</span><span class="s1">&#39;gid&#39;</span>
+<span class="nv">GATEWAY</span><span class="o">=</span>None
+<span class="nv">DESTINATION</span><span class="o">=</span>None
+<span class="nv">INSTALLDIR</span><span class="o">=</span><span class="s1">&#39;&#39;</span>
+<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
+<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
+...
+</pre></div>
+</div>
+</td>
+</tr>
+</tbody>
+</table>
+<p><span class="underline">Please substitute the values of ECUID and ECGID
+with your own credentials and settings.</span></p>
+<div class="admonition note">
+<p class="first admonition-title">Note</p>
+<p class="last">If a local gateway server is available the transfer of files could be done
+via the <code class="docutils literal notranslate"><span class="pre">ECaccess</span></code> commands. Therefore a valid <em>GATEWAY</em> and <em>DESTINATION</em>
+have to be present and should be set in the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> file.</p>
+</div>
+<p>Afterwards, type:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>module load python3
+./setup.sh
+</pre></div>
+</div>
+<p>to start the installation. You should see the following output at the command line.</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Output of setup.sh</span>
+Create tarball ...
+Job compilation script has been submitted to ecgate <span class="k">for</span> installation in <span class="si">${</span><span class="nv">HOME</span><span class="si">}</span>/flex_extract_vX.X
+You should get an email with subject <span class="s2">&quot;flexcompile&quot;</span> within the next few minutes!
+</pre></div>
+</div>
+<p>The email content should look like this with a “SUCCESS” statement in the last line:</p>
+<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp phgrreal.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp grphreal.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp ftrafo.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
+gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3
+-rwxr-x---. <span class="m">1</span> USER at <span class="m">353134</span> May <span class="m">23</span> <span class="m">12</span>:27 CONVERT2
+SUCCESS!
+</pre></div>
+</div>
+</div>
+</div>
+
+
+           </div>
+           
+          </div>
+          <footer>
+  
+    <div class="rst-footer-buttons" role="navigation" aria-label="footer navigation">
+      
+        <a href="gateway.html" class="btn btn-neutral float-right" title="Gateway mode installation" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right"></span></a>
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+        &copy; Copyright 2019, Anne Philipp and Leopold Haimberger
+
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Index: Documentation/html/Support/faq.html
===================================================================
--- Documentation/html/Support/faq.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/Support/faq.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -193,5 +193,5 @@
 <li>Check LD_LIBRARY_PATH environment variable if it contains all paths to the libs</li>
 <li>Check available python packages (e.g. import eccodes / import grib_api / import ecmwfapi)</li>
-<li>Start test retrieval (<a class="reference internal" href="../installation.html#ref-test-local"><span class="std std-ref">Test local environment</span></a>)</li>
+<li>Start test retrieval (<a class="reference internal" href="../Installation/local.html#ref-test-local"><span class="std std-ref">Test local environment</span></a>)</li>
 <li>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>)</li>
 </ol>
Index: Documentation/html/_modules/ControlFile.html
===================================================================
--- Documentation/html/_modules/ControlFile.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/ControlFile.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for ControlFile</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -186,18 +186,10 @@
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
 <span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
+<span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
 <span class="c1">#    International License. To view a copy of this license, visit</span>
 <span class="c1">#    http://creativecommons.org/licenses/by/4.0/ or send a letter to</span>
 <span class="c1">#    Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</span>
-<span class="c1">#</span>
-<span class="c1"># @Class Methods:</span>
-<span class="c1">#    __init__</span>
-<span class="c1">#    _read_controlfile</span>
-<span class="c1">#    __str__</span>
-<span class="c1">#    assign_args_to_control</span>
-<span class="c1">#    assign_envs_to_control</span>
-<span class="c1">#    check_conditions</span>
-<span class="c1">#    check_install_conditions</span>
-<span class="c1">#    to_list</span>
 <span class="c1">#*******************************************************************************</span>
 
Index: Documentation/html/_modules/EcFlexpart.html
===================================================================
--- Documentation/html/_modules/EcFlexpart.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/EcFlexpart.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for EcFlexpart</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -204,4 +204,6 @@
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
 <span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
+<span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
 <span class="c1">#    International License. To view a copy of this license, visit</span>
@@ -577,13 +579,21 @@
         <span class="c1"># -----------------------------------------------------------------------</span>
         <span class="k">if</span> <span class="n">wrf</span><span class="p">:</span>
-            <span class="bp">self</span><span class="o">.</span><span class="n">params</span><span class="p">[</span><span class="s1">&#39;OG__ML&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+=</span> <span class="s1">&#39;/Z/VO&#39;</span>
-            <span class="k">if</span> <span class="s1">&#39;/D&#39;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">params</span><span class="p">[</span><span class="s1">&#39;OG__ML&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]:</span>
-                <span class="bp">self</span><span class="o">.</span><span class="n">params</span><span class="p">[</span><span class="s1">&#39;OG__ML&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+=</span> <span class="s1">&#39;/D&#39;</span>
-
-            <span class="n">wrf_sfc</span> <span class="o">=</span> <span class="p">[</span><span class="s1">&#39;SP&#39;</span><span class="p">,</span><span class="s1">&#39;SKT&#39;</span><span class="p">,</span><span class="s1">&#39;SST&#39;</span><span class="p">,</span><span class="s1">&#39;CI&#39;</span><span class="p">,</span><span class="s1">&#39;STL1&#39;</span><span class="p">,</span><span class="s1">&#39;STL2&#39;</span><span class="p">,</span> <span class="s1">&#39;STL3&#39;</span><span class="p">,</span><span class="s1">&#39;STL4&#39;</span><span class="p">,</span>
-                       <span class="s1">&#39;SWVL1&#39;</span><span class="p">,</span><span class="s1">&#39;SWVL2&#39;</span><span class="p">,</span><span class="s1">&#39;SWVL3&#39;</span><span class="p">,</span><span class="s1">&#39;SWVL4&#39;</span><span class="p">]</span>
-            <span class="k">for</span> <span class="n">par</span> <span class="ow">in</span> <span class="n">wrf_sfc</span><span class="p">:</span>
-                <span class="k">if</span> <span class="n">par</span> <span class="ow">not</span> <span class="ow">in</span> <span class="bp">self</span><span class="o">.</span><span class="n">params</span><span class="p">[</span><span class="s1">&#39;OG__SL&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]:</span>
-                    <span class="bp">self</span><span class="o">.</span><span class="n">params</span><span class="p">[</span><span class="s1">&#39;OG__SL&#39;</span><span class="p">][</span><span class="mi">0</span><span class="p">]</span> <span class="o">+=</span> <span class="s1">&#39;/&#39;</span> <span class="o">+</span> <span class="n">par</span>
+            <span class="c1"># @WRF</span>
+            <span class="c1"># THIS IS NOT YET CORRECTLY IMPLEMENTED !!!</span>
+            <span class="c1">#</span>
+            <span class="c1"># UNDER CONSTRUCTION !!!</span>
+            <span class="c1">#</span>
+
+            <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;WRF VERSION IS UNDER CONSTRUCTION!&#39;</span><span class="p">)</span> <span class="c1"># dummy argument</span>
+
+            <span class="c1">#self.params[&#39;OG__ML&#39;][0] += &#39;/Z/VO&#39;</span>
+            <span class="c1">#if &#39;/D&#39; not in self.params[&#39;OG__ML&#39;][0]:</span>
+            <span class="c1">#    self.params[&#39;OG__ML&#39;][0] += &#39;/D&#39;</span>
+
+            <span class="c1">#wrf_sfc = [&#39;SP&#39;,&#39;SKT&#39;,&#39;SST&#39;,&#39;CI&#39;,&#39;STL1&#39;,&#39;STL2&#39;, &#39;STL3&#39;,&#39;STL4&#39;,</span>
+            <span class="c1">#           &#39;SWVL1&#39;,&#39;SWVL2&#39;,&#39;SWVL3&#39;,&#39;SWVL4&#39;]</span>
+            <span class="c1">#for par in wrf_sfc:</span>
+            <span class="c1">#    if par not in self.params[&#39;OG__SL&#39;][0]:</span>
+            <span class="c1">#        self.params[&#39;OG__SL&#39;][0] += &#39;/&#39; + par</span>
 
         <span class="k">return</span>
@@ -1008,6 +1018,6 @@
             <span class="k">if</span> <span class="n">area</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">&gt;</span> <span class="n">area</span><span class="p">[</span><span class="mi">3</span><span class="p">]:</span>
                 <span class="n">area</span><span class="p">[</span><span class="mi">1</span><span class="p">]</span> <span class="o">-=</span> <span class="mi">360</span>
-            <span class="n">maxl</span> <span class="o">=</span> <span class="nb">round</span><span class="p">((</span><span class="n">area</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">area</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="n">grid</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span> <span class="o">+</span> <span class="mi">1</span>
-            <span class="n">maxb</span> <span class="o">=</span> <span class="nb">round</span><span class="p">((</span><span class="n">area</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">area</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span> <span class="o">/</span> <span class="n">grid</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span> <span class="o">+</span> <span class="mi">1</span>
+            <span class="n">maxl</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">round</span><span class="p">((</span><span class="n">area</span><span class="p">[</span><span class="mi">3</span><span class="p">]</span> <span class="o">-</span> <span class="n">area</span><span class="p">[</span><span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="n">grid</span><span class="p">[</span><span class="mi">1</span><span class="p">]))</span> <span class="o">+</span> <span class="mi">1</span>
+            <span class="n">maxb</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">round</span><span class="p">((</span><span class="n">area</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">-</span> <span class="n">area</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span> <span class="o">/</span> <span class="n">grid</span><span class="p">[</span><span class="mi">0</span><span class="p">]))</span> <span class="o">+</span> <span class="mi">1</span>
 
             <span class="n">stream</span> <span class="o">=</span> <span class="n">namelist_template</span><span class="o">.</span><span class="n">generate</span><span class="p">(</span>
@@ -1246,7 +1256,7 @@
 
             <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;outputfile = &quot;</span> <span class="o">+</span> <span class="n">fnout</span><span class="p">)</span>
-            <span class="n">f_handle</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fnout</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">)</span>
-            <span class="n">h_handle</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">hnout</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">)</span>
-            <span class="n">g_handle</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">gnout</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">)</span>
+            <span class="n">f_handle</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fnout</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+            <span class="n">h_handle</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">hnout</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
+            <span class="n">g_handle</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">gnout</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
 
             <span class="c1"># read message for message and store relevant data fields, where</span>
@@ -1554,5 +1564,5 @@
             <span class="c1"># write original time step to flux file as usual</span>
             <span class="n">fluxfile</span> <span class="o">=</span> <span class="n">GribUtil</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">inputdir</span><span class="p">,</span> <span class="n">fluxfilename</span><span class="p">))</span>
-            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;a&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
+            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;ab&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
                               <span class="n">wherekeynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span> <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">142</span><span class="p">],</span>
                               <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;perturbationNumber&#39;</span><span class="p">,</span><span class="s1">&#39;date&#39;</span><span class="p">,</span><span class="s1">&#39;time&#39;</span><span class="p">,</span><span class="s1">&#39;stepRange&#39;</span><span class="p">,</span><span class="s1">&#39;values&#39;</span><span class="p">],</span>
@@ -1560,5 +1570,5 @@
                                          <span class="n">date</span><span class="o">.</span><span class="n">hour</span><span class="o">*</span><span class="mi">100</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">lsp_new_np</span><span class="p">[</span><span class="n">inumb</span><span class="p">,:,</span><span class="n">it</span><span class="p">]],</span>
                              <span class="p">)</span>
-            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;a&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
+            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;ab&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
                               <span class="n">wherekeynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span> <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">143</span><span class="p">],</span>
                               <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;perturbationNumber&#39;</span><span class="p">,</span><span class="s1">&#39;date&#39;</span><span class="p">,</span><span class="s1">&#39;time&#39;</span><span class="p">,</span><span class="s1">&#39;stepRange&#39;</span><span class="p">,</span><span class="s1">&#39;values&#39;</span><span class="p">],</span>
@@ -1568,5 +1578,5 @@
 
             <span class="c1"># rr for first subgrid point is identified by step = 1</span>
-            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;a&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
+            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;ab&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
                               <span class="n">wherekeynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span> <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">142</span><span class="p">],</span>
                               <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;perturbationNumber&#39;</span><span class="p">,</span><span class="s1">&#39;date&#39;</span><span class="p">,</span><span class="s1">&#39;time&#39;</span><span class="p">,</span><span class="s1">&#39;stepRange&#39;</span><span class="p">,</span><span class="s1">&#39;values&#39;</span><span class="p">],</span>
@@ -1574,5 +1584,5 @@
                                          <span class="n">date</span><span class="o">.</span><span class="n">hour</span><span class="o">*</span><span class="mi">100</span><span class="p">,</span> <span class="s1">&#39;1&#39;</span><span class="p">,</span> <span class="n">lsp_new_np</span><span class="p">[</span><span class="n">inumb</span><span class="p">,:,</span><span class="n">it</span><span class="o">+</span><span class="mi">1</span><span class="p">]]</span>
                               <span class="p">)</span>
-            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;a&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
+            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;ab&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
                               <span class="n">wherekeynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span> <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">143</span><span class="p">],</span>
                               <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;perturbationNumber&#39;</span><span class="p">,</span><span class="s1">&#39;date&#39;</span><span class="p">,</span><span class="s1">&#39;time&#39;</span><span class="p">,</span><span class="s1">&#39;stepRange&#39;</span><span class="p">,</span><span class="s1">&#39;values&#39;</span><span class="p">],</span>
@@ -1582,5 +1592,5 @@
 
             <span class="c1"># rr for second subgrid point is identified by step = 2</span>
-            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;a&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
+            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;ab&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
                               <span class="n">wherekeynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span> <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">142</span><span class="p">],</span>
                               <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;perturbationNumber&#39;</span><span class="p">,</span><span class="s1">&#39;date&#39;</span><span class="p">,</span><span class="s1">&#39;time&#39;</span><span class="p">,</span><span class="s1">&#39;stepRange&#39;</span><span class="p">,</span><span class="s1">&#39;values&#39;</span><span class="p">],</span>
@@ -1588,5 +1598,5 @@
                                          <span class="n">date</span><span class="o">.</span><span class="n">hour</span><span class="o">*</span><span class="mi">100</span><span class="p">,</span> <span class="s1">&#39;2&#39;</span><span class="p">,</span> <span class="n">lsp_new_np</span><span class="p">[</span><span class="n">inumb</span><span class="p">,:,</span><span class="n">it</span><span class="o">+</span><span class="mi">2</span><span class="p">]]</span>
                               <span class="p">)</span>
-            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;a&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
+            <span class="n">fluxfile</span><span class="o">.</span><span class="n">set_keys</span><span class="p">(</span><span class="n">tmpfile</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;ab&#39;</span><span class="p">,</span> <span class="n">strict</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
                               <span class="n">wherekeynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span> <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">143</span><span class="p">],</span>
                               <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;perturbationNumber&#39;</span><span class="p">,</span><span class="s1">&#39;date&#39;</span><span class="p">,</span><span class="s1">&#39;time&#39;</span><span class="p">,</span><span class="s1">&#39;stepRange&#39;</span><span class="p">,</span><span class="s1">&#39;values&#39;</span><span class="p">],</span>
@@ -1618,8 +1628,8 @@
 
         <span class="n">gribfile</span><span class="o">.</span><span class="n">copy_dummy_msg</span><span class="p">(</span><span class="n">ifile</span><span class="p">,</span> <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span>
-                      <span class="n">keyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">142</span><span class="p">],</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;w&#39;</span><span class="p">)</span>
+                      <span class="n">keyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">142</span><span class="p">],</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;wb&#39;</span><span class="p">)</span>
 
         <span class="n">gribfile</span><span class="o">.</span><span class="n">copy_dummy_msg</span><span class="p">(</span><span class="n">ifile</span><span class="p">,</span> <span class="n">keynames</span><span class="o">=</span><span class="p">[</span><span class="s1">&#39;paramId&#39;</span><span class="p">],</span>
-                      <span class="n">keyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">143</span><span class="p">],</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;a&#39;</span><span class="p">)</span>
+                      <span class="n">keyvalues</span><span class="o">=</span><span class="p">[</span><span class="mi">143</span><span class="p">],</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;ab&#39;</span><span class="p">)</span>
 
         <span class="k">return</span>
@@ -1664,9 +1674,14 @@
         <span class="n">end_period</span> <span class="o">=</span> <span class="n">end_period</span> <span class="o">+</span> <span class="n">timedelta</span><span class="p">(</span><span class="n">hours</span><span class="o">=</span><span class="nb">int</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">step</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]))</span>
 
-        <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">wrf</span><span class="p">:</span>
-            <span class="n">table128</span> <span class="o">=</span> <span class="n">init128</span><span class="p">(</span><span class="n">_config</span><span class="o">.</span><span class="n">PATH_GRIBTABLE</span><span class="p">)</span>
-            <span class="n">wrfpars</span> <span class="o">=</span> <span class="n">to_param_id</span><span class="p">(</span><span class="s1">&#39;sp/mslp/skt/2t/10u/10v/2d/z/lsm/sst/ci/sd/</span><span class="se">\</span>
-<span class="s1">                                   stl1/stl2/stl3/stl4/swvl1/swvl2/swvl3/swvl4&#39;</span><span class="p">,</span>
-                                  <span class="n">table128</span><span class="p">)</span>
+        <span class="c1"># @WRF</span>
+        <span class="c1"># THIS IS NOT YET CORRECTLY IMPLEMENTED !!!</span>
+        <span class="c1">#</span>
+        <span class="c1"># UNDER CONSTRUCTION !!!</span>
+        <span class="c1">#</span>
+        <span class="c1">#if c.wrf:</span>
+        <span class="c1">#    table128 = init128(_config.PATH_GRIBTABLE)</span>
+        <span class="c1">#    wrfpars = to_param_id(&#39;sp/mslp/skt/2t/10u/10v/2d/z/lsm/sst/ci/sd/\</span>
+        <span class="c1">#                           stl1/stl2/stl3/stl4/swvl1/swvl2/swvl3/swvl4&#39;,</span>
+        <span class="c1">#                          table128)</span>
 
         <span class="c1"># these numbers are indices for the temporary files &quot;fort.xx&quot;</span>
@@ -1720,5 +1735,5 @@
                 <span class="n">fortfile</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">inputdir</span><span class="p">,</span> <span class="s1">&#39;fort.&#39;</span> <span class="o">+</span> <span class="n">k</span><span class="p">)</span>
                 <span class="n">silent_remove</span><span class="p">(</span><span class="n">fortfile</span><span class="p">)</span>
-                <span class="n">fdict</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fortfile</span><span class="p">,</span> <span class="s1">&#39;w&#39;</span><span class="p">)</span>
+                <span class="n">fdict</span><span class="p">[</span><span class="n">k</span><span class="p">]</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fortfile</span><span class="p">,</span> <span class="s1">&#39;wb&#39;</span><span class="p">)</span>
 <span class="c1">#============================================================================================</span>
             <span class="c1"># create correct timestamp from the three time informations</span>
@@ -1747,9 +1762,14 @@
                     <span class="k">continue</span>
 
-            <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">wrf</span><span class="p">:</span>
-                <span class="k">if</span> <span class="s1">&#39;olddate&#39;</span> <span class="ow">not</span> <span class="ow">in</span> <span class="nb">locals</span><span class="p">()</span> <span class="ow">or</span> <span class="n">cdate</span> <span class="o">!=</span> <span class="n">olddate</span><span class="p">:</span>
-                    <span class="n">fwrf</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">c</span><span class="o">.</span><span class="n">outputdir</span><span class="p">,</span>
-                                <span class="s1">&#39;WRF&#39;</span> <span class="o">+</span> <span class="n">cdate</span> <span class="o">+</span> <span class="s1">&#39;.&#39;</span> <span class="o">+</span> <span class="n">ctime</span> <span class="o">+</span> <span class="s1">&#39;.000.grb2&#39;</span><span class="p">),</span> <span class="s1">&#39;w&#39;</span><span class="p">)</span>
-                    <span class="n">olddate</span> <span class="o">=</span> <span class="n">cdate</span><span class="p">[:]</span>
+            <span class="c1"># @WRF</span>
+            <span class="c1"># THIS IS NOT YET CORRECTLY IMPLEMENTED !!!</span>
+            <span class="c1">#</span>
+            <span class="c1"># UNDER CONSTRUCTION !!!</span>
+            <span class="c1">#</span>
+            <span class="c1">#if c.wrf:</span>
+            <span class="c1">#    if &#39;olddate&#39; not in locals() or cdate != olddate:</span>
+            <span class="c1">#        fwrf = open(os.path.join(c.outputdir,</span>
+            <span class="c1">#                    &#39;WRF&#39; + cdate + &#39;.&#39; + ctime + &#39;.000.grb2&#39;), &#39;wb&#39;)</span>
+            <span class="c1">#        olddate = cdate[:]</span>
 <span class="c1">#============================================================================================</span>
             <span class="c1"># savedfields remembers which fields were already used.</span>
@@ -1789,9 +1809,14 @@
                         <span class="n">codes_write</span><span class="p">(</span><span class="n">gid</span><span class="p">,</span> <span class="n">fdict</span><span class="p">[</span><span class="s1">&#39;22&#39;</span><span class="p">])</span>
                         <span class="n">scwc</span> <span class="o">=</span> <span class="kc">None</span>
-                <span class="k">elif</span> <span class="n">c</span><span class="o">.</span><span class="n">wrf</span> <span class="ow">and</span> <span class="n">paramId</span> <span class="ow">in</span> <span class="p">[</span><span class="mi">129</span><span class="p">,</span> <span class="mi">138</span><span class="p">,</span> <span class="mi">155</span><span class="p">]</span> <span class="ow">and</span> \
-                      <span class="n">levtype</span> <span class="o">==</span> <span class="s1">&#39;hybrid&#39;</span><span class="p">:</span> <span class="c1"># Z, VO, D</span>
-                    <span class="c1"># do not do anything right now</span>
-                    <span class="c1"># these are specific parameter for WRF</span>
-                    <span class="k">pass</span>
+                <span class="c1"># @WRF</span>
+                <span class="c1"># THIS IS NOT YET CORRECTLY IMPLEMENTED !!!</span>
+                <span class="c1">#</span>
+                <span class="c1"># UNDER CONSTRUCTION !!!</span>
+                <span class="c1">#</span>
+                <span class="c1">#elif c.wrf and paramId in [129, 138, 155] and \</span>
+                <span class="c1">#      levtype == &#39;hybrid&#39;: # Z, VO, D</span>
+                <span class="c1">#    # do not do anything right now</span>
+                <span class="c1">#    # these are specific parameter for WRF</span>
+                <span class="c1">#    pass</span>
                 <span class="k">else</span><span class="p">:</span>
                     <span class="k">if</span> <span class="n">paramId</span> <span class="ow">not</span> <span class="ow">in</span> <span class="n">savedfields</span><span class="p">:</span>
@@ -1802,16 +1827,20 @@
                     <span class="k">else</span><span class="p">:</span>
                         <span class="nb">print</span><span class="p">(</span><span class="s1">&#39;duplicate &#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">paramId</span><span class="p">)</span> <span class="o">+</span> <span class="s1">&#39; not written&#39;</span><span class="p">)</span>
-
-                <span class="k">try</span><span class="p">:</span>
-                    <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">wrf</span><span class="p">:</span>
-                        <span class="c1"># model layer</span>
-                        <span class="k">if</span> <span class="n">levtype</span> <span class="o">==</span> <span class="s1">&#39;hybrid&#39;</span> <span class="ow">and</span> \
-                           <span class="n">paramId</span> <span class="ow">in</span> <span class="p">[</span><span class="mi">129</span><span class="p">,</span> <span class="mi">130</span><span class="p">,</span> <span class="mi">131</span><span class="p">,</span> <span class="mi">132</span><span class="p">,</span> <span class="mi">133</span><span class="p">,</span> <span class="mi">138</span><span class="p">,</span> <span class="mi">155</span><span class="p">]:</span>
-                            <span class="n">codes_write</span><span class="p">(</span><span class="n">gid</span><span class="p">,</span> <span class="n">fwrf</span><span class="p">)</span>
-                        <span class="c1"># sfc layer</span>
-                        <span class="k">elif</span> <span class="n">paramId</span> <span class="ow">in</span> <span class="n">wrfpars</span><span class="p">:</span>
-                            <span class="n">codes_write</span><span class="p">(</span><span class="n">gid</span><span class="p">,</span> <span class="n">fwrf</span><span class="p">)</span>
-                <span class="k">except</span> <span class="ne">AttributeError</span><span class="p">:</span>
-                    <span class="k">pass</span>
+                <span class="c1"># @WRF</span>
+                <span class="c1"># THIS IS NOT YET CORRECTLY IMPLEMENTED !!!</span>
+                <span class="c1">#</span>
+                <span class="c1"># UNDER CONSTRUCTION !!!</span>
+                <span class="c1">#</span>
+                <span class="c1">#try:</span>
+                <span class="c1">#    if c.wrf:</span>
+                <span class="c1">#        # model layer</span>
+                <span class="c1">#        if levtype == &#39;hybrid&#39; and \</span>
+                <span class="c1">#           paramId in [129, 130, 131, 132, 133, 138, 155]:</span>
+                <span class="c1">#            codes_write(gid, fwrf)</span>
+                <span class="c1">#        # sfc layer</span>
+                <span class="c1">#        elif paramId in wrfpars:</span>
+                <span class="c1">#            codes_write(gid, fwrf)</span>
+                <span class="c1">#except AttributeError:</span>
+                <span class="c1">#    pass</span>
 
                 <span class="n">codes_release</span><span class="p">(</span><span class="n">gid</span><span class="p">)</span>
@@ -1883,6 +1912,12 @@
                                             <span class="s1">&#39;rb&#39;</span><span class="p">),</span> <span class="n">fout</span><span class="p">)</span>
 <span class="c1"># ============================================================================================</span>
-        <span class="k">if</span> <span class="n">c</span><span class="o">.</span><span class="n">wrf</span><span class="p">:</span>
-            <span class="n">fwrf</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+
+        <span class="c1"># @WRF</span>
+        <span class="c1"># THIS IS NOT YET CORRECTLY IMPLEMENTED !!!</span>
+        <span class="c1">#</span>
+        <span class="c1"># UNDER CONSTRUCTION !!!</span>
+        <span class="c1">#</span>
+        <span class="c1">#if c.wrf:</span>
+        <span class="c1">#    fwrf.close()</span>
 
         <span class="n">codes_index_release</span><span class="p">(</span><span class="n">iid</span><span class="p">)</span>
@@ -1918,4 +1953,5 @@
         <span class="c1"># get a list of all prepared output files with control forecast (CF)</span>
         <span class="n">CF_filelist</span> <span class="o">=</span> <span class="n">UioFiles</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">prefix</span> <span class="o">+</span> <span class="s1">&#39;*.N000&#39;</span><span class="p">)</span>
+        <span class="n">CF_filelist</span><span class="o">.</span><span class="n">files</span> <span class="o">=</span> <span class="nb">sorted</span><span class="p">(</span><span class="n">CF_filelist</span><span class="o">.</span><span class="n">files</span><span class="p">)</span>
 
         <span class="k">for</span> <span class="n">cffile</span> <span class="ow">in</span> <span class="n">CF_filelist</span><span class="o">.</span><span class="n">files</span><span class="p">:</span>
@@ -1931,5 +1967,4 @@
             <span class="n">filename</span> <span class="o">=</span> <span class="n">cffile</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;N000&#39;</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
             <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">maxnum</span> <span class="o">+</span> <span class="mi">1</span><span class="p">):</span>
-
                 <span class="c1"># read an ensemble member</span>
                 <span class="n">g</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">filename</span> <span class="o">+</span> <span class="s1">&#39;N</span><span class="si">{:0&gt;3}</span><span class="s1">&#39;</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">i</span><span class="p">),</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span>
Index: Documentation/html/_modules/GribUtil.html
===================================================================
--- Documentation/html/_modules/GribUtil.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/GribUtil.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for GribUtil</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -175,29 +175,13 @@
 <span class="c1">#</span>
 <span class="c1"># @License:</span>
-<span class="c1">#    (C) Copyright 2014-2018.</span>
+<span class="c1">#    (C) Copyright 2014-2019.</span>
+<span class="c1">#    Anne Philipp, Leopold Haimberger</span>
 <span class="c1">#</span>
-<span class="c1">#    This software is licensed under the terms of the Apache Licence Version 2.0</span>
-<span class="c1">#    which can be obtained at http://www.apache.org/licenses/LICENSE-2.0.</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
-<span class="c1"># @Class Description:</span>
-<span class="c1">#    The GRIB API provides all necessary tools to work directly with the</span>
-<span class="c1">#    grib files. Nevertheless, the GRIB API tools are very basic and are in</span>
-<span class="c1">#    direct connection with the grib files. This class provides some higher</span>
-<span class="c1">#    functions which apply a set of GRIB API tools together in the respective</span>
-<span class="c1">#    context. So, the class initially contains a list of grib files (their</span>
-<span class="c1">#    names) and the using program then applies the methods directly on the</span>
-<span class="c1">#    class objects without having to think about how the actual GRIB API</span>
-<span class="c1">#    tools have to be arranged.</span>
-<span class="c1">#</span>
-<span class="c1"># @Class Content:</span>
-<span class="c1">#    - __init__</span>
-<span class="c1">#    - get_keys</span>
-<span class="c1">#    - set_keys</span>
-<span class="c1">#    - copy_dummy_msg</span>
-<span class="c1">#    - index</span>
-<span class="c1">#</span>
-<span class="c1"># @Class Attributes:</span>
-<span class="c1">#    - filenames</span>
-<span class="c1">#</span>
+<span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
+<span class="c1">#    International License. To view a copy of this license, visit</span>
+<span class="c1">#    http://creativecommons.org/licenses/by/4.0/ or send a letter to</span>
+<span class="c1">#    Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.</span>
 <span class="c1">#*******************************************************************************</span>
 
@@ -215,4 +199,13 @@
     <span class="sd">&#39;&#39;&#39;</span>
 <span class="sd">    Class for GRIB utilities (new methods) based on GRIB API</span>
+
+<span class="sd">    The GRIB API provides all necessary tools to work directly with the</span>
+<span class="sd">    grib files. Nevertheless, the GRIB API tools are very basic and are in</span>
+<span class="sd">    direct connection with the grib files. This class provides some higher</span>
+<span class="sd">    functions which apply a set of GRIB API tools together in the respective</span>
+<span class="sd">    context. So, the class initially contains a list of grib files (their</span>
+<span class="sd">    names) and the using program then applies the methods directly on the</span>
+<span class="sd">    class objects without having to think about how the actual GRIB API</span>
+<span class="sd">    tools have to be arranged.</span>
 <span class="sd">    &#39;&#39;&#39;</span>
     <span class="c1"># --------------------------------------------------------------------------</span>
@@ -260,13 +253,9 @@
                              <span class="n">codes_release</span><span class="p">)</span>
 
-        <span class="n">fileid</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">filenames</span><span class="p">,</span> <span class="s1">&#39;r&#39;</span><span class="p">)</span>
-
         <span class="n">return_list</span> <span class="o">=</span> <span class="p">[]</span>
 
-        <span class="k">while</span> <span class="mi">1</span><span class="p">:</span>
+        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">filenames</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fileid</span><span class="p">:</span>
+
             <span class="n">gid</span> <span class="o">=</span> <span class="n">codes_new_from_file</span><span class="p">(</span><span class="n">fileid</span><span class="p">)</span>
-
-            <span class="k">if</span> <span class="n">gid</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-                <span class="k">break</span>
 
             <span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">wherekeynames</span><span class="p">)</span> <span class="o">!=</span> <span class="nb">len</span><span class="p">(</span><span class="n">wherekeyvalues</span><span class="p">):</span>
@@ -292,11 +281,9 @@
             <span class="n">codes_release</span><span class="p">(</span><span class="n">gid</span><span class="p">)</span>
 
-        <span class="n">fileid</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
-
         <span class="k">return</span> <span class="n">return_list</span></div>
 
 
 <div class="viewcode-block" id="GribUtil.set_keys"><a class="viewcode-back" href="../Documentation/Api/api_python.html#GribUtil.GribUtil.set_keys">[docs]</a>    <span class="k">def</span> <span class="nf">set_keys</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">fromfile</span><span class="p">,</span> <span class="n">keynames</span><span class="p">,</span> <span class="n">keyvalues</span><span class="p">,</span> <span class="n">wherekeynames</span><span class="o">=</span><span class="p">[],</span>
-                 <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[],</span> <span class="n">strict</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;w&#39;</span><span class="p">):</span>
+                 <span class="n">wherekeyvalues</span><span class="o">=</span><span class="p">[],</span> <span class="n">strict</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;wb&#39;</span><span class="p">):</span>
         <span class="sd">&#39;&#39;&#39;Opens the file to read the grib messages and then write</span>
 <span class="sd">        the selected messages (with wherekeys) to a new output file.</span>
@@ -330,5 +317,5 @@
 
 <span class="sd">        filemode : :obj:`string`, optional</span>
-<span class="sd">            Sets the mode for the output file. Default is &quot;w&quot;.</span>
+<span class="sd">            Sets the mode for the output file. Default is &quot;wb&quot;.</span>
 
 <span class="sd">        Return</span>
@@ -344,11 +331,7 @@
 
         <span class="n">fout</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">filenames</span><span class="p">,</span> <span class="n">filemode</span><span class="p">)</span>
-        <span class="n">fin</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">fromfile</span><span class="p">)</span>
-
-        <span class="k">while</span> <span class="mi">1</span><span class="p">:</span>
+
+        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">fromfile</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
             <span class="n">gid</span> <span class="o">=</span> <span class="n">codes_grib_new_from_file</span><span class="p">(</span><span class="n">fin</span><span class="p">)</span>
-
-            <span class="k">if</span> <span class="n">gid</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-                <span class="k">break</span>
 
             <span class="n">select</span> <span class="o">=</span> <span class="kc">True</span>
@@ -375,5 +358,4 @@
             <span class="n">codes_release</span><span class="p">(</span><span class="n">gid</span><span class="p">)</span>
 
-        <span class="n">fin</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
         <span class="n">fout</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 
@@ -381,5 +363,5 @@
 
 <div class="viewcode-block" id="GribUtil.copy_dummy_msg"><a class="viewcode-back" href="../Documentation/Api/api_python.html#GribUtil.GribUtil.copy_dummy_msg">[docs]</a>    <span class="k">def</span> <span class="nf">copy_dummy_msg</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">filename_in</span><span class="p">,</span> <span class="n">selectWhere</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
-                 <span class="n">keynames</span><span class="o">=</span><span class="p">[],</span> <span class="n">keyvalues</span><span class="o">=</span><span class="p">[],</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;w&#39;</span><span class="p">):</span>
+                 <span class="n">keynames</span><span class="o">=</span><span class="p">[],</span> <span class="n">keyvalues</span><span class="o">=</span><span class="p">[],</span> <span class="n">filemode</span><span class="o">=</span><span class="s1">&#39;wb&#39;</span><span class="p">):</span>
         <span class="sd">&#39;&#39;&#39;Add the content of another input grib file to the objects file but</span>
 <span class="sd">        only messages corresponding to keys/values passed to the function.</span>
@@ -404,5 +386,5 @@
 
 <span class="sd">        filemode : :obj:`string`, optional</span>
-<span class="sd">            Sets the mode for the output file. Default is &quot;w&quot;.</span>
+<span class="sd">            Sets the mode for the output file. Default is &quot;wb&quot;.</span>
 
 <span class="sd">        Return</span>
@@ -416,14 +398,15 @@
             <span class="k">raise</span> <span class="ne">Exception</span><span class="p">(</span><span class="s2">&quot;Give a value for each keyname!&quot;</span><span class="p">)</span>
 
-        <span class="n">fin</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="n">filename_in</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span>
+
         <span class="n">fout</span> <span class="o">=</span> <span class="nb">open</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">filenames</span><span class="p">,</span> <span class="n">filemode</span><span class="p">)</span>
 
         <span class="n">fields</span> <span class="o">=</span> <span class="mi">0</span>
 
-        <span class="k">while</span> <span class="n">fields</span> <span class="o">&lt;</span> <span class="mi">1</span><span class="p">:</span>
+        <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">filename_in</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">fin</span><span class="p">:</span>
+            <span class="k">if</span> <span class="n">fields</span> <span class="o">&gt;=</span> <span class="mi">1</span><span class="p">:</span>
+                <span class="n">fout</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
+                <span class="k">return</span>
+
             <span class="n">gid</span> <span class="o">=</span> <span class="n">codes_grib_new_from_file</span><span class="p">(</span><span class="n">fin</span><span class="p">)</span>
-
-            <span class="k">if</span> <span class="n">gid</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
-                <span class="k">break</span>
 
             <span class="n">select</span> <span class="o">=</span> <span class="kc">True</span>
@@ -447,5 +430,4 @@
             <span class="n">codes_release</span><span class="p">(</span><span class="n">gid</span><span class="p">)</span>
 
-        <span class="n">fin</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
         <span class="n">fout</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
 
Index: Documentation/html/_modules/MarsRetrieval.html
===================================================================
--- Documentation/html/_modules/MarsRetrieval.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/MarsRetrieval.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for MarsRetrieval</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -185,4 +185,6 @@
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
 <span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
+<span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
 <span class="c1">#    International License. To view a copy of this license, visit</span>
@@ -648,5 +650,5 @@
             <span class="k">del</span> <span class="n">attrs</span><span class="p">[</span><span class="n">key</span><span class="p">]</span>
 
-        <span class="n">attrs</span><span class="p">[</span><span class="s1">&#39;ppengine&#39;</span><span class="p">]</span> <span class="o">=</span> <span class="s1">&#39;emos&#39;</span>
+<span class="c1">#        attrs[&#39;ppengine&#39;] = &#39;emos&#39;</span>
 
         <span class="c1"># MARS request via Python script</span>
@@ -680,5 +682,5 @@
                 <span class="n">request_str</span> <span class="o">=</span> <span class="n">request_str</span> <span class="o">+</span> <span class="s1">&#39;,&#39;</span> <span class="o">+</span> <span class="n">key</span> <span class="o">+</span> <span class="s1">&#39;=&#39;</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">value</span><span class="p">)</span>
             <span class="n">request_str</span> <span class="o">+=</span> <span class="s1">&#39;,target=&quot;&#39;</span> <span class="o">+</span> <span class="n">target</span> <span class="o">+</span> <span class="s1">&#39;&quot;&#39;</span>
-            <span class="n">p</span> <span class="o">=</span> <span class="n">subprocess</span><span class="o">.</span><span class="n">Popen</span><span class="p">([</span><span class="s1">&#39;mars&#39;</span><span class="p">,</span> <span class="s1">&#39;-e&#39;</span><span class="p">],</span>
+            <span class="n">p</span> <span class="o">=</span> <span class="n">subprocess</span><span class="o">.</span><span class="n">Popen</span><span class="p">([</span><span class="s1">&#39;mars&#39;</span><span class="p">],</span> <span class="c1">#&#39;-e&#39;],</span>
                                  <span class="n">stdin</span><span class="o">=</span><span class="n">subprocess</span><span class="o">.</span><span class="n">PIPE</span><span class="p">,</span>
                                  <span class="n">stdout</span><span class="o">=</span><span class="n">subprocess</span><span class="o">.</span><span class="n">PIPE</span><span class="p">,</span>
Index: Documentation/html/_modules/UioFiles.html
===================================================================
--- Documentation/html/_modules/UioFiles.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/UioFiles.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for UioFiles</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -188,4 +188,6 @@
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
 <span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
+<span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
 <span class="c1">#    International License. To view a copy of this license, visit</span>
Index: Documentation/html/_modules/checks.html
===================================================================
--- Documentation/html/_modules/checks.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/checks.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for checks</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -173,4 +173,6 @@
 <span class="c1">#    (C) Copyright 2014-2019.</span>
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
+<span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
Index: Documentation/html/_modules/disaggregation.html
===================================================================
--- Documentation/html/_modules/disaggregation.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/disaggregation.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for disaggregation</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -184,4 +184,6 @@
 <span class="c1">#    (C) Copyright 2014-2019.</span>
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
+<span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
Index: Documentation/html/_modules/get_mars_data.html
===================================================================
--- Documentation/html/_modules/get_mars_data.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/get_mars_data.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for get_mars_data</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -190,4 +190,6 @@
 <span class="c1">#    (C) Copyright 2014-2019.</span>
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
+<span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
Index: Documentation/html/_modules/install.html
===================================================================
--- Documentation/html/_modules/install.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/install.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for install</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -183,4 +183,6 @@
 <span class="c1">#    (C) Copyright 2014-2019.</span>
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
+<span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
Index: Documentation/html/_modules/prepare_flexpart.html
===================================================================
--- Documentation/html/_modules/prepare_flexpart.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/prepare_flexpart.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for prepare_flexpart</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -193,4 +193,6 @@
 <span class="c1">#    (C) Copyright 2014-2019.</span>
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
+<span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
Index: Documentation/html/_modules/submit.html
===================================================================
--- Documentation/html/_modules/submit.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/submit.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for submit</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -187,4 +187,6 @@
 <span class="c1">#    (C) Copyright 2014-2019.</span>
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
+<span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
Index: Documentation/html/_modules/tools.html
===================================================================
--- Documentation/html/_modules/tools.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_modules/tools.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -161,5 +161,5 @@
             
   <h1>Source code for tools</h1><div class="highlight"><pre>
-<span></span><span class="ch">#!/usr/bin/env python</span>
+<span></span><span class="ch">#!/usr/bin/env python3</span>
 <span class="c1"># -*- coding: utf-8 -*-</span>
 <span class="c1">#*******************************************************************************</span>
@@ -188,4 +188,6 @@
 <span class="c1">#    (C) Copyright 2014-2019.</span>
 <span class="c1">#    Anne Philipp, Leopold Haimberger</span>
+<span class="c1">#</span>
+<span class="c1">#    SPDX-License-Identifier: CC-BY-4.0</span>
 <span class="c1">#</span>
 <span class="c1">#    This work is licensed under the Creative Commons Attribution 4.0</span>
@@ -923,5 +925,5 @@
     <span class="c1"># --- open file ---</span>
     <span class="nb">print</span><span class="p">(</span><span class="s2">&quot;Opening file for getting information data --- </span><span class="si">%s</span><span class="s2">&quot;</span> <span class="o">%</span> <span class="n">filename</span><span class="p">)</span>
-    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">filename</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
+    <span class="k">with</span> <span class="nb">open</span><span class="p">(</span><span class="n">filename</span><span class="p">,</span> <span class="s1">&#39;rb&#39;</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
         <span class="c1"># load first message from file</span>
         <span class="n">gid</span> <span class="o">=</span> <span class="n">codes_grib_new_from_file</span><span class="p">(</span><span class="n">f</span><span class="p">)</span>
Index: Documentation/html/_sources/Documentation/Input/ecmwf_env.rst.txt
===================================================================
--- Documentation/html/_sources/Documentation/Input/ecmwf_env.rst.txt	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_sources/Documentation/Input/ecmwf_env.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -3,5 +3,5 @@
 ****************************************
 
-This file contains the user credentials for working on ECMWF servers and transfering files between the ECMWF servers and the local gateway server. It is located in the ``flex_extract_vX.X/run`` directory and will be created in the installation process for the application modes **remote** and **gateway**.
+This file contains the user credentials for working on ECMWF servers and transferring files between the ECMWF servers and the local gateway server. It is located in the ``flex_extract_vX.X/run`` directory and will be created in the installation process for the application modes **remote** and **gateway**.
 
 This file is based on the template ``ECMWF_ENV.template`` which is located in the ``templates`` directory.
Index: Documentation/html/_sources/Installation/gateway.rst.txt
===================================================================
--- Documentation/html/_sources/Installation/gateway.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
+++ Documentation/html/_sources/Installation/gateway.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -0,0 +1,172 @@
+*************************
+Gateway mode installation
+*************************
+
+.. role:: underline
+    :class: underline
+    
+.. toctree::
+    :hidden:
+    :maxdepth: 3
+    
+.. _Python 3: https://docs.python.org/3/
+.. _Python3: https://www.python.org/downloads/
+.. _Anaconda Python3: https://www.anaconda.com/distribution/#download-section
+
+.. _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 conda: https://anaconda.org/conda-forge/eccodes
+.. _gfortran: https://gcc.gnu.org/wiki/GFortran
+.. _fftw3: http://www.fftw.org
+.. _eccodes: https://software.ecmwf.int/wiki/display/ECC
+.. _emoslib: https://software.ecmwf.int/wiki/display/EMOS/Emoslib
+.. _member state: https://www.ecmwf.int/en/about/who-we-are/member-states 
+.. _registration form: https://apps.ecmwf.int/registration/
+.. _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
+.. _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-gateway-mode:
+
+
+
+.. _ref-req-gateway: 
+ 
+Gateway environment requirements
+================================
+
+The environment on your local system has to provide these software packages
+and libraries, since ``flex_extract`` does only prepare the job script and send
+it to the ECMWF servers:
+    
+* `Python3`_ or `Anaconda Python3`_
+* `numpy`_
+* `genshi`_
+ 
+
+.. _ref-prep-gateway:
+
+Prepare gateway environment
+===========================
+
+The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
+The installation was tested on a *GNU/Linux Debian buster* and an *Ubuntu 18.04 Bionic Beaver* system.
+
+.. code-block:: sh
+
+   # On a Linux Debian or Ubuntu system do
+   # (if not already available):
+   apt-get install python3
+   apt-get install pip
+   apt-get install genshi
+   apt-get install numpy
+
+
+.. _ref-test-gateway:
+
+Test gateway environment
+========================
+ 
+Check the availability of the python packages by typing ``python3`` in
+a terminal window and run the ``import`` commands in the python shell. 
+If there are no error messages, you succeeded in setting up the environment.
+
+.. code-block:: python
+    
+   # check in python3 console
+   import genshi
+   import numpy
+ 
+
+
+.. _ref-install-gateway:
+
+Gateway installation
+====================
+
+In this mode, access to the ECMWF computing and archiving facilities is enabled through an ECaccess gateway server on a local member state server. The ECaccess framework is necessary to interactively submit jobs to the ECMWF batch system and to transfer files between ECMWF and local gateway server. 
+
+Please see `ECMWF's instructions on gateway server`_ to establish the gateway server if not already in place.
+Additionally, to be able to use the Ecaccess file transfer service **ectrans** please also create an association. 
+The easiest way is to visit the ECaccess Member State Gateway website (e.g. msgatway.ecmwf.int) and follow the instructions in the short `ECaccess Presentation`_ (page 17 ff.). Additional documentation can be found on the `ECMWF ectrans site`_.
+
+After everything is set up you have to create an *ecaccess certificate* to be able to send and receive files from and to the ECMWF server. You can do this by using the ``ecaccess-certificate-create`` command on the gateway server. You will be prompted for your ECMWF member state user name and a password (which will be usually generated by a Token). This certificate has to be re-newed periodically (every 7 days). 
+
+.. code-block:: bash
+   
+   $ ecaccess-certificate-create
+   Please enter your user-id: example_username
+   Your passcode: ***
+   
+``Flex_extract`` will be run on an ECMWF server which makes the setup the same as for the **remote mode**. In the ``setup.sh`` script `[ref] <Documentation/Input/setup.html>`_, select the ``Makefile.gfortran`` for the ``CONVERT2`` Fortran program and the ECMWF server (*target*) you would like to use. 
+The job script, send to the job queue via the ECaccess software, selects again automatically the correct libraries from the module system. For enableing the file transfer you have to set the *ECUID*, *ECGID*, *GATEWAY* and *DESTINATION* parameter values.
+ 
+
+.. code-block:: bash
+    :caption: 'Example settings for a gateway installation.'
+    :name: setup.sh
+    
+    # -----------------------------------------------------------------
+    # AVAILABLE COMMANDLINE ARGUMENTS TO SET
+    #
+    # THE USER HAS TO SPECIFY THESE PARAMETER
+    #
+    TARGET='ecgate'
+    MAKEFILE='Makefile.gfortran'
+    ECUID='uid'
+    ECGID='gid'
+    GATEWAY='server.example.edu'
+    DESTINATION='example@genericSftp'
+    INSTALLDIR=None
+    JOB_TEMPLATE='job.template'
+    CONTROLFILE='CONTROL_EA5'
+
+
+Afterwards, type:
+
+.. code-block:: bash
+
+   $ ./setup.sh
+   
+to start the installation. You should see the following output at the command line. 
+    
+    
+.. code-block:: bash
+
+   # Output of setup.sh
+   Create tarball ...
+   Job compilation script has been submitted to ecgate for installation in ${HOME}/flex_extract_vX.X
+   You should get an email with subject "flexcompile" within the next few minutes!
+
+    
+The email content should look like this with a "SUCCESS" statement in the last line:
+
+.. code-block:: bash
+
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp phgrreal.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp grphreal.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp ftrafo.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3   
+    -rwxr-x---. 1 USER at 353134 May 23 12:27 CONVERT2
+    SUCCESS!    
+    
+    
+    
+    
+
+    
+    
+         
Index: Documentation/html/_sources/Installation/local.rst.txt
===================================================================
--- Documentation/html/_sources/Installation/local.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
+++ Documentation/html/_sources/Installation/local.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -0,0 +1,391 @@
+***********************
+Local mode installation
+***********************
+
+.. role:: underline
+    :class: underline
+    
+.. toctree::
+    :hidden:
+    :maxdepth: 2
+         
+    
+.. _Python 3: https://docs.python.org/3/
+.. _Python3: https://www.python.org/downloads/
+.. _Anaconda Python3: https://www.anaconda.com/distribution/#download-section
+
+.. _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 conda: https://anaconda.org/conda-forge/eccodes
+.. _gfortran: https://gcc.gnu.org/wiki/GFortran
+.. _fftw3: http://www.fftw.org
+.. _eccodes: https://software.ecmwf.int/wiki/display/ECC
+.. _emoslib: https://software.ecmwf.int/wiki/display/EMOS/Emoslib
+.. _member state: https://www.ecmwf.int/en/about/who-we-are/member-states 
+.. _registration form: https://apps.ecmwf.int/registration/
+.. _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
+.. _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 environment requirements
+==============================
+
+For the local access modes **member** and **public** there is no difference in 
+the installation process.
+
+The environment on your local system has to provide these software packages
+and libraries, since all extraction and preparation is done at the local system:
+
++------------------------------------------------+-----------------+
+|  Python part                                   | Fortran part    |
++------------------------------------------------+-----------------+
+| * `Python3`_                                   | * `gfortran`_   |
+| * `numpy`_                                     | * `fftw3`_      |
+| * `genshi`_                                    | * `eccodes`_    |
+| * `eccodes for python`_                        | * `emoslib`_    |
+| * `ecmwf-api-client`_ (everything except ERA5) |                 |
+| * `cdsapi`_ (just for ERA5)                    |                 |
++------------------------------------------------+-----------------+
+
+
+.. _ref-prep-local:
+
+Prepare local environment
+=========================
+
+The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
+The installation was tested on a *Debian GNU/Linux buster/sid* and an *Ubuntu 18.04 Bionic Beaver* system.
+
+.. code-block:: sh
+
+   # On a Linux Debian or Ubuntu system do
+   # (if not already available):
+   apt-get install python3 (usually available on normal Linux systems)
+   apt-get install pip
+   apt-get install gfortran
+   apt-get install fftw3-dev 
+   apt-get install libeccodes-dev
+   apt-get install libemos-dev 
+   apt-get install python3-eccodes
+   apt-get install genshi
+   apt-get install numpy
+   pip install cdsapi 
+   pip install ecmwf-api-client 
+
+.. note::
+
+    In case you would like to use Anaconda Python we recommend you follow the installation instructions of 
+    `Anaconda Python Installation for Linux <https://docs.anaconda.com/anaconda/install/linux/>`_ and then install the
+    ``eccodes`` package from ``conda`` with:
+
+    .. code-block:: bash
+
+       conda install conda-forge::python-eccodes
+
+
+The CDS API (cdsapi) and the ECMWF Web API (ecmwf-api-client) have both to be installed since ERA5 can only be retrieved with the ``CDS API`` and all other datasets with the ``ECMWF Web API``.     
+       
+.. note:: 
+
+    Since **public users** currently don't have access to the full *ERA5* dataset they can skip the installation of the ``CDS API``. 
+    
+Both user groups have to provide key's with their credentials for the Web API's in their home directory. Therefore, follow these instructions:
+   
+ECMWF Web API:
+   Go to `MARS access`_ website and log in with your credentials. Afterwards, on this site in section "Install ECMWF KEY" the key for the ECMWF Web API should be listed. Please follow the instructions in this section under point 1 (save the key in a file `.ecmwfapirc` in your home directory). 
+     
+CDS API:
+   Go to 'CDS API registration'_ and register there too. Log in at the `cdsapi`_ website and follow the instructions at section "Install the CDS API key" to save your credentials in a `.cdsapirc` file.
+     
+
+.. _ref-test-local:
+   
+Test local environment
+======================
+
+Check the availability of the system packages with ``dpkg -s <package-name> |  grep Status`` or ``rpm -q <package_name>``, depending on your system. For example: 
+
+.. code-block:: sh
+
+   $ dpkg -s libeccodes-dev |  grep Status
+   # or
+   $ rpm -q libeccodes-dev
+ 
+Afterwards, check the availability of the python packages by typing ``python3`` in
+a terminal window and run the ``import`` commands in the python shell. If there are no error messages, you succeeded in setting up the environment.
+
+.. code-block:: python
+    
+   # check in python3 console
+   import eccodes
+   import genshi
+   import numpy
+   import cdsapi
+   import ecmwfapi
+   
+
+
+Test the Web API's
+------------------
+
+You can start very simple test retrievals for both Web API's to be sure that everything works. This is recommended to minimize the range of possible errors using ``flex_extract`` later on.
+
+ECMWF Web API
+^^^^^^^^^^^^^
+
+
++----------------------------------------------------------+----------------------------------------------------------+
+|Please use this piece of python code for **Member user**: |Please use this piece of python code for **Public user**: |
++----------------------------------------------------------+----------------------------------------------------------+
+|.. code-block:: python                                    |.. code-block:: python                                    |
+|                                                          |                                                          |
+|    from ecmwfapi import ECMWFService                     |    from ecmwfapi import ECMWFDataServer                  |
+|                                                          |                                                          |
+|    server = ECMWFService('mars')                         |    server = ECMWFDataServer()                            |
+|                                                          |                                                          |
+|    server.retrieve({                                     |    server.retrieve({                                     |
+|        'stream'    : "oper",                             |        'stream'    : "enda",                             |
+|        'levtype'   : "sfc",                              |        'levtype'   : "sfc",                              |
+|        'param'     : "165.128/166.128/167.128",          |        'param'     : "165.128/166.128/167.128",          |
+|        'dataset'   : "interim",                          |        'dataset'   : "cera20c",                          |
+|        'step'      : "0",                                |        'step'      : "0",                                |
+|        'grid'      : "0.75/0.75",                        |        'grid'      : "1./1.",                            |
+|        'time'      : "00/06/12/18",                      |        'time'      : "00/06/12/18",                      |
+|        'date'      : "2014-07-01/to/2014-07-31",         |        'date'      : "2000-07-01/to/2000-07-31",         |
+|        'type'      : "an",                               |        'type'      : "an",                               |
+|        'class'     : "ei",                               |        'class'     : "ep",                               |
+|        'target'    : "download_erainterim_ecmwfapi.grib" |        'target'    : "download_cera20c_ecmwfapi.grib"    |
+|    })                                                    |    })                                                    |
++----------------------------------------------------------+----------------------------------------------------------+
+
+            
+    
+CDS API 
+^^^^^^^
+
+Since ERA5 extraction with CDS API might take some time due to the very high number of requests, you can start by retrieving some online stored pressure levels (not from MARS). This is usually much faster and gives a quick result to find out if the web API works:
+
+Please use this piece of python code to retrieve a small sample of *ERA5* pressure levels:
+
+.. code-block:: python
+
+    import cdsapi
+    
+    c = cdsapi.Client()
+    
+    c.retrieve("reanalysis-era5-pressure-levels",
+    {
+    "variable": "temperature",
+    "pressure_level": "1000",
+    "product_type": "reanalysis",
+    "year": "2008",
+    "month": "01",
+    "day": "01",
+    "time": "12:00",
+    "format": "grib"
+    },
+    "download_cdsapi.grib")
+
+
+Afterwards, when you know that the CDS API generally works, you can try to extract some
+data from the MARS archive. From the latest experience we know that this can take a while.    
+
+.. **Member user**
+
+Please use this piece of python code to retrieve a small *ERA5* data sample as a **member user**! The **public user** doesn't have access to the full *ERA5* dataset!
+
+.. code-block:: python
+
+   import cdsapi
+   
+   c = cdsapi.Client()
+   
+   c.retrieve('reanalysis-era5-complete',
+   {
+       'class'   : 'ea',
+       'expver'  : '1',
+       'stream'  : 'oper',
+       'type'    : 'fc',
+       'step'    : '3/to/12/by/3',
+       'param'   : '130.128',
+       'levtype' : 'ml',
+       'levelist': '135/to/137',
+       'date'    : '2013-01-01',
+       'time'    : '06/18',
+       'area'    : '50/-5/40/5',
+       'grid'    : '1.0/1.0', 
+       'format'  : 'grib',
+   }, 'download_era5_cdsapi.grib')
+
+
+..  ********************** COMMENTED OUT FOR FUTURE 
+    ********************** PUBLIC RETRIEVAL IS CURRENTLY NOT ACCESSIBLE 
+   
+    **Public user**
+    Please use this piece of python code: 
+
+    .. code-block:: python
+
+       import cdsapi
+       
+       c = cdsapi.Client()
+       
+       c.retrieve('reanalysis-era5-complete',
+       {
+           'class'   : 'ea',
+           'dataset' : 'era5',
+           'expver'  : '1',
+           'stream'  : 'oper',
+           'type'    : 'fc',
+           'step'    : '3/to/12/by/3',
+           'param'   : '130.128',
+           'levtype' : 'ml',
+           'levelist': '135/to/137',
+           'date'    : '2013-01-01',
+           'time'    : '06/18',
+           'area'    : '50/-5/40/5',
+           'grid'    : '1.0/1.0', 
+           'format'  : 'grib',
+       }, 'download_era5_cdsapi.grib')
+
+
+
+
+
+
+.. _ref-install-local:
+
+Local installation
+==================
+
+First prepare the Fortran ``Makefile`` for your environment and set it
+in the ``setup.sh`` script. (See section :ref:`ref-convert` for information on 
+the Fortran program.)
+``flex_extract`` has already two ``Makefiles`` prepared for te ``gfortran`` and 
+the ``ifort`` compiler:
+
+ * Makefile.local.gfortran
+ * Makefile.local.ifort
+
+They can be found in the path ``flex_extract_vX.X/source/fortran``, where
+``vX.X`` should be substituted with the current version number.
+
+.. caution::   
+   It is necessary to adapt **ECCODES_INCLUDE_DIR** and **ECCODES_LIB** in these
+   ``Makefiles``.
+
+
+So starting from the root directory of ``flex_extract``, 
+go to the ``Fortran`` source directory and open the ``Makefile`` of your 
+choice to modify with an editor of your choice. We use the ``nedit`` in this case.
+
+.. code-block:: bash 
+
+   cd flex_extract_vX.X/source/fortran
+   nedit Makefile.local.gfortran
+
+Edit the pathes to the ``eccodes`` library on your local machine. 
+
+.. 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.
+   
+Substitute these paths in the ``Makefile`` for parameters **ECCODES_INCLUDE_DIR**
+and **ECCODES_LIB** and save it.
+
+.. code-block:: bash
+
+   # these are the paths on a current Debian 10 Testing system (May 2019)
+   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 ``CONVERT2`` will be compiled during the 
+installation process to get an executable. Therefore the ``Makefile``
+has to be set in the ``setup.sh`` script.
+
+In the root directory of ``flex_extract``, open the ``setup.sh`` script 
+and adapt the installation parameters in the section labelled with 
+"AVAILABLE COMMANDLINE ARGUMENTS TO SET" like shown below.
+
+
+.. code-block:: bash
+   :caption: 'Example settings for a local installation.'
+   :name: setup.sh
+   
+   ...
+   # -----------------------------------------------------------------
+   # AVAILABLE COMMANDLINE ARGUMENTS TO SET
+   #
+   # THE USER HAS TO SPECIFY THESE PARAMETER
+   #
+   TARGET='local'
+   MAKEFILE='Makefile.local.gfortran'
+   ECUID=None
+   ECGID=None
+   GATEWAY=None
+   DESTINATION=None
+   INSTALLDIR=None
+   JOB_TEMPLATE='job.template'
+   CONTROLFILE='CONTROL_EA5'
+   ...
+
+
+Afterwards, type:
+
+.. code-block:: bash
+
+   $ ./setup.sh
+   
+to start the installation. You should see the following output at the command line. 
+    
+    
+.. code-block:: bash
+
+   # Output of setup.sh   
+   WARNING: installdir has not been specified
+   flex_extract will be installed in here by compiling the Fortran source in /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1/source/fortran
+   Install flex_extract_v7.1 software at local in directory /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1
+
+   Using makefile: Makefile.local.gfortran
+   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp phgrreal.f
+   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp grphreal.f
+   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp ftrafo.f
+   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 rwGRIB2.f90
+   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 posnam.f
+   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 preconvert.f90
+   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -O3 -O3 -fopenmp -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/gcc-4.9.3/grib_api-1.14.3/lib -Bstatic  -lgrib_api_f77 -lgrib_api_f90 -lgrib_api -Bdynamic  -lm  -ljasper -lemosR64
+
+   -rwxrwxr-x. 1 philipa8 tmc 282992 May 23 22:27 ./CONVERT2
+
+
+
+
+
Index: Documentation/html/_sources/Installation/remote.rst.txt
===================================================================
--- Documentation/html/_sources/Installation/remote.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
+++ Documentation/html/_sources/Installation/remote.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -0,0 +1,204 @@
+************************
+Remote mode installation
+************************
+
+.. role:: underline
+    :class: underline
+    
+.. toctree::
+    :hidden:
+    :maxdepth: 2    
+    
+     
+.. _Python 3: https://docs.python.org/3/
+.. _Python3: https://www.python.org/downloads/
+.. _Anaconda Python3: https://www.anaconda.com/distribution/#download-section
+
+.. _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 conda: https://anaconda.org/conda-forge/eccodes
+.. _gfortran: https://gcc.gnu.org/wiki/GFortran
+.. _fftw3: http://www.fftw.org
+.. _eccodes: https://software.ecmwf.int/wiki/display/ECC
+.. _emoslib: https://software.ecmwf.int/wiki/display/EMOS/Emoslib
+.. _member state: https://www.ecmwf.int/en/about/who-we-are/member-states 
+.. _registration form: https://apps.ecmwf.int/registration/
+.. _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
+.. _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-remote-mode: 
+
+
+.. _ref-req-remote: 
+ 
+Remote environment requirements
+===============================
+
+The environment for ``flex_extract`` on ECMWF servers has to provide these 
+software packages and libraries:
+    
++---------------------------+-----------------+
+|  Python part              | Fortran part    |
++---------------------------+-----------------+
+| * `Python3`_              | * `gfortran`_   |
+| * `numpy`_                | * `fftw3`_      |
+| * `genshi`_               | * `eccodes`_    |
+| * `eccodes for python`_   | * `emoslib`_    |
++---------------------------+-----------------+
+
+
+.. _ref-prep-remote:
+
+Prepare remote environment
+==========================
+ 
+The environment on the ECMWF server (such as *ecgate* or *cca*) is already 
+prepared. ECMWF server provide all libraries via a module system which is 
+going to be selected by ``flex_extract`` automatically.
+
+
+.. _ref-install-remote:
+
+Remote installation
+===================
+
+First, log in on one of the ECMWF Linux server, such as *ecgate* or *cca/ccb*. 
+Substitute *<ecuid>* with your ECMWF user name:
+
+.. code-block:: bash
+   
+   ssh -X <ecuid>@ecaccess.ecmwf.int
+
+This will lead to the following output on the command line, asking for your 
+password:
+   
+.. code-block:: bash
+
+   Authorized access only.
+
+   ***************************************************************
+      For further information, read the ECaccess documentation at:
+
+      https://software.ecmwf.int/wiki/display/ECAC/ECaccess+Home
+
+      You can also use ECaccess to load & download files from your
+      EChome, ECscratch or ECfs directories using the ECaccess FTP
+      server:
+
+      ftp://uid@ecaccess.ecmwf.int/
+
+      Please note you must use your UID and ActivID code to login!
+   ***************************************************************
+
+   <ecuid>@131.130.157.5's password: ***
+   Select hostname (ecgate, cca, ccb) [ecgate]: ecgate
+
+   [<ecuid>@ecgb11 ~]$ 
+   
+   
+Then, copy the ``flex_extract`` tar ball (from section :ref:`ref-download`) 
+to the ``$HOME`` directory of the ECMWF Linux server via ``scp``.
+Substitute the *<localuser>* and *<server.edu>* placeholders with your credentials. 
+Untar the file and change into the ``flex_extract`` root directory. 
+
+.. code-block:: bash
+
+   scp <localuser>@<server.edu>:/path/to/tarfile/flex_extract_vX.X.tar.gz  $HOME/
+   cd $HOME
+   tar xvf flex_extract_vX.X.tar.gz
+   cd flex_extract_vX.X
+   
+
+On these ECMWF servers, it is not necessary to prepare the environment or the 
+``Makefile`` for the Fortran program (``CONVERT2``) as described above. 
+All third party libraries are available from a module system. The ``Makefile``
+is optimized for ECMWF servers and the compilation 
+script ``compilejob.ksh``, which will be submitted by ``flex_extract`` to the 
+batch job queue at ECMWF, does load all relevant modules from the ECMWF's module system. 
+
+So there is just the need to execute the ``setup.sh`` script from the 
+``flex_extract`` root directory for installation. 
+Before executing it, it is necessary to adapt some parameters from ``setup.sh``
+described in :doc:`Documentation/Input/setup`. 
+
+Open ``setup.sh`` with your editor and adapt the values:  
+
++----------------------------------------------+----------------------------------------------+   
+|   Take this for target = **ectrans**         |  Take this for target = **cca**              | 
++----------------------------------------------+----------------------------------------------+
+| .. code-block:: bash                         | .. code-block:: bash                         | 
+|                                              |                                              | 
+|   ...                                        |   ...                                        |   
+|   # -----------------------------------------|   # -----------------------------------------|
+|   # AVAILABLE COMMANDLINE ARGUMENTS TO SET   |   # AVAILABLE COMMANDLINE ARGUMENTS TO SET   |
+|   #                                          |   #                                          |  
+|   # THE USER HAS TO SPECIFY THESE PARAMETER  |   # THE USER HAS TO SPECIFY THESE PARAMETER  | 
+|   #                                          |   #                                          |
+|   TARGET='ecgate'                            |   TARGET='cca'                               |
+|   MAKEFILE='Makefile.gfortran'               |   MAKEFILE='Makefile.CRAY'                   |  
+|   ECUID='uid'                                |   ECUID='uid'                                |  
+|   ECGID='gid'                                |   ECGID='gid'                                |
+|   GATEWAY=None                               |   GATEWAY=None                               |
+|   DESTINATION=None                           |   DESTINATION=None                           | 
+|   INSTALLDIR=None                            |   INSTALLDIR=''                              | 
+|   JOB_TEMPLATE='job.template'                |   JOB_TEMPLATE='job.template'                |
+|   CONTROLFILE='CONTROL_EA5'                  |   CONTROLFILE='CONTROL_EA5'                  | 
+|   ...                                        |   ...                                        |   
++----------------------------------------------+----------------------------------------------+
+
+:underline:`Please substitute the values of ECUID and ECGID
+with your own credentials and settings.`
+
+.. note::
+
+   If a local gateway server is available the transfer of files could be done
+   via the ``ECaccess`` commands. Therefore a valid *GATEWAY* and *DESTINATION*
+   have to be present and should be set in the ``setup.sh`` file. 
+
+
+Afterwards, type:
+
+.. code-block:: bash
+
+   module load python3   
+   ./setup.sh
+   
+to start the installation. You should see the following output at the command line. 
+    
+    
+.. code-block:: bash
+
+   # Output of setup.sh
+   Create tarball ...
+   Job compilation script has been submitted to ecgate for installation in ${HOME}/flex_extract_vX.X
+   You should get an email with subject "flexcompile" within the next few minutes!
+
+    
+The email content should look like this with a "SUCCESS" statement in the last line:
+
+.. code-block:: bash
+
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp phgrreal.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp grphreal.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp ftrafo.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
+    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3   
+    -rwxr-x---. 1 USER at 353134 May 23 12:27 CONVERT2
+    SUCCESS!    
+
+
+    
+
+    
Index: Documentation/html/_sources/index.rst.txt
===================================================================
--- Documentation/html/_sources/index.rst.txt	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_sources/index.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -129,5 +129,5 @@
 
 .. toctree::
-   :maxdepth: 3
+   :maxdepth: 4
    :caption: Table of Contents:
 
Index: Documentation/html/_sources/installation.rst.txt
===================================================================
--- Documentation/html/_sources/installation.rst.txt	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_sources/installation.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -9,4 +9,5 @@
     :hidden:
     :maxdepth: 2
+    
      
 .. _Python 3: https://docs.python.org/3/
@@ -37,22 +38,22 @@
 
 
-``flex_extract`` is a software package which contains a mix of Python and Shell scripts as well as a Fortran program. These components rely on a couple of third party libraries which need to be prepared first before starting the installation process. For now, the software is only tested for a Linux/Unix environment. Feel free to try it out on other platforms.
-
-Start with the decision of which `user group <Ecmwf/access>`_ you belong to and follow the instructions at :ref:`ref-registration` to get an account at ECMWF. Considering your user group and the method of applying ``flex_extract`` there appear to be 4 application modes:  
-
-- Remote (for member state users only) :ref:`[installation]<ref-remote-mode>`
-- Gateway (for member state users only) :ref:`[installation]<ref-gateway-mode>`
-- Local member :ref:`[installation]<ref-local-mode>`
-- Local public :ref:`[installation]<ref-local-mode>`
-
-More information can be found in :doc:`Documentation/Overview/app_modes`.
+The ``flex_extract`` software package contains python and shell scripts as well as a Fortran program. These components rely on several libraries which need to be available before starting the installation process. Currently, the software is only tested for a GNU/Linux environment. Feel free to try it out on other platforms.
+
+At first, go to the `user group <Ecmwf/access.html>`_ section and decide which group you belong to and follow the instructions at :ref:`ref-registration` to obtain an account at ECMWF (if you don't have it already). Depending on the user group and the way to access the ECWMF MARS archive, there are four possible :doc:`Documentation/Overview/app_modes`:  
+
+- Remote (member-state users only) :ref:`[installation]<ref-remote-mode>`
+- Gateway (member-state users only) :ref:`[installation]<ref-gateway-mode>`
+- Local, member-state user :ref:`[installation]<ref-local-mode>`
+- Local, public user :ref:`[installation]<ref-local-mode>`
+
+Please follow the link :doc:`Documentation/Overview/app_modes` to get a description of the modes.
 
 .. note::
 
    If you encounter any problems in the installation process, you can ask for :doc:`support`.
-
-
-
-
+   
+   
+   
+   
 
 .. _ref-registration:
@@ -61,33 +62,42 @@
 =====================
 
-Decide which user group you belong to and follow the instructions for registration:
-
-**Member state user**: 
-    To get a member-state user account, users have to be a resident of a `member state`_. In that case, you can contact your `Computing Representative`_ for granting access. If you would like to use the local application mode to retrieve **ERA5** data you'd have to register at the `Copernicus Climate Data Store <https://cds.climate.copernicus.eu/user/register>`_ also.
-
-**Public user**: 
-    To be able to download public datasets with ``flex_extract`` such as **ERA-Interim** and **CERA-20C** (**ERA5** is not supported via ECMWF Web API anymore), the public user has to create an account at ECMWF. 
-    Use the registration at the ECMWF website by filling out this `registration form`. 
-    
-    .. note::
-
-        In the future retrievement of *ERA5* will be possible via the CDS API for public users also. Then a registration at the `Copernicus Climate Data Store <https://cds.climate.copernicus.eu/user/register>`_ is needed in addition.
-    
-    
-    
-    
+The registration depends on the :doc:`Documentation/Overview/app_modes` and in case of the local mode also on the data set you'd like to retrieve. The following table gives an overview where you need to register. 
+
++--------------+------------------------------------+--------------+
+|              |  Member-state user                 | Public user  |
+|              +---------+----------+---------------+--------------+
+|    Data sets |Remote   |Gateway   |Local          | Local        |
++--------------+---------+----------+---------------+--------------+
+| Operational  | 1       | 1        | 1,2           | -            |
++--------------+---------+----------+---------------+--------------+
+| ERA-Interim  | 1       | 1        | 1,2           | 2            |
++--------------+---------+----------+---------------+--------------+
+| CERA-20C     | 1       | 1        | 1,2           | 2            |
++--------------+---------+----------+---------------+--------------+
+| ERA5         | 1       | 1        | 3             | -            |
++--------------+---------+----------+---------------+--------------+
+
+
+
+Registration options:
+
+    1.)  Access through a member-state user account granted by the `Computing Representative`_. The credentials have to be provided during installation.
+    
+    2.)  Access through the ECMWF Web API. Need to sign in at `ECMWF Web API <https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home>`_ and configure the ECMWF key as described. Member-state users can sign in with their credentials from the `Computing Representative`_ and public users have to fill out the `registration form`_ to get an account.
+    
+    3.) Access through the `CDS API <https://cds.climate.copernicus.eu/api-how-to>`_. Extra registration for member-state users is required at `Copernicus Climate Data Store <https://cds.climate.copernicus.eu/user/register>`_ including the configurations of the CDS key as described. This mode is currently not available for public users. See the note at `user group <Ecmwf/access.html>`_ for information.
+
     
     
 .. _ref-licence:
     
-Agree on licences for public datasets
+Licence agreement for public datasets
 =====================================
 
-Each public dataset which is intended to be downloaded by ``flex_extract`` has its own licence which has to be accepted, regardless of the user group. 
+Each ECMWF public dataset has its own licence which has to be accepted, regardless of the user group. 
 
 For the *ERA-Interim* and *CERA-20C* datasets this can be done at the ECMWF website `Available ECMWF Public Datasets <https://confluence.ecmwf.int/display/WEBAPI/Available+ECMWF+Public+Datasets>`_. Log in and follow the licence links on the right side for each dataset and accept it.
     
-For the *ERA5* dataset this has to be done at the `Climate Data Store (CDS) website <https://cds.climate.copernicus.eu/cdsapp#!/search?type=dataset>`_. Log in with your credentials and then select on the left panel the product type "Reanalysis" for finding *ERA5* datasets. Then follow the link of a title with *ERA5* (anyone) to the full dataset record, click on tab "Download data" and scroll down. There is a section "Terms of use" where you have to click the :underline:`Accept terms` button.    
-
+For the *ERA5* dataset this has to be done at the `Climate Data Store (CDS) website <https://cds.climate.copernicus.eu/cdsapp#!/search?type=dataset>`_. Log in and select, on the left panel, product type "Reanalysis" for finding *ERA5* datasets. Then follow any link with *ERA5* to the full dataset record, click on tab "Download data" and scroll down. There is a section "Terms of use" where you have to click the :underline:`Accept terms` button.
    
 
@@ -100,24 +110,19 @@
 =========================
 
-There are 2 options to download ``flex_extract``:
+There are two options to download ``flex_extract``:
 
 tar ball
-    You can download the latest prepared release tar ball from the `download section`_ 
-    of our ``FLEXPART`` community website and then untar the file. Substitute
-    the **<ID>** in the ``wget`` command with the ID-number of the ``flex_extract`` 
-    release tar ball in the list of downloads at the community website. 
-    
-    
+    You can download a tar ball with the latest release from the `flex_extract page <https://www.flexpart.eu/wiki/FpInputMetEcmwf>`_ from our ``FLEXPART`` community website and then untar the file. 
+  
     .. code-block:: bash
        
-       wget https://www.flexpart.eu/downloads/<ID>
        tar -xvf <flex_extract_vX.X.tar>
 
-git repo    
-    Or you can clone the current release version from our git repository master branch.
+git repo  
+    Alternatively, if you have ``git`` installed on your machine, and if you are interested to keep the code in a version control system, you may clone the latest version from our git repository master branch.  
 
     .. code-block:: bash
 
-       $ git clone https://www.flexpart.eu/gitmob/flexpart
+       $ git clone --single-branch --branch master https://www.flexpart.eu/gitmob/flexpart
 
 
@@ -130,25 +135,9 @@
 ========================
 
-This is a list of the general environment requirements for ``flex_extract``.
-What is required exactly for each application mode will be described in the specifc installation section. 
-
-    
-To run the python part of ``flex_extract`` a `Python 3`_ environment is needed.
-We tested ``flex_extract`` with a normal Linux Python package distribution and Anaconda Python. 
-Except for `Python3`_ all are python packages which can be installed via ``pip``.
-
-* `Python3`_ or `Anaconda Python3`_
-* `numpy`_
-* `ecmwf-api-client`_ (Web Interface to ECMWF servers for datasets except ERA5)
-* `cdsapi`_ (Web Interface to `C3S <https://climate.copernicus.eu/>`_ servers for ERA5)
-* `genshi`_
-* `eccodes for python`_  
- 
-For the Fortran part of ``flex_extract`` we need the following distribution packages: 
- 
-* `gfortran`_
-* `fftw3`_
-* `eccodes`_
-* `emoslib`_
+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. 
+
+    
+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.).
 
 
@@ -162,7 +151,6 @@
 ================================
 
-The actual installation of ``flex_extract`` will be done by executing a `Shell` script called ``setup.sh``.
-It defines some parameters and calls a Python script by giving the parameters as command line arguments.
-More information on the script and its parameters can be found at :doc:`Documentation/Input/setup`. 
+The actual installation of ``flex_extract`` is done by executing a shell script called ``setup.sh``.
+It defines some parameters and calls a Python script passing the parameters as command line arguments. For details, see :doc:`Documentation/Input/setup`. 
 
 For each application mode installation section we describe the requirements for the explicit 
@@ -171,694 +159,39 @@
 
 
-
-
-
-
-.. _ref-remote-mode: 
-
-Remote mode
------------
-
-.. _ref-req-remote: 
- 
-Remote environment requirements
-^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
-
-The environment for ``flex_extract`` on ECMWF servers has to provide these 
-software packages and libraries:
-    
-+---------------------------+-----------------+
-|  Python part              | Fortran part    |
-+---------------------------+-----------------+
-| * `Python3`_              | * `gfortran`_   |
-| * `numpy`_                | * `fftw3`_      |
-| * `genshi`_               | * `eccodes`_    |
-| * `eccodes for python`_   | * `emoslib`_    |
-+---------------------------+-----------------+
-
-
-.. _ref-prep-remote:
-
-Prepare remote environment
-^^^^^^^^^^^^^^^^^^^^^^^^^^
- 
-The environment on the ECMWF server (such as *ecgate* or *cca*) is already 
-prepared. ECMWF server provide all libraries via a module system which is 
-going to be selected by ``flex_extract`` automatically.
-
-
-.. _ref-install-remote:
-
-Remote installation
-^^^^^^^^^^^^^^^^^^^
-
-First, log in on one of the ECMWF Linux server, such as *ecgate* or *cca/ccb*. 
-Substitute *<ecuid>* with your ECMWF user name:
-
-.. code-block:: bash
-   
-   ssh -X <ecuid>@ecaccess.ecmwf.int
-
-This will lead to the following output on the command line, asking for your 
-password:
-   
-.. code-block:: bash
-
-   Authorized access only.
-
-   ***************************************************************
-      For further information, read the ECaccess documentation at:
-
-      https://software.ecmwf.int/wiki/display/ECAC/ECaccess+Home
-
-      You can also use ECaccess to load & download files from your
-      EChome, ECscratch or ECfs directories using the ECaccess FTP
-      server:
-
-      ftp://uid@ecaccess.ecmwf.int/
-
-      Please note you must use your UID and ActivID code to login!
-   ***************************************************************
-
-   <ecuid>@131.130.157.5's password: ***
-   Select hostname (ecgate, cca, ccb) [ecgate]: ecgate
-
-   [<ecuid>@ecgb11 ~]$ 
-   
-   
-Then, copy the ``flex_extract`` tar ball (from section :ref:`ref-download`) 
-to the ``$HOME`` directory of the ECMWF Linux server via ``scp``.
-Substitute the *<localuser>* and *<server.edu>* placeholders with your credentials. 
-Untar the file and change into the ``flex_extract`` root directory. 
-
-.. code-block:: bash
-
-   scp <localuser>@<server.edu>:/path/to/tarfile/flex_extract_vX.X.tar.gz  $HOME/
-   cd $HOME
-   tar xvf flex_extract_vX.X.tar.gz
-   cd flex_extract_vX.X
-   
-
-On these ECMWF servers, it is not necessary to prepare the environment or the 
-``Makefile`` for the Fortran program (``CONVERT2``) as described above. 
-All third party libraries are available from a module system. The ``Makefile``
-is optimized for ECMWF servers and the compilation 
-script ``compilejob.ksh``, which will be submitted by ``flex_extract`` to the 
-batch job queue at ECMWF, does load all relevant modules from the ECMWF's module system. 
-
-So there is just the need to execute the ``setup.sh`` script from the 
-``flex_extract`` root directory for installation. 
-Before executing it, it is necessary to adapt some parameters from ``setup.sh``
-described in :doc:`Documentation/Input/setup`. 
-
-Open ``setup.sh`` with your editor and adapt the values:  
-
-+----------------------------------------------+----------------------------------------------+   
-|   Take this for target = **ectrans**         |  Take this for target = **cca**              | 
-+----------------------------------------------+----------------------------------------------+
-| .. code-block:: bash                         | .. code-block:: bash                         | 
-|                                              |                                              | 
-|   ...                                        |   ...                                        |   
-|   # -----------------------------------------|   # -----------------------------------------|
-|   # AVAILABLE COMMANDLINE ARGUMENTS TO SET   |   # AVAILABLE COMMANDLINE ARGUMENTS TO SET   |
-|   #                                          |   #                                          |  
-|   # THE USER HAS TO SPECIFY THESE PARAMETER  |   # THE USER HAS TO SPECIFY THESE PARAMETER  | 
-|   #                                          |   #                                          |
-|   TARGET='ecgate'                            |   TARGET='cca'                               |
-|   MAKEFILE='Makefile.gfortran'               |   MAKEFILE='Makefile.CRAY'                   |  
-|   ECUID='uid'                                |   ECUID='uid'                                |  
-|   ECGID='gid'                                |   ECGID='gid'                                |
-|   GATEWAY=None                               |   GATEWAY=None                               |
-|   DESTINATION=None                           |   DESTINATION=None                           | 
-|   INSTALLDIR=None                            |   INSTALLDIR=''                              | 
-|   JOB_TEMPLATE='job.template'                |   JOB_TEMPLATE='job.template'                |
-|   CONTROLFILE='CONTROL_EA5'                  |   CONTROLFILE='CONTROL_EA5'                  | 
-|   ...                                        |   ...                                        |   
-+----------------------------------------------+----------------------------------------------+
-
-:underline:`Please substitute the values of ECUID and ECGID
-with your own credentials and settings.`
-
-.. note::
-
-   If a local gateway server is available the transfer of files could be done
-   via the ``ECaccess`` commands. Therefore a valid *GATEWAY* and *DESTINATION*
-   have to be present and should be set in the ``setup.sh`` file. 
-
-
-Afterwards, type:
-
-.. code-block:: bash
-
-   module load python3   
-   ./setup.sh
-   
-to start the installation. You should see the following output at the command line. 
-    
-    
-.. code-block:: bash
-
-   # Output of setup.sh
-   Create tarball ...
-   Job compilation script has been submitted to ecgate for installation in ${HOME}/flex_extract_vX.X
-   You should get an email with subject "flexcompile" within the next few minutes!
-
-    
-The email content should look like this with a "SUCCESS" statement in the last line:
-
-.. code-block:: bash
-
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp phgrreal.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp grphreal.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp ftrafo.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3   
-    -rwxr-x---. 1 USER at 353134 May 23 12:27 CONVERT2
-    SUCCESS!    
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-.. _ref-gateway-mode:
-
-Gateway mode
-------------
-
-
-.. _ref-req-gateway: 
- 
-Gateway environment requirements
-^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
-
-The environment on your local system has to provide these software packages
-and libraries, since ``flex_extract`` does only prepare the job script and send
-it to the ECMWF servers:
-    
-* `Python3`_ or `Anaconda Python3`_
-* `numpy`_
-* `genshi`_
- 
-
-.. _ref-prep-gateway:
-
-Prepare gateway environment
-^^^^^^^^^^^^^^^^^^^^^^^^^^^
-
-The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
-The installation was tested on a *GNU/Linux Debian buster* and an *Ubuntu 18.04 Bionic Beaver* system.
-
-.. code-block:: sh
-
-   # On a Linux Debian or Ubuntu system do
-   # (if not already available):
-   apt-get install python3
-   apt-get install pip
-   apt-get install genshi
-   apt-get install numpy
-
-
-.. _ref-test-gateway:
-
-Test gateway environment
-^^^^^^^^^^^^^^^^^^^^^^^^
- 
-Check the availability of the python packages by typing ``python3`` in
-a terminal window and run the ``import`` commands in the python shell. 
-If there are no error messages, you succeeded in setting up the environment.
-
-.. code-block:: python
-    
-   # check in python3 console
-   import genshi
-   import numpy
- 
-
-
-.. _ref-install-gateway:
-
-Gateway installation
-^^^^^^^^^^^^^^^^^^^^
-
-In this mode, access to the ECMWF computing and archiving facilities is enabled through an ECaccess gateway server on a local member state server. The ECaccess framework is necessary to interactively submit jobs to the ECMWF batch system and to transfer files between ECMWF and local gateway server. 
-
-Please see `ECMWF's instructions on gateway server`_ to establish the gateway server if not already in place.
-Additionally, to be able to use the Ecaccess file transfer service **ectrans** please also create an association. 
-The easiest way is to visit the ECaccess Member State Gateway website (e.g. msgatway.ecmwf.int) and follow the instructions in the short `ECaccess Presentation`_ (page 17 ff.). Additional documentation can be found on the `ECMWF ectrans site`_.
-
-After everything is set up you have to create an *ecaccess certificate* to be able to send and receive files from and to the ECMWF server. You can do this by using the ``ecaccess-certificate-create`` command on the gateway server. You will be prompted for your ECMWF member state user name and a password (which will be usually generated by a Token). This certificate has to be re-newed periodically (every 7 days). 
-
-.. code-block:: bash
-   
-   $ ecaccess-certificate-create
-   Please enter your user-id: example_username
-   Your passcode: ***
-   
-``Flex_extract`` will be run on an ECMWF server which makes the setup the same as for the **remote mode**. In the ``setup.sh`` script `[ref] <Documentation/Input/setup.html>`_, select the ``Makefile.gfortran`` for the ``CONVERT2`` Fortran program and the ECMWF server (*target*) you would like to use. 
-The job script, send to the job queue via the ECaccess software, selects again automatically the correct libraries from the module system. For enableing the file transfer you have to set the *ECUID*, *ECGID*, *GATEWAY* and *DESTINATION* parameter values.
- 
-
-.. code-block:: bash
-    :caption: 'Example settings for a gateway installation.'
-    :name: setup.sh
-    
-    # -----------------------------------------------------------------
-    # AVAILABLE COMMANDLINE ARGUMENTS TO SET
-    #
-    # THE USER HAS TO SPECIFY THESE PARAMETER
-    #
-    TARGET='ecgate'
-    MAKEFILE='Makefile.gfortran'
-    ECUID='uid'
-    ECGID='gid'
-    GATEWAY='server.example.edu'
-    DESTINATION='example@genericSftp'
-    INSTALLDIR=None
-    JOB_TEMPLATE='job.template'
-    CONTROLFILE='CONTROL_EA5'
-
-
-Afterwards, type:
-
-.. code-block:: bash
-
-   $ ./setup.sh
-   
-to start the installation. You should see the following output at the command line. 
-    
-    
-.. code-block:: bash
-
-   # Output of setup.sh
-   Create tarball ...
-   Job compilation script has been submitted to ecgate for installation in ${HOME}/flex_extract_vX.X
-   You should get an email with subject "flexcompile" within the next few minutes!
-
-    
-The email content should look like this with a "SUCCESS" statement in the last line:
-
-.. code-block:: bash
-
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp phgrreal.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp grphreal.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp ftrafo.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
-    gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3   
-    -rwxr-x---. 1 USER at 353134 May 23 12:27 CONVERT2
-    SUCCESS!    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-    
-.. _ref-local-mode:
-
-Local mode
-----------
-
-
-
-.. _ref-req-local: 
- 
-Local environment requirements
-^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
-
-For the local access modes **member** and **public** there is no difference in 
-the installation process.
-
-The environment on your local system has to provide these software packages
-and libraries, since all extraction and preparation is done at the local system:
-
-+------------------------------------------------+-----------------+
-|  Python part                                   | Fortran part    |
-+------------------------------------------------+-----------------+
-| * `Python3`_                                   | * `gfortran`_   |
-| * `numpy`_                                     | * `fftw3`_      |
-| * `genshi`_                                    | * `eccodes`_    |
-| * `eccodes for python`_                        | * `emoslib`_    |
-| * `ecmwf-api-client`_ (everything except ERA5) |                 |
-| * `cdsapi`_ (just for ERA5)                    |                 |
-+------------------------------------------------+-----------------+
-
-
-.. _ref-prep-local:
-
-Prepare local environment
-^^^^^^^^^^^^^^^^^^^^^^^^^
-
-The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
-The installation was tested on a *Debian GNU/Linux buster/sid* and an *Ubuntu 18.04 Bionic Beaver* system.
-
-.. code-block:: sh
-
-   # On a Linux Debian or Ubuntu system do
-   # (if not already available):
-   apt-get install python3 (usually available on normal Linux systems)
-   apt-get install pip
-   apt-get install gfortran
-   apt-get install fftw3-dev 
-   apt-get install libeccodes-dev
-   apt-get install libemos-dev 
-   apt-get install python3-eccodes
-   apt-get install genshi
-   apt-get install numpy
-   pip install cdsapi 
-   pip install ecmwf-api-client 
-
-.. note::
-
-    In case you would like to use Anaconda Python we recommend you follow the installation instructions of 
-    `Anaconda Python Installation for Linux <https://docs.anaconda.com/anaconda/install/linux/>`_ and then install the
-    ``eccodes`` package from ``conda`` with:
-
-    .. code-block:: bash
-
-       conda install conda-forge::python-eccodes
-
-
-The CDS API (cdsapi) and the ECMWF Web API (ecmwf-api-client) have both to be installed since ERA5 can only be retrieved with the ``CDS API`` and all other datasets with the ``ECMWF Web API``.     
-       
-.. note:: 
-
-    Since **public users** currently don't have access to the full *ERA5* dataset they can skip the installation of the ``CDS API``. 
-    
-Both user groups have to provide key's with their credentials for the Web API's in their home directory. Therefore, follow these instructions:
-   
-ECMWF Web API:
-   Go to `MARS access`_ website and log in with your credentials. Afterwards, on this site in section "Install ECMWF KEY" the key for the ECMWF Web API should be listed. Please follow the instructions in this section under point 1 (save the key in a file `.ecmwfapirc` in your home directory). 
-     
-CDS API:
-   Go to 'CDS API registration'_ and register there too. Log in at the `cdsapi`_ website and follow the instructions at section "Install the CDS API key" to save your credentials in a `.cdsapirc` file.
-     
-
-.. _ref-test-local:
-   
-Test local environment
-^^^^^^^^^^^^^^^^^^^^^^
-
-Check the availability of the system packages with ``dpkg -s <package-name> |  grep Status`` or ``rpm -q <package_name>``, depending on your system. For example: 
-
-.. code-block:: sh
-
-   $ dpkg -s libeccodes-dev |  grep Status
-   # or
-   $ rpm -q libeccodes-dev
- 
-Afterwards, check the availability of the python packages by typing ``python3`` in
-a terminal window and run the ``import`` commands in the python shell. If there are no error messages, you succeeded in setting up the environment.
-
-.. code-block:: python
-    
-   # check in python3 console
-   import eccodes
-   import genshi
-   import numpy
-   import cdsapi
-   import ecmwfapi
-   
-
-
-Test the Web API's
-""""""""""""""""""
-
-You can start very simple test retrievals for both Web API's to be sure that everything works. This is recommended to minimize the range of possible errors using ``flex_extract`` later on.
-
-ECMWF Web API
-"""""""""""""
-
-
-+----------------------------------------------------------+----------------------------------------------------------+
-|Please use this piece of python code for **Member user**: |Please use this piece of python code for **Public user**: |
-+----------------------------------------------------------+----------------------------------------------------------+
-|.. code-block:: python                                    |.. code-block:: python                                    |
-|                                                          |                                                          |
-|    from ecmwfapi import ECMWFService                     |    from ecmwfapi import ECMWFDataServer                  |
-|                                                          |                                                          |
-|    server = ECMWFService('mars')                         |    server = ECMWFDataServer()                            |
-|                                                          |                                                          |
-|    server.retrieve({                                     |    server.retrieve({                                     |
-|        'stream'    : "oper",                             |        'stream'    : "enda",                             |
-|        'levtype'   : "sfc",                              |        'levtype'   : "sfc",                              |
-|        'param'     : "165.128/166.128/167.128",          |        'param'     : "165.128/166.128/167.128",          |
-|        'dataset'   : "interim",                          |        'dataset'   : "cera20c",                          |
-|        'step'      : "0",                                |        'step'      : "0",                                |
-|        'grid'      : "0.75/0.75",                        |        'grid'      : "1./1.",                            |
-|        'time'      : "00/06/12/18",                      |        'time'      : "00/06/12/18",                      |
-|        'date'      : "2014-07-01/to/2014-07-31",         |        'date'      : "2000-07-01/to/2000-07-31",         |
-|        'type'      : "an",                               |        'type'      : "an",                               |
-|        'class'     : "ei",                               |        'class'     : "ep",                               |
-|        'target'    : "download_erainterim_ecmwfapi.grib" |        'target'    : "download_cera20c_ecmwfapi.grib"    |
-|    })                                                    |    })                                                    |
-+----------------------------------------------------------+----------------------------------------------------------+
-
-            
-    
-CDS API 
-"""""""
-
-Since ERA5 extraction with CDS API might take some time due to the very high number of requests, you can start by retrieving some online stored pressure levels (not from MARS). This is usually much faster and gives a quick result to find out if the web API works:
-
-Please use this piece of python code to retrieve a small sample of *ERA5* pressure levels:
-
-.. code-block:: python
-
-    import cdsapi
-    
-    c = cdsapi.Client()
-    
-    c.retrieve("reanalysis-era5-pressure-levels",
-    {
-    "variable": "temperature",
-    "pressure_level": "1000",
-    "product_type": "reanalysis",
-    "year": "2008",
-    "month": "01",
-    "day": "01",
-    "time": "12:00",
-    "format": "grib"
-    },
-    "download_cdsapi.grib")
-
-
-Afterwards, when you know that the CDS API generally works, you can try to extract some
-data from the MARS archive. From the latest experience we know that this can take a while.    
-
-.. **Member user**
-
-Please use this piece of python code to retrieve a small *ERA5* data sample as a **member user**! The **public user** doesn't have access to the full *ERA5* dataset!
-
-.. code-block:: python
-
-   import cdsapi
-   
-   c = cdsapi.Client()
-   
-   c.retrieve('reanalysis-era5-complete',
-   {
-       'class'   : 'ea',
-       'expver'  : '1',
-       'stream'  : 'oper',
-       'type'    : 'fc',
-       'step'    : '3/to/12/by/3',
-       'param'   : '130.128',
-       'levtype' : 'ml',
-       'levelist': '135/to/137',
-       'date'    : '2013-01-01',
-       'time'    : '06/18',
-       'area'    : '50/-5/40/5',
-       'grid'    : '1.0/1.0', 
-       'format'  : 'grib',
-   }, 'download_era5_cdsapi.grib')
-
-
-..  ********************** COMMENTED OUT FOR FUTURE 
-    ********************** PUBLIC RETRIEVAL IS CURRENTLY NOT ACCESSIBLE 
-   
-    **Public user**
-    Please use this piece of python code: 
-
-    .. code-block:: python
-
-       import cdsapi
-       
-       c = cdsapi.Client()
-       
-       c.retrieve('reanalysis-era5-complete',
-       {
-           'class'   : 'ea',
-           'dataset' : 'era5',
-           'expver'  : '1',
-           'stream'  : 'oper',
-           'type'    : 'fc',
-           'step'    : '3/to/12/by/3',
-           'param'   : '130.128',
-           'levtype' : 'ml',
-           'levelist': '135/to/137',
-           'date'    : '2013-01-01',
-           'time'    : '06/18',
-           'area'    : '50/-5/40/5',
-           'grid'    : '1.0/1.0', 
-           'format'  : 'grib',
-       }, 'download_era5_cdsapi.grib')
-
-
-
-
-
-
-.. _ref-install-local:
-
-Local installation
-^^^^^^^^^^^^^^^^^^
-
-First prepare the Fortran ``Makefile`` for your environment and set it
-in the ``setup.sh`` script. (See section :ref:`ref-convert` for information on 
-the Fortran program.)
-``flex_extract`` has already two ``Makefiles`` prepared for te ``gfortran`` and 
-the ``ifort`` compiler:
-
- * Makefile.local.gfortran
- * Makefile.local.ifort
-
-They can be found in the path ``flex_extract_vX.X/source/fortran``, where
-``vX.X`` should be substituted with the current version number.
-
-.. caution::   
-   It is necessary to adapt **ECCODES_INCLUDE_DIR** and **ECCODES_LIB** in these
-   ``Makefiles``.
-
-
-So starting from the root directory of ``flex_extract``, 
-go to the ``Fortran`` source directory and open the ``Makefile`` of your 
-choice to modify with an editor of your choice. We use the ``nedit`` in this case.
-
-.. code-block:: bash 
-
-   cd flex_extract_vX.X/source/fortran
-   nedit Makefile.local.gfortran
-
-Edit the pathes to the ``eccodes`` library on your local machine. 
-
-.. 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.
-   
-Substitute these paths in the ``Makefile`` for parameters **ECCODES_INCLUDE_DIR**
-and **ECCODES_LIB** and save it.
-
-.. code-block:: bash
-
-   # these are the paths on a current Debian 10 Testing system (May 2019)
-   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 ``CONVERT2`` will be compiled during the 
-installation process to get an executable. Therefore the ``Makefile``
-has to be set in the ``setup.sh`` script.
-
-In the root directory of ``flex_extract``, open the ``setup.sh`` script 
-and adapt the installation parameters in the section labelled with 
-"AVAILABLE COMMANDLINE ARGUMENTS TO SET" like shown below.
-
-
-.. code-block:: bash
-   :caption: 'Example settings for a local installation.'
-   :name: setup.sh
-   
-   ...
-   # -----------------------------------------------------------------
-   # AVAILABLE COMMANDLINE ARGUMENTS TO SET
-   #
-   # THE USER HAS TO SPECIFY THESE PARAMETER
-   #
-   TARGET='local'
-   MAKEFILE='Makefile.local.gfortran'
-   ECUID=None
-   ECGID=None
-   GATEWAY=None
-   DESTINATION=None
-   INSTALLDIR=None
-   JOB_TEMPLATE='job.template'
-   CONTROLFILE='CONTROL_EA5'
-   ...
-
-
-Afterwards, type:
-
-.. code-block:: bash
-
-   $ ./setup.sh
-   
-to start the installation. You should see the following output at the command line. 
-    
-    
-.. code-block:: bash
-
-   # Output of setup.sh   
-   WARNING: installdir has not been specified
-   flex_extract will be installed in here by compiling the Fortran source in /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1/source/fortran
-   Install flex_extract_v7.1 software at local in directory /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1
-
-   Using makefile: Makefile.local.gfortran
-   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp phgrreal.f
-   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp grphreal.f
-   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -g -O3 -fopenmp ftrafo.f
-   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 rwGRIB2.f90
-   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 posnam.f
-   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 preconvert.f90
-   gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert=big-endian  -O3 -O3 -fopenmp -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/gcc-4.9.3/grib_api-1.14.3/lib -Bstatic  -lgrib_api_f77 -lgrib_api_f90 -lgrib_api -Bdynamic  -lm  -ljasper -lemosR64
-
-   -rwxrwxr-x. 1 philipa8 tmc 282992 May 23 22:27 ./CONVERT2
-
-
-
-
-
+Select one of the following modes to install:
+
+    :doc:`Installation/remote`
+    
+    :doc:`Installation/gateway`
+    
+    :doc:`Installation/local`
+
+
+.. toctree::
+    :hidden:
+    :maxdepth: 2
+    
+    Installation/remote
+    Installation/gateway
+    Installation/local
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+
+    
+    
+    
 
 ``Flex_extract`` in combination with ``FLEXPART``
@@ -912,5 +245,5 @@
    SUCCESSFULLY FINISHED CONVERT_PRE: CONGRATULATIONS
 
-Now go back to the root directoy:
+Now go back to the root directory:
 
 .. code-block:: bash
Index: Documentation/html/_sources/quick_start.rst.txt
===================================================================
--- Documentation/html/_sources/quick_start.rst.txt	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/_sources/quick_start.rst.txt	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -337,5 +337,5 @@
 .. todo::
 
-    @LEO: please check the complete describtion and functionality of the CONTROL FILEs
+    @LEO: please check the complete description and functionality of the CONTROL FILEs
     
 Operational data
Index: Documentation/html/index.html
===================================================================
--- Documentation/html/index.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/index.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -285,13 +285,8 @@
 <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#agree-on-licences-for-public-datasets">Agree on licences for public datasets</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#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#environment-requirements">Environment requirements</a></li>
-<li class="toctree-l2"><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>
-<li class="toctree-l3"><a class="reference internal" href="installation.html#remote-mode">Remote mode</a></li>
-<li class="toctree-l3"><a class="reference internal" href="installation.html#gateway-mode">Gateway mode</a></li>
-<li class="toctree-l3"><a class="reference internal" href="installation.html#local-mode">Local mode</a></li>
-</ul>
-</li>
+<li class="toctree-l2"><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></li>
 <li class="toctree-l2"><a class="reference internal" href="installation.html#flex-extract-in-combination-with-flexpart"><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> in combination with <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code></a></li>
 <li class="toctree-l2"><a class="reference internal" href="installation.html#test-installation">Test installation</a><ul>
Index: Documentation/html/installation.html
===================================================================
--- Documentation/html/installation.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/installation.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -39,6 +39,6 @@
     <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="prev" title="&lt;no title&gt;" href="index.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" /> 
 </head>
 
@@ -92,28 +92,11 @@
 <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="#agree-on-licences-for-public-datasets">Agree on licences for public datasets</a></li>
+<li class="toctree-l2"><a class="reference internal" href="#licence-agreement-for-public-datasets">Licence agreement for public datasets</a></li>
 <li class="toctree-l2"><a class="reference internal" href="#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="#environment-requirements">Environment requirements</a></li>
 <li class="toctree-l2"><a class="reference internal" href="#installation-of-flex-extract">Installation of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code></a><ul>
-<li class="toctree-l3"><a class="reference internal" href="#remote-mode">Remote mode</a><ul>
-<li class="toctree-l4"><a class="reference internal" href="#remote-environment-requirements">Remote environment requirements</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#prepare-remote-environment">Prepare remote environment</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#remote-installation">Remote installation</a></li>
-</ul>
-</li>
-<li class="toctree-l3"><a class="reference internal" href="#gateway-mode">Gateway mode</a><ul>
-<li class="toctree-l4"><a class="reference internal" href="#gateway-environment-requirements">Gateway environment requirements</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#prepare-gateway-environment">Prepare gateway environment</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#test-gateway-environment">Test gateway environment</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#gateway-installation">Gateway installation</a></li>
-</ul>
-</li>
-<li class="toctree-l3"><a class="reference internal" href="#local-mode">Local mode</a><ul>
-<li class="toctree-l4"><a class="reference internal" href="#local-environment-requirements">Local environment requirements</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#prepare-local-environment">Prepare local environment</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#test-local-environment">Test local environment</a></li>
-<li class="toctree-l4"><a class="reference internal" href="#local-installation">Local installation</a></li>
-</ul>
-</li>
+<li class="toctree-l3"><a class="reference internal" href="Installation/remote.html">Remote mode installation</a></li>
+<li class="toctree-l3"><a class="reference internal" href="Installation/gateway.html">Gateway mode installation</a></li>
+<li class="toctree-l3"><a class="reference internal" href="Installation/local.html">Local mode installation</a></li>
 </ul>
 </li>
@@ -203,13 +186,13 @@
 <div class="toctree-wrapper compound">
 </div>
-<p><code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> is a software package which contains a mix of Python and Shell scripts as well as a Fortran program. These components rely on a couple of third party libraries which need to be prepared first before starting the installation process. For now, the software is only tested for a Linux/Unix environment. Feel free to try it out on other platforms.</p>
-<p>Start with the decision of which <a class="reference external" href="Ecmwf/access">user group</a> you belong to and follow the instructions at <a class="reference internal" href="#ref-registration"><span class="std std-ref">Registration at ECMWF</span></a> to get an account at ECMWF. Considering your user group and the method of applying <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> there appear to be 4 application modes:</p>
+<p>The <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> software package contains python and shell scripts as well as a Fortran program. These components rely on several libraries which need to be available before starting the installation process. Currently, the software is only tested for a GNU/Linux environment. Feel free to try it out on other platforms.</p>
+<p>At first, go to the <a class="reference external" href="Ecmwf/access.html">user group</a> section and decide which group you belong to and follow the instructions at <a class="reference internal" href="#ref-registration"><span class="std std-ref">Registration at ECMWF</span></a> to obtain an account at ECMWF (if you don’t have it already). Depending on the user group and the way to access the ECWMF MARS archive, there are four possible <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application Modes</span></a>:</p>
 <ul class="simple">
-<li>Remote (for member state users only) <a class="reference internal" href="#ref-remote-mode"><span class="std std-ref">[installation]</span></a></li>
-<li>Gateway (for member state users only) <a class="reference internal" href="#ref-gateway-mode"><span class="std std-ref">[installation]</span></a></li>
-<li>Local member <a class="reference internal" href="#ref-local-mode"><span class="std std-ref">[installation]</span></a></li>
-<li>Local public <a class="reference internal" href="#ref-local-mode"><span class="std std-ref">[installation]</span></a></li>
-</ul>
-<p>More information can be found in <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application Modes</span></a>.</p>
+<li>Remote (member-state users only) <a class="reference internal" href="Installation/remote.html#ref-remote-mode"><span class="std std-ref">[installation]</span></a></li>
+<li>Gateway (member-state users only) <a class="reference internal" href="Installation/gateway.html#ref-gateway-mode"><span class="std std-ref">[installation]</span></a></li>
+<li>Local, member-state user <a class="reference internal" href="Installation/local.html#ref-local-mode"><span class="std std-ref">[installation]</span></a></li>
+<li>Local, public user <a class="reference internal" href="Installation/local.html#ref-local-mode"><span class="std std-ref">[installation]</span></a></li>
+</ul>
+<p>Please follow the link <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application Modes</span></a> to get a description of the modes.</p>
 <div class="admonition note">
 <p class="first admonition-title">Note</p>
@@ -218,648 +201,106 @@
 <div class="section" id="registration-at-ecmwf">
 <span id="ref-registration"></span><h2>Registration at ECMWF<a class="headerlink" href="#registration-at-ecmwf" title="Permalink to this headline">¶</a></h2>
-<p>Decide which user group you belong to and follow the instructions for registration:</p>
+<p>The registration depends on the <a class="reference internal" href="Documentation/Overview/app_modes.html"><span class="doc">Application Modes</span></a> and in case of the local mode also on the data set you’d like to retrieve. The following table gives an overview where you need to register.</p>
+<table border="1" class="docutils">
+<colgroup>
+<col width="23%" />
+<col width="15%" />
+<col width="16%" />
+<col width="24%" />
+<col width="23%" />
+</colgroup>
+<tbody valign="top">
+<tr class="row-odd"><td rowspan="2">Data sets</td>
+<td colspan="3">Member-state user</td>
+<td>Public user</td>
+</tr>
+<tr class="row-even"><td>Remote</td>
+<td>Gateway</td>
+<td>Local</td>
+<td>Local</td>
+</tr>
+<tr class="row-odd"><td>Operational</td>
+<td>1</td>
+<td>1</td>
+<td>1,2</td>
+<td><ul class="first last simple">
+<li></li>
+</ul>
+</td>
+</tr>
+<tr class="row-even"><td>ERA-Interim</td>
+<td>1</td>
+<td>1</td>
+<td>1,2</td>
+<td>2</td>
+</tr>
+<tr class="row-odd"><td>CERA-20C</td>
+<td>1</td>
+<td>1</td>
+<td>1,2</td>
+<td>2</td>
+</tr>
+<tr class="row-even"><td>ERA5</td>
+<td>1</td>
+<td>1</td>
+<td>3</td>
+<td><ul class="first last simple">
+<li></li>
+</ul>
+</td>
+</tr>
+</tbody>
+</table>
+<p>Registration options:</p>
+<blockquote>
+<div><p>1.)  Access through a member-state user account granted by the <a class="reference external" href="https://www.ecmwf.int/en/about/contact-us/computing-representatives">Computing Representative</a>. The credentials have to be provided during installation.</p>
+<p>2.)  Access through the ECMWF Web API. Need to sign in at <a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home">ECMWF Web API</a> and configure the ECMWF key as described. Member-state users can sign in with their credentials from the <a class="reference external" href="https://www.ecmwf.int/en/about/contact-us/computing-representatives">Computing Representative</a> and public users have to fill out the <a class="reference external" href="https://apps.ecmwf.int/registration/">registration form</a> to get an account.</p>
+<p>3.) Access through the <a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">CDS API</a>. Extra registration for member-state users is required at <a class="reference external" href="https://cds.climate.copernicus.eu/user/register">Copernicus Climate Data Store</a> including the configurations of the CDS key as described. This mode is currently not available for public users. See the note at <a class="reference external" href="Ecmwf/access.html">user group</a> for information.</p>
+</div></blockquote>
+</div>
+<div class="section" id="licence-agreement-for-public-datasets">
+<span id="ref-licence"></span><h2>Licence agreement for public datasets<a class="headerlink" href="#licence-agreement-for-public-datasets" title="Permalink to this headline">¶</a></h2>
+<p>Each ECMWF public dataset has its own licence which has to be accepted, regardless of the user group.</p>
+<p>For the <em>ERA-Interim</em> and <em>CERA-20C</em> datasets this can be done at the ECMWF website <a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/Available+ECMWF+Public+Datasets">Available ECMWF Public Datasets</a>. Log in and follow the licence links on the right side for each dataset and accept it.</p>
+<p>For the <em>ERA5</em> dataset this has to be done at the <a class="reference external" href="https://cds.climate.copernicus.eu/cdsapp#!/search?type=dataset">Climate Data Store (CDS) website</a>. Log in and select, on the left panel, product type “Reanalysis” for finding <em>ERA5</em> datasets. Then follow any link with <em>ERA5</em> to the full dataset record, click on tab “Download data” and scroll down. There is a section “Terms of use” where you have to click the <span class="underline">Accept terms</span> button.</p>
+</div>
+<div class="section" id="download-flex-extract">
+<span id="ref-download"></span><h2>Download <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code><a class="headerlink" href="#download-flex-extract" title="Permalink to this headline">¶</a></h2>
+<p>There are two options to download <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>:</p>
 <dl class="docutils">
-<dt><strong>Member state user</strong>:</dt>
-<dd>To get a member-state user account, users have to be a resident of a <a class="reference external" href="https://www.ecmwf.int/en/about/who-we-are/member-states">member state</a>. In that case, you can contact your <a class="reference external" href="https://www.ecmwf.int/en/about/contact-us/computing-representatives">Computing Representative</a> for granting access. If you would like to use the local application mode to retrieve <strong>ERA5</strong> data you’d have to register at the <a class="reference external" href="https://cds.climate.copernicus.eu/user/register">Copernicus Climate Data Store</a> also.</dd>
-<dt><strong>Public user</strong>:</dt>
-<dd><p class="first">To be able to download public datasets with <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> such as <strong>ERA-Interim</strong> and <strong>CERA-20C</strong> (<strong>ERA5</strong> is not supported via ECMWF Web API anymore), the public user has to create an account at ECMWF.
-Use the registration at the ECMWF website by filling out this <cite>registration form</cite>.</p>
-<div class="last admonition note">
-<p class="first admonition-title">Note</p>
-<p class="last">In the future retrievement of <em>ERA5</em> will be possible via the CDS API for public users also. Then a registration at the <a class="reference external" href="https://cds.climate.copernicus.eu/user/register">Copernicus Climate Data Store</a> is needed in addition.</p>
+<dt>tar ball</dt>
+<dd><p class="first">You can download a tar ball with the latest release from the <a class="reference external" href="https://www.flexpart.eu/wiki/FpInputMetEcmwf">flex_extract page</a> from our <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> community website and then untar the file.</p>
+<div class="last highlight-bash notranslate"><div class="highlight"><pre><span></span>tar -xvf &lt;flex_extract_vX.X.tar&gt;
+</pre></div>
+</div>
+</dd>
+<dt>git repo</dt>
+<dd><p class="first">Alternatively, if you have <code class="docutils literal notranslate"><span class="pre">git</span></code> installed on your machine, and if you are interested to keep the code in a version control system, you may clone the latest version from our git repository master branch.</p>
+<div class="last highlight-bash notranslate"><div class="highlight"><pre><span></span>$ git clone --single-branch --branch master https://www.flexpart.eu/gitmob/flexpart
+</pre></div>
 </div>
 </dd>
 </dl>
 </div>
-<div class="section" id="agree-on-licences-for-public-datasets">
-<span id="ref-licence"></span><h2>Agree on licences for public datasets<a class="headerlink" href="#agree-on-licences-for-public-datasets" title="Permalink to this headline">¶</a></h2>
-<p>Each public dataset which is intended to be downloaded by <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> has its own licence which has to be accepted, regardless of the user group.</p>
-<p>For the <em>ERA-Interim</em> and <em>CERA-20C</em> datasets this can be done at the ECMWF website <a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/Available+ECMWF+Public+Datasets">Available ECMWF Public Datasets</a>. Log in and follow the licence links on the right side for each dataset and accept it.</p>
-<p>For the <em>ERA5</em> dataset this has to be done at the <a class="reference external" href="https://cds.climate.copernicus.eu/cdsapp#!/search?type=dataset">Climate Data Store (CDS) website</a>. Log in with your credentials and then select on the left panel the product type “Reanalysis” for finding <em>ERA5</em> datasets. Then follow the link of a title with <em>ERA5</em> (anyone) to the full dataset record, click on tab “Download data” and scroll down. There is a section “Terms of use” where you have to click the <span class="underline">Accept terms</span> button.</p>
-</div>
-<div class="section" id="download-flex-extract">
-<span id="ref-download"></span><h2>Download <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code><a class="headerlink" href="#download-flex-extract" title="Permalink to this headline">¶</a></h2>
-<p>There are 2 options to download <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>:</p>
-<dl class="docutils">
-<dt>tar ball</dt>
-<dd><p class="first">You can download the latest prepared release tar ball from the <a class="reference external" href="https://www.flexpart.eu/downloads">download section</a>
-of our <code class="docutils literal notranslate"><span class="pre">FLEXPART</span></code> community website and then untar the file. Substitute
-the <strong>&lt;ID&gt;</strong> in the <code class="docutils literal notranslate"><span class="pre">wget</span></code> command with the ID-number of the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>
-release tar ball in the list of downloads at the community website.</p>
-<div class="last highlight-bash notranslate"><div class="highlight"><pre><span></span>wget https://www.flexpart.eu/downloads/&lt;ID&gt;
-tar -xvf &lt;flex_extract_vX.X.tar&gt;
-</pre></div>
-</div>
-</dd>
-<dt>git repo</dt>
-<dd><p class="first">Or you can clone the current release version from our git repository master branch.</p>
-<div class="last highlight-bash notranslate"><div class="highlight"><pre><span></span>$ git clone https://www.flexpart.eu/gitmob/flexpart
-</pre></div>
-</div>
-</dd>
-</dl>
-</div>
 <div class="section" id="environment-requirements">
 <span id="ref-requirements"></span><h2>Environment requirements<a class="headerlink" href="#environment-requirements" title="Permalink to this headline">¶</a></h2>
-<p>This is a list of the general environment requirements for <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>.
-What is required exactly for each application mode will be described in the specifc installation section.</p>
-<p>To run the python part of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> a <a class="reference external" href="https://docs.python.org/3/">Python 3</a> environment is needed.
-We tested <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> with a normal Linux Python package distribution and Anaconda Python.
-Except for <a class="reference external" href="https://www.python.org/downloads/">Python3</a> all are python packages which can be installed via <code class="docutils literal notranslate"><span class="pre">pip</span></code>.</p>
-<ul class="simple">
-<li><a class="reference external" href="https://www.python.org/downloads/">Python3</a> or <a class="reference external" href="https://www.anaconda.com/distribution/#download-section">Anaconda Python3</a></li>
-<li><a class="reference external" href="http://www.numpy.org/">numpy</a></li>
-<li><a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home">ecmwf-api-client</a> (Web Interface to ECMWF servers for datasets except ERA5)</li>
-<li><a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">cdsapi</a> (Web Interface to <a class="reference external" href="https://climate.copernicus.eu/">C3S</a> servers for ERA5)</li>
-<li><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></li>
-<li><a class="reference external" href="https://packages.debian.org/sid/python3-eccodes">eccodes for python</a></li>
-</ul>
-<p>For the Fortran part of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> we need the following distribution packages:</p>
-<ul class="simple">
-<li><a class="reference external" href="https://gcc.gnu.org/wiki/GFortran">gfortran</a></li>
-<li><a class="reference external" href="http://www.fftw.org">fftw3</a></li>
-<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">eccodes</a></li>
-<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">emoslib</a></li>
-</ul>
+<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>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>
 </div>
 <div class="section" id="installation-of-flex-extract">
 <span id="ref-install-fe"></span><h2>Installation of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code><a class="headerlink" href="#installation-of-flex-extract" title="Permalink to this headline">¶</a></h2>
-<p>The actual installation of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> will be done by executing a <cite>Shell</cite> script called <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code>.
-It defines some parameters and calls a Python script by giving the parameters as command line arguments.
-More information on the script and its parameters can be found at <a class="reference internal" href="Documentation/Input/setup.html"><span class="doc">The Installation Script - setup.sh</span></a>.</p>
+<p>The actual installation of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> is done by executing a shell script called <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code>.
+It defines some parameters and calls a Python script passing the parameters as command line arguments. For details, see <a class="reference internal" href="Documentation/Input/setup.html"><span class="doc">The Installation Script - setup.sh</span></a>.</p>
 <p>For each application mode installation section we describe the requirements for the explicit
 environment and how it is installed, test if it works and how the actual <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>
 installation has to be done. At the users local side not all software has to be present for <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>.</p>
-<div class="section" id="remote-mode">
-<span id="ref-remote-mode"></span><h3>Remote mode<a class="headerlink" href="#remote-mode" title="Permalink to this headline">¶</a></h3>
-<div class="section" id="remote-environment-requirements">
-<span id="ref-req-remote"></span><h4>Remote environment requirements<a class="headerlink" href="#remote-environment-requirements" title="Permalink to this headline">¶</a></h4>
-<p>The environment for <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> on ECMWF servers has to provide these
-software packages and libraries:</p>
-<table border="1" class="docutils">
-<colgroup>
-<col width="61%" />
-<col width="39%" />
-</colgroup>
-<tbody valign="top">
-<tr class="row-odd"><td>Python part</td>
-<td>Fortran part</td>
-</tr>
-<tr class="row-even"><td><ul class="first last simple">
-<li><a class="reference external" href="https://www.python.org/downloads/">Python3</a></li>
-<li><a class="reference external" href="http://www.numpy.org/">numpy</a></li>
-<li><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></li>
-<li><a class="reference external" href="https://packages.debian.org/sid/python3-eccodes">eccodes for python</a></li>
-</ul>
-</td>
-<td><ul class="first last simple">
-<li><a class="reference external" href="https://gcc.gnu.org/wiki/GFortran">gfortran</a></li>
-<li><a class="reference external" href="http://www.fftw.org">fftw3</a></li>
-<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">eccodes</a></li>
-<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">emoslib</a></li>
-</ul>
-</td>
-</tr>
-</tbody>
-</table>
-</div>
-<div class="section" id="prepare-remote-environment">
-<span id="ref-prep-remote"></span><h4>Prepare remote environment<a class="headerlink" href="#prepare-remote-environment" title="Permalink to this headline">¶</a></h4>
-<p>The environment on the ECMWF server (such as <em>ecgate</em> or <em>cca</em>) is already
-prepared. ECMWF server provide all libraries via a module system which is
-going to be selected by <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> automatically.</p>
-</div>
-<div class="section" id="remote-installation">
-<span id="ref-install-remote"></span><h4>Remote installation<a class="headerlink" href="#remote-installation" title="Permalink to this headline">¶</a></h4>
-<p>First, log in on one of the ECMWF Linux server, such as <em>ecgate</em> or <em>cca/ccb</em>.
-Substitute <em>&lt;ecuid&gt;</em> with your ECMWF user name:</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>ssh -X &lt;ecuid&gt;@ecaccess.ecmwf.int
-</pre></div>
-</div>
-<p>This will lead to the following output on the command line, asking for your
-password:</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>Authorized access only.
-
-***************************************************************
-   For further information, read the ECaccess documentation at:
-
-   https://software.ecmwf.int/wiki/display/ECAC/ECaccess+Home
-
-   You can also use ECaccess to load &amp; download files from your
-   EChome, ECscratch or ECfs directories using the ECaccess FTP
-   server:
-
-   ftp://uid@ecaccess.ecmwf.int/
-
-   Please note you must use your UID and ActivID code to login!
-***************************************************************
-
-&lt;ecuid&gt;@131.130.157.5&#39;s password: ***
-Select hostname (ecgate, cca, ccb) [ecgate]: ecgate
-
-[&lt;ecuid&gt;@ecgb11 ~]$
-</pre></div>
-</div>
-<p>Then, copy the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> tar ball (from section <a class="reference internal" href="#ref-download"><span class="std std-ref">Download flex_extract</span></a>)
-to the <code class="docutils literal notranslate"><span class="pre">$HOME</span></code> directory of the ECMWF Linux server via <code class="docutils literal notranslate"><span class="pre">scp</span></code>.
-Substitute the <em>&lt;localuser&gt;</em> and <em>&lt;server.edu&gt;</em> placeholders with your credentials.
-Untar the file and change into the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> root directory.</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>scp &lt;localuser&gt;@&lt;server.edu&gt;:/path/to/tarfile/flex_extract_vX.X.tar.gz  <span class="nv">$HOME</span>/
-<span class="nb">cd</span> <span class="nv">$HOME</span>
-tar xvf flex_extract_vX.X.tar.gz
-<span class="nb">cd</span> flex_extract_vX.X
-</pre></div>
-</div>
-<p>On these ECMWF servers, it is not necessary to prepare the environment or the
-<code class="docutils literal notranslate"><span class="pre">Makefile</span></code> for the Fortran program (<code class="docutils literal notranslate"><span class="pre">CONVERT2</span></code>) as described above.
-All third party libraries are available from a module system. The <code class="docutils literal notranslate"><span class="pre">Makefile</span></code>
-is optimized for ECMWF servers and the compilation
-script <code class="docutils literal notranslate"><span class="pre">compilejob.ksh</span></code>, which will be submitted by <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> to the
-batch job queue at ECMWF, does load all relevant modules from the ECMWF’s module system.</p>
-<p>So there is just the need to 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> root directory for installation.
-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>
-<p>Open <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> with your editor and adapt the values:</p>
-<table border="1" class="docutils">
-<colgroup>
-<col width="50%" />
-<col width="50%" />
-</colgroup>
-<tbody valign="top">
-<tr class="row-odd"><td>Take this for target = <strong>ectrans</strong></td>
-<td>Take this for target = <strong>cca</strong></td>
-</tr>
-<tr class="row-even"><td><div class="first last highlight-bash notranslate"><div class="highlight"><pre><span></span>...
-<span class="c1"># -----------------------------------------</span>
-<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
-<span class="c1">#</span>
-<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">&#39;ecgate&#39;</span>
-<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.gfortran&#39;</span>
-<span class="nv">ECUID</span><span class="o">=</span><span class="s1">&#39;uid&#39;</span>
-<span class="nv">ECGID</span><span class="o">=</span><span class="s1">&#39;gid&#39;</span>
-<span class="nv">GATEWAY</span><span class="o">=</span>None
-<span class="nv">DESTINATION</span><span class="o">=</span>None
-<span class="nv">INSTALLDIR</span><span class="o">=</span>None
-<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
-<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
-...
-</pre></div>
-</div>
-</td>
-<td><div class="first last highlight-bash notranslate"><div class="highlight"><pre><span></span>...
-<span class="c1"># -----------------------------------------</span>
-<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
-<span class="c1">#</span>
-<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">&#39;cca&#39;</span>
-<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.CRAY&#39;</span>
-<span class="nv">ECUID</span><span class="o">=</span><span class="s1">&#39;uid&#39;</span>
-<span class="nv">ECGID</span><span class="o">=</span><span class="s1">&#39;gid&#39;</span>
-<span class="nv">GATEWAY</span><span class="o">=</span>None
-<span class="nv">DESTINATION</span><span class="o">=</span>None
-<span class="nv">INSTALLDIR</span><span class="o">=</span><span class="s1">&#39;&#39;</span>
-<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
-<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
-...
-</pre></div>
-</div>
-</td>
-</tr>
-</tbody>
-</table>
-<p><span class="underline">Please substitute the values of ECUID and ECGID
-with your own credentials and settings.</span></p>
-<div class="admonition note">
-<p class="first admonition-title">Note</p>
-<p class="last">If a local gateway server is available the transfer of files could be done
-via the <code class="docutils literal notranslate"><span class="pre">ECaccess</span></code> commands. Therefore a valid <em>GATEWAY</em> and <em>DESTINATION</em>
-have to be present and should be set in the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> file.</p>
-</div>
-<p>Afterwards, type:</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>module load python3
-./setup.sh
-</pre></div>
-</div>
-<p>to start the installation. You should see the following output at the command line.</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Output of setup.sh</span>
-Create tarball ...
-Job compilation script has been submitted to ecgate <span class="k">for</span> installation in <span class="si">${</span><span class="nv">HOME</span><span class="si">}</span>/flex_extract_vX.X
-You should get an email with subject <span class="s2">&quot;flexcompile&quot;</span> within the next few minutes!
-</pre></div>
-</div>
-<p>The email content should look like this with a “SUCCESS” statement in the last line:</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp phgrreal.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp grphreal.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp ftrafo.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3
--rwxr-x---. <span class="m">1</span> USER at <span class="m">353134</span> May <span class="m">23</span> <span class="m">12</span>:27 CONVERT2
-SUCCESS!
-</pre></div>
-</div>
-</div>
-</div>
-<div class="section" id="gateway-mode">
-<span id="ref-gateway-mode"></span><h3>Gateway mode<a class="headerlink" href="#gateway-mode" title="Permalink to this headline">¶</a></h3>
-<div class="section" id="gateway-environment-requirements">
-<span id="ref-req-gateway"></span><h4>Gateway environment requirements<a class="headerlink" href="#gateway-environment-requirements" title="Permalink to this headline">¶</a></h4>
-<p>The environment on your local system has to provide these software packages
-and libraries, since <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> does only prepare the job script and send
-it to the ECMWF servers:</p>
-<ul class="simple">
-<li><a class="reference external" href="https://www.python.org/downloads/">Python3</a> or <a class="reference external" href="https://www.anaconda.com/distribution/#download-section">Anaconda Python3</a></li>
-<li><a class="reference external" href="http://www.numpy.org/">numpy</a></li>
-<li><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></li>
-</ul>
-</div>
-<div class="section" id="prepare-gateway-environment">
-<span id="ref-prep-gateway"></span><h4>Prepare gateway environment<a class="headerlink" href="#prepare-gateway-environment" title="Permalink to this headline">¶</a></h4>
-<p>The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
-The installation was tested on a <em>GNU/Linux Debian buster</em> and an <em>Ubuntu 18.04 Bionic Beaver</em> system.</p>
-<div class="highlight-sh notranslate"><div class="highlight"><pre><span></span><span class="c1"># On a Linux Debian or Ubuntu system do</span>
-<span class="c1"># (if not already available):</span>
-apt-get install python3
-apt-get install pip
-apt-get install genshi
-apt-get install numpy
-</pre></div>
-</div>
-</div>
-<div class="section" id="test-gateway-environment">
-<span id="ref-test-gateway"></span><h4>Test gateway environment<a class="headerlink" href="#test-gateway-environment" title="Permalink to this headline">¶</a></h4>
-<p>Check the availability of the python packages by typing <code class="docutils literal notranslate"><span class="pre">python3</span></code> in
-a terminal window and run the <code class="docutils literal notranslate"><span class="pre">import</span></code> commands in the python shell.
-If there are no error messages, you succeeded in setting up the environment.</p>
-<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="c1"># check in python3 console</span>
-<span class="kn">import</span> <span class="nn">genshi</span>
-<span class="kn">import</span> <span class="nn">numpy</span>
-</pre></div>
-</div>
-</div>
-<div class="section" id="gateway-installation">
-<span id="ref-install-gateway"></span><h4>Gateway installation<a class="headerlink" href="#gateway-installation" title="Permalink to this headline">¶</a></h4>
-<p>In this mode, access to the ECMWF computing and archiving facilities is enabled through an ECaccess gateway server on a local member state server. The ECaccess framework is necessary to interactively submit jobs to the ECMWF batch system and to transfer files between ECMWF and local gateway server.</p>
-<p>Please see <a class="reference external" href="https://confluence.ecmwf.int/display/ECAC/ECaccess+Home">ECMWF’s instructions on gateway server</a> to establish the gateway server if not already in place.
-Additionally, to be able to use the Ecaccess file transfer service <strong>ectrans</strong> please also create an association.
-The easiest way is to visit the ECaccess Member State Gateway website (e.g. msgatway.ecmwf.int) and follow the instructions in the short <a class="reference external" href="https://confluence.ecmwf.int/download/attachments/45759146/ECaccess.pdf">ECaccess Presentation</a> (page 17 ff.). Additional documentation can be found on the <a class="reference external" href="https://confluence.ecmwf.int/display/ECAC/Unattended+file+transfer+-+ectrans">ECMWF ectrans site</a>.</p>
-<p>After everything is set up you have to create an <em>ecaccess certificate</em> to be able to send and receive files from and to the ECMWF server. You can do this by using the <code class="docutils literal notranslate"><span class="pre">ecaccess-certificate-create</span></code> command on the gateway server. You will be prompted for your ECMWF member state user name and a password (which will be usually generated by a Token). This certificate has to be re-newed periodically (every 7 days).</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ecaccess-certificate-create
-Please enter your user-id: example_username
-Your passcode: ***
-</pre></div>
-</div>
-<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 external" href="Documentation/Input/setup.html">[ref]</a>, select the <code class="docutils literal notranslate"><span class="pre">Makefile.gfortran</span></code> for the <code class="docutils literal notranslate"><span class="pre">CONVERT2</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, selects again automatically the correct libraries from the module system. For enableing the file transfer you have to set the <em>ECUID</em>, <em>ECGID</em>, <em>GATEWAY</em> and <em>DESTINATION</em> parameter values.</p>
-<div class="literal-block-wrapper docutils container" id="setup-sh">
-<div class="code-block-caption"><span class="caption-text">‘Example settings for a gateway installation.’</span><a class="headerlink" href="#setup-sh" title="Permalink to this code">¶</a></div>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># -----------------------------------------------------------------</span>
-<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
-<span class="c1">#</span>
-<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">&#39;ecgate&#39;</span>
-<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.gfortran&#39;</span>
-<span class="nv">ECUID</span><span class="o">=</span><span class="s1">&#39;uid&#39;</span>
-<span class="nv">ECGID</span><span class="o">=</span><span class="s1">&#39;gid&#39;</span>
-<span class="nv">GATEWAY</span><span class="o">=</span><span class="s1">&#39;server.example.edu&#39;</span>
-<span class="nv">DESTINATION</span><span class="o">=</span><span class="s1">&#39;example@genericSftp&#39;</span>
-<span class="nv">INSTALLDIR</span><span class="o">=</span>None
-<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
-<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
-</pre></div>
-</div>
-</div>
-<p>Afterwards, type:</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ./setup.sh
-</pre></div>
-</div>
-<p>to start the installation. You should see the following output at the command line.</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Output of setup.sh</span>
-Create tarball ...
-Job compilation script has been submitted to ecgate <span class="k">for</span> installation in <span class="si">${</span><span class="nv">HOME</span><span class="si">}</span>/flex_extract_vX.X
-You should get an email with subject <span class="s2">&quot;flexcompile&quot;</span> within the next few minutes!
-</pre></div>
-</div>
-<p>The email content should look like this with a “SUCCESS” statement in the last line:</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp phgrreal.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp grphreal.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp ftrafo.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g rwGRIB2.f90
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g posnam.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -I. -I/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/include -g preconvert.f90
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -g -O3 -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.12.0/GNU/6.3.0/lib -leccodes_f90 -leccodes -ljasper -lpthread -L/usr/local/apps/jasper/1.900.1/LP64/lib -ljasper -lm -L/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -Wl,-rpath,/usr/local/apps/libemos/000455/GNU/6.3.0/lib  -lemos.R64.D64.I32 -L/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -Wl,-rpath,/usr/local/apps/fftw/3.3.4/GNU/6.3.0/lib -lfftw3
--rwxr-x---. <span class="m">1</span> USER at <span class="m">353134</span> May <span class="m">23</span> <span class="m">12</span>:27 CONVERT2
-SUCCESS!
-</pre></div>
-</div>
-</div>
-</div>
-<div class="section" id="local-mode">
-<span id="ref-local-mode"></span><h3>Local mode<a class="headerlink" href="#local-mode" title="Permalink to this headline">¶</a></h3>
-<div class="section" id="local-environment-requirements">
-<span id="ref-req-local"></span><h4>Local environment requirements<a class="headerlink" href="#local-environment-requirements" title="Permalink to this headline">¶</a></h4>
-<p>For the local access modes <strong>member</strong> and <strong>public</strong> there is no difference in
-the installation process.</p>
-<p>The environment on your local system has to provide these software packages
-and libraries, since all extraction and preparation is done at the local system:</p>
-<table border="1" class="docutils">
-<colgroup>
-<col width="74%" />
-<col width="26%" />
-</colgroup>
-<tbody valign="top">
-<tr class="row-odd"><td>Python part</td>
-<td>Fortran part</td>
-</tr>
-<tr class="row-even"><td><ul class="first last simple">
-<li><a class="reference external" href="https://www.python.org/downloads/">Python3</a></li>
-<li><a class="reference external" href="http://www.numpy.org/">numpy</a></li>
-<li><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></li>
-<li><a class="reference external" href="https://packages.debian.org/sid/python3-eccodes">eccodes for python</a></li>
-<li><a class="reference external" href="https://confluence.ecmwf.int/display/WEBAPI/ECMWF+Web+API+Home">ecmwf-api-client</a> (everything except ERA5)</li>
-<li><a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">cdsapi</a> (just for ERA5)</li>
-</ul>
-</td>
-<td><ul class="first last simple">
-<li><a class="reference external" href="https://gcc.gnu.org/wiki/GFortran">gfortran</a></li>
-<li><a class="reference external" href="http://www.fftw.org">fftw3</a></li>
-<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">eccodes</a></li>
-<li><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">emoslib</a></li>
-</ul>
-</td>
-</tr>
-</tbody>
-</table>
-</div>
-<div class="section" id="prepare-local-environment">
-<span id="ref-prep-local"></span><h4>Prepare local environment<a class="headerlink" href="#prepare-local-environment" title="Permalink to this headline">¶</a></h4>
-<p>The easiest way to install all required packages is to use the package management system of your Linux distribution. To do so, it is necessary to use a user with admin rights.
-The installation was tested on a <em>Debian GNU/Linux buster/sid</em> and an <em>Ubuntu 18.04 Bionic Beaver</em> system.</p>
-<div class="highlight-sh notranslate"><div class="highlight"><pre><span></span><span class="c1"># On a Linux Debian or Ubuntu system do</span>
-<span class="c1"># (if not already available):</span>
-apt-get install python3 <span class="o">(</span>usually available on normal Linux systems<span class="o">)</span>
-apt-get install pip
-apt-get install gfortran
-apt-get install fftw3-dev
-apt-get install libeccodes-dev
-apt-get install libemos-dev
-apt-get install python3-eccodes
-apt-get install genshi
-apt-get install numpy
-pip install cdsapi
-pip install ecmwf-api-client
-</pre></div>
-</div>
-<div class="admonition note">
-<p class="first admonition-title">Note</p>
-<p>In case you would like to use Anaconda Python we recommend you follow the installation instructions of
-<a class="reference external" href="https://docs.anaconda.com/anaconda/install/linux/">Anaconda Python Installation for Linux</a> and then install the
-<code class="docutils literal notranslate"><span class="pre">eccodes</span></code> package from <code class="docutils literal notranslate"><span class="pre">conda</span></code> with:</p>
-<div class="last highlight-bash notranslate"><div class="highlight"><pre><span></span>conda install conda-forge::python-eccodes
-</pre></div>
-</div>
-</div>
-<p>The CDS API (cdsapi) and the ECMWF Web API (ecmwf-api-client) have both to be installed since ERA5 can only be retrieved with the <code class="docutils literal notranslate"><span class="pre">CDS</span> <span class="pre">API</span></code> and all other datasets with the <code class="docutils literal notranslate"><span class="pre">ECMWF</span> <span class="pre">Web</span> <span class="pre">API</span></code>.</p>
-<div class="admonition note">
-<p class="first admonition-title">Note</p>
-<p class="last">Since <strong>public users</strong> currently don’t have access to the full <em>ERA5</em> dataset they can skip the installation of the <code class="docutils literal notranslate"><span class="pre">CDS</span> <span class="pre">API</span></code>.</p>
-</div>
-<p>Both user groups have to provide key’s with their credentials for the Web API’s in their home directory. Therefore, follow these instructions:</p>
-<dl class="docutils">
-<dt>ECMWF Web API:</dt>
-<dd>Go to <a class="reference external" href="https://confluence.ecmwf.int//display/WEBAPI/Access+MARS">MARS access</a> website and log in with your credentials. Afterwards, on this site in section “Install ECMWF KEY” the key for the ECMWF Web API should be listed. Please follow the instructions in this section under point 1 (save the key in a file <cite>.ecmwfapirc</cite> in your home directory).</dd>
-<dt>CDS API:</dt>
-<dd>Go to ‘CDS API registration’_ and register there too. Log in at the <a class="reference external" href="https://cds.climate.copernicus.eu/api-how-to">cdsapi</a> website and follow the instructions at section “Install the CDS API key” to save your credentials in a <cite>.cdsapirc</cite> file.</dd>
-</dl>
-</div>
-<div class="section" id="test-local-environment">
-<span id="ref-test-local"></span><h4>Test local environment<a class="headerlink" href="#test-local-environment" title="Permalink to this headline">¶</a></h4>
-<p>Check the availability of the system packages with <code class="docutils literal notranslate"><span class="pre">dpkg</span> <span class="pre">-s</span> <span class="pre">&lt;package-name&gt;</span> <span class="pre">|</span>&#160; <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">&lt;package_name&gt;</span></code>, depending on your system. 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
-</pre></div>
-</div>
-<p>Afterwards, check the availability of the python packages by typing <code class="docutils literal notranslate"><span class="pre">python3</span></code> in
-a terminal window and run the <code class="docutils literal notranslate"><span class="pre">import</span></code> commands in the python shell. If there are no error messages, you succeeded in setting up the environment.</p>
-<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="c1"># check in python3 console</span>
-<span class="kn">import</span> <span class="nn">eccodes</span>
-<span class="kn">import</span> <span class="nn">genshi</span>
-<span class="kn">import</span> <span class="nn">numpy</span>
-<span class="kn">import</span> <span class="nn">cdsapi</span>
-<span class="kn">import</span> <span class="nn">ecmwfapi</span>
-</pre></div>
-</div>
-<div class="section" id="test-the-web-api-s">
-<h5>Test the Web API’s<a class="headerlink" href="#test-the-web-api-s" title="Permalink to this headline">¶</a></h5>
-<p>You can start very simple test retrievals for both Web API’s to be sure that everything works. This is recommended to minimize the range of possible errors using <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> later on.</p>
-</div>
-<div class="section" id="ecmwf-web-api">
-<h5>ECMWF Web API<a class="headerlink" href="#ecmwf-web-api" title="Permalink to this headline">¶</a></h5>
-<table border="1" class="docutils">
-<colgroup>
-<col width="50%" />
-<col width="50%" />
-</colgroup>
-<tbody valign="top">
-<tr class="row-odd"><td>Please use this piece of python code for <strong>Member user</strong>:</td>
-<td>Please use this piece of python code for <strong>Public user</strong>:</td>
-</tr>
-<tr class="row-even"><td><div class="first last highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">from</span> <span class="nn">ecmwfapi</span> <span class="kn">import</span> <span class="n">ECMWFService</span>
-
-<span class="n">server</span> <span class="o">=</span> <span class="n">ECMWFService</span><span class="p">(</span><span class="s1">&#39;mars&#39;</span><span class="p">)</span>
-
-<span class="n">server</span><span class="o">.</span><span class="n">retrieve</span><span class="p">({</span>
-    <span class="s1">&#39;stream&#39;</span>    <span class="p">:</span> <span class="s2">&quot;oper&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;levtype&#39;</span>   <span class="p">:</span> <span class="s2">&quot;sfc&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;param&#39;</span>     <span class="p">:</span> <span class="s2">&quot;165.128/166.128/167.128&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;dataset&#39;</span>   <span class="p">:</span> <span class="s2">&quot;interim&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;step&#39;</span>      <span class="p">:</span> <span class="s2">&quot;0&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;grid&#39;</span>      <span class="p">:</span> <span class="s2">&quot;0.75/0.75&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;time&#39;</span>      <span class="p">:</span> <span class="s2">&quot;00/06/12/18&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;date&#39;</span>      <span class="p">:</span> <span class="s2">&quot;2014-07-01/to/2014-07-31&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;type&#39;</span>      <span class="p">:</span> <span class="s2">&quot;an&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;class&#39;</span>     <span class="p">:</span> <span class="s2">&quot;ei&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;target&#39;</span>    <span class="p">:</span> <span class="s2">&quot;download_erainterim_ecmwfapi.grib&quot;</span>
-<span class="p">})</span>
-</pre></div>
-</div>
-</td>
-<td><div class="first last highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">from</span> <span class="nn">ecmwfapi</span> <span class="kn">import</span> <span class="n">ECMWFDataServer</span>
-
-<span class="n">server</span> <span class="o">=</span> <span class="n">ECMWFDataServer</span><span class="p">()</span>
-
-<span class="n">server</span><span class="o">.</span><span class="n">retrieve</span><span class="p">({</span>
-    <span class="s1">&#39;stream&#39;</span>    <span class="p">:</span> <span class="s2">&quot;enda&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;levtype&#39;</span>   <span class="p">:</span> <span class="s2">&quot;sfc&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;param&#39;</span>     <span class="p">:</span> <span class="s2">&quot;165.128/166.128/167.128&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;dataset&#39;</span>   <span class="p">:</span> <span class="s2">&quot;cera20c&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;step&#39;</span>      <span class="p">:</span> <span class="s2">&quot;0&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;grid&#39;</span>      <span class="p">:</span> <span class="s2">&quot;1./1.&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;time&#39;</span>      <span class="p">:</span> <span class="s2">&quot;00/06/12/18&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;date&#39;</span>      <span class="p">:</span> <span class="s2">&quot;2000-07-01/to/2000-07-31&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;type&#39;</span>      <span class="p">:</span> <span class="s2">&quot;an&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;class&#39;</span>     <span class="p">:</span> <span class="s2">&quot;ep&quot;</span><span class="p">,</span>
-    <span class="s1">&#39;target&#39;</span>    <span class="p">:</span> <span class="s2">&quot;download_cera20c_ecmwfapi.grib&quot;</span>
-<span class="p">})</span>
-</pre></div>
-</div>
-</td>
-</tr>
-</tbody>
-</table>
-</div>
-<div class="section" id="cds-api">
-<h5>CDS API<a class="headerlink" href="#cds-api" title="Permalink to this headline">¶</a></h5>
-<p>Since ERA5 extraction with CDS API might take some time due to the very high number of requests, you can start by retrieving some online stored pressure levels (not from MARS). This is usually much faster and gives a quick result to find out if the web API works:</p>
-<p>Please use this piece of python code to retrieve a small sample of <em>ERA5</em> pressure levels:</p>
-<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">cdsapi</span>
-
-<span class="n">c</span> <span class="o">=</span> <span class="n">cdsapi</span><span class="o">.</span><span class="n">Client</span><span class="p">()</span>
-
-<span class="n">c</span><span class="o">.</span><span class="n">retrieve</span><span class="p">(</span><span class="s2">&quot;reanalysis-era5-pressure-levels&quot;</span><span class="p">,</span>
-<span class="p">{</span>
-<span class="s2">&quot;variable&quot;</span><span class="p">:</span> <span class="s2">&quot;temperature&quot;</span><span class="p">,</span>
-<span class="s2">&quot;pressure_level&quot;</span><span class="p">:</span> <span class="s2">&quot;1000&quot;</span><span class="p">,</span>
-<span class="s2">&quot;product_type&quot;</span><span class="p">:</span> <span class="s2">&quot;reanalysis&quot;</span><span class="p">,</span>
-<span class="s2">&quot;year&quot;</span><span class="p">:</span> <span class="s2">&quot;2008&quot;</span><span class="p">,</span>
-<span class="s2">&quot;month&quot;</span><span class="p">:</span> <span class="s2">&quot;01&quot;</span><span class="p">,</span>
-<span class="s2">&quot;day&quot;</span><span class="p">:</span> <span class="s2">&quot;01&quot;</span><span class="p">,</span>
-<span class="s2">&quot;time&quot;</span><span class="p">:</span> <span class="s2">&quot;12:00&quot;</span><span class="p">,</span>
-<span class="s2">&quot;format&quot;</span><span class="p">:</span> <span class="s2">&quot;grib&quot;</span>
-<span class="p">},</span>
-<span class="s2">&quot;download_cdsapi.grib&quot;</span><span class="p">)</span>
-</pre></div>
-</div>
-<p>Afterwards, when you know that the CDS API generally works, you can try to extract some
-data from the MARS archive. From the latest experience we know that this can take a while.</p>
-<p>Please use this piece of python code to retrieve a small <em>ERA5</em> data sample as a <strong>member user</strong>! The <strong>public user</strong> doesn’t have access to the full <em>ERA5</em> dataset!</p>
-<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">cdsapi</span>
-
-<span class="n">c</span> <span class="o">=</span> <span class="n">cdsapi</span><span class="o">.</span><span class="n">Client</span><span class="p">()</span>
-
-<span class="n">c</span><span class="o">.</span><span class="n">retrieve</span><span class="p">(</span><span class="s1">&#39;reanalysis-era5-complete&#39;</span><span class="p">,</span>
-<span class="p">{</span>
-    <span class="s1">&#39;class&#39;</span>   <span class="p">:</span> <span class="s1">&#39;ea&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;expver&#39;</span>  <span class="p">:</span> <span class="s1">&#39;1&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;stream&#39;</span>  <span class="p">:</span> <span class="s1">&#39;oper&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;type&#39;</span>    <span class="p">:</span> <span class="s1">&#39;fc&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;step&#39;</span>    <span class="p">:</span> <span class="s1">&#39;3/to/12/by/3&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;param&#39;</span>   <span class="p">:</span> <span class="s1">&#39;130.128&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;levtype&#39;</span> <span class="p">:</span> <span class="s1">&#39;ml&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;levelist&#39;</span><span class="p">:</span> <span class="s1">&#39;135/to/137&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;date&#39;</span>    <span class="p">:</span> <span class="s1">&#39;2013-01-01&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;time&#39;</span>    <span class="p">:</span> <span class="s1">&#39;06/18&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;area&#39;</span>    <span class="p">:</span> <span class="s1">&#39;50/-5/40/5&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;grid&#39;</span>    <span class="p">:</span> <span class="s1">&#39;1.0/1.0&#39;</span><span class="p">,</span>
-    <span class="s1">&#39;format&#39;</span>  <span class="p">:</span> <span class="s1">&#39;grib&#39;</span><span class="p">,</span>
-<span class="p">},</span> <span class="s1">&#39;download_era5_cdsapi.grib&#39;</span><span class="p">)</span>
-</pre></div>
-</div>
-</div>
-</div>
-<div class="section" id="local-installation">
-<span id="ref-install-local"></span><h4>Local installation<a class="headerlink" href="#local-installation" title="Permalink to this headline">¶</a></h4>
-<p>First prepare the Fortran <code class="docutils literal notranslate"><span class="pre">Makefile</span></code> for your environment and set it
-in the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script. (See section <span class="xref std std-ref">ref-convert</span> for information on
-the Fortran program.)
-<code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> has already two <code class="docutils literal notranslate"><span class="pre">Makefiles</span></code> prepared for te <code class="docutils literal notranslate"><span class="pre">gfortran</span></code> and
-the <code class="docutils literal notranslate"><span class="pre">ifort</span></code> compiler:</p>
+<p>Select one of the following modes to install:</p>
 <blockquote>
-<div><ul class="simple">
-<li>Makefile.local.gfortran</li>
-<li>Makefile.local.ifort</li>
-</ul>
+<div><p><a class="reference internal" href="Installation/remote.html"><span class="doc">Remote mode installation</span></a></p>
+<p><a class="reference internal" href="Installation/gateway.html"><span class="doc">Gateway mode installation</span></a></p>
+<p><a class="reference internal" href="Installation/local.html"><span class="doc">Local mode installation</span></a></p>
 </div></blockquote>
-<p>They can be found in the path <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 with the current version number.</p>
-<div class="admonition caution">
-<p class="first admonition-title">Caution</p>
-<p class="last">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>.</p>
-</div>
-<p>So starting from the root directory of <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>,
-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 to modify with an editor of your choice. We use the <code class="docutils literal notranslate"><span class="pre">nedit</span></code> in this case.</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.local.gfortran
-</pre></div>
-</div>
-<p>Edit the pathes to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library on your local machine.</p>
-<div class="admonition caution">
-<p class="first 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 class="last">to find out the path to the <code class="docutils literal notranslate"><span class="pre">eccodes</span></code> library.</p>
-</div>
-<p>Substitute these paths in the <code class="docutils literal notranslate"><span class="pre">Makefile</span></code> for parameters <strong>ECCODES_INCLUDE_DIR</strong>
-and <strong>ECCODES_LIB</strong> and save it.</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># these are the paths on a current Debian 10 Testing system (May 2019)</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">CONVERT2</span></code> will be compiled during the
-installation process to get an executable. Therefore the <code class="docutils literal notranslate"><span class="pre">Makefile</span></code>
-has to be set in the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script.</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
-and adapt the installation parameters in the section labelled with
-“AVAILABLE COMMANDLINE ARGUMENTS TO SET” like shown below.</p>
-<div class="literal-block-wrapper docutils container" id="id2">
-<div class="code-block-caption"><span class="caption-text">‘Example settings for a local installation.’</span><a class="headerlink" href="#id2" title="Permalink to this code">¶</a></div>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>...
-<span class="c1"># -----------------------------------------------------------------</span>
-<span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span>
-<span class="c1">#</span>
-<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">&#39;local&#39;</span>
-<span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">&#39;Makefile.local.gfortran&#39;</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
-<span class="nv">DESTINATION</span><span class="o">=</span>None
-<span class="nv">INSTALLDIR</span><span class="o">=</span>None
-<span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">&#39;job.template&#39;</span>
-<span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">&#39;CONTROL_EA5&#39;</span>
-...
-</pre></div>
-</div>
-</div>
-<p>Afterwards, type:</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ ./setup.sh
-</pre></div>
-</div>
-<p>to start the installation. You should see the following output at the command line.</p>
-<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Output of setup.sh</span>
-WARNING: installdir has not been specified
-flex_extract will be installed in here by compiling the Fortran <span class="nb">source</span> in /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1/source/fortran
-Install flex_extract_v7.1 software at <span class="nb">local</span> in directory /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1
-
-Using makefile: Makefile.local.gfortran
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp phgrreal.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp grphreal.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -g -O3 -fopenmp ftrafo.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 rwGRIB2.f90
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 posnam.f
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -c -O3 -fopenmp -I. -I/usr/local/gcc-4.9.3/grib_api-1.14.3/include -O3 preconvert.f90
-gfortran   -m64 -fdefault-real-8 -fcray-pointer -fno-second-underscore  -ffixed-line-length-132 -fopenmp  -fconvert<span class="o">=</span>big-endian  -O3 -O3 -fopenmp -o ./CONVERT2 ftrafo.o phgrreal.o grphreal.o rwGRIB2.o posnam.o preconvert.o -L/usr/local/gcc-4.9.3/grib_api-1.14.3/lib -Bstatic  -lgrib_api_f77 -lgrib_api_f90 -lgrib_api -Bdynamic  -lm  -ljasper -lemosR64
-
--rwxrwxr-x. <span class="m">1</span> philipa8 tmc <span class="m">282992</span> May <span class="m">23</span> <span class="m">22</span>:27 ./CONVERT2
-</pre></div>
-</div>
-</div>
+<div class="toctree-wrapper compound">
 </div>
 </div>
@@ -897,5 +338,5 @@
 </pre></div>
 </div>
-<p>Now go back to the root directoy:</p>
+<p>Now go back to the root directory:</p>
 <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>$ <span class="nb">cd</span> ../../../
 </pre></div>
@@ -918,8 +359,8 @@
     <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="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="&lt;no title&gt;" 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 flex_extract’s user documentation!" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</a>
       
     </div>
Index: Documentation/html/quick_start.html
===================================================================
--- Documentation/html/quick_start.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/quick_start.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -40,5 +40,5 @@
     <link rel="search" title="Search" href="search.html" />
     <link rel="next" title="ECMWF Data" href="ecmwf_data.html" />
-    <link rel="prev" title="Installation" href="installation.html" /> 
+    <link rel="prev" title="Local mode installation" href="Installation/local.html" /> 
 </head>
 
@@ -476,5 +476,5 @@
 <div class="admonition-todo admonition" id="index-0">
 <p class="first admonition-title">Todo</p>
-<p class="last">&#64;LEO: please check the complete describtion and functionality of the CONTROL FILEs</p>
+<p class="last">&#64;LEO: please check the complete description and functionality of the CONTROL FILEs</p>
 </div>
 </div>
@@ -630,5 +630,5 @@
       
       
-        <a href="installation.html" class="btn btn-neutral float-left" title="Installation" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left"></span> Previous</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>
       
     </div>
Index: Documentation/html/searchindex.js
===================================================================
--- Documentation/html/searchindex.js	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/searchindex.js	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
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Documentation","Fortran\u2019s Auto Generated Documentation","Python\u2019s Auto Generated Documentation","CONTROL file changes","The Compilation Jobscript <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 - <code class=\"docutils literal notranslate\"><span class=\"pre\">CONVERT2</span></code>","The Jobscript <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 &amp; Input Data","Output Data","Overview","Vertical Coordinate","Access Modes","Link Collection for Quick finder","Hints to specify dataset retrieval","Available Datasets for Member State users","Available Datasets for Public users","Metrics","Static Code Analysis","Testcases","Gateway mode installation","Local mode installation","Remote mode installation","FAQ - Frequently asked questions","Known Bugs and Issues","Developer Team","Changelog","Developer Guide","Documentation","ECMWF Data","Evaluation","Welcome to <code class=\"docutils literal notranslate\"><span class=\"pre\">flex_extract</span></code>\u2019s user documentation!","Installation","Quick 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Index: Documentation/html/todo.html
===================================================================
--- Documentation/html/todo.html	(revision ba9923062b4af98cbdd20c4101c305766fc728f5)
+++ Documentation/html/todo.html	(revision 30f7911a6e9f08ea7e46542a8f3383d7cd5b8f00)
@@ -166,5 +166,5 @@
 <div class="admonition-todo admonition">
 <p class="first admonition-title">Todo</p>
-<p class="last">&#64;LEO: please check the complete describtion and functionality of the CONTROL FILEs</p>
+<p class="last">&#64;LEO: please check the complete description and functionality of the CONTROL FILEs</p>
 </div>
 <p class="todo-source">(The <a class="reference internal" href="quick_start.html#index-0"><em>original entry</em></a> is located in /raid60/nas/tmc/Anne/Interpolation/flexextract/flex_extract_v7.1/For_developers/Sphinx/source/quick_start.rst, line 337.)</p>
