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| 65 | <div class="version"> |
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[6931f61] | 66 | 7.1.2 |
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| 90 | <p class="caption"><span class="caption-text">Table of Contents:</span></p> |
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| 91 | <ul class="current"> |
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[5bee29a] | 92 | <li class="toctree-l1"><a class="reference internal" href="../ecmwf_data.html">ECMWF Data</a></li> |
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[30f7911] | 93 | <li class="toctree-l1 current"><a class="reference internal" href="../installation.html">Installation</a><ul class="current"> |
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| 94 | <li class="toctree-l2"><a class="reference internal" href="../installation.html#registration-at-ecmwf">Registration at ECMWF</a></li> |
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[5bee29a] | 95 | <li class="toctree-l2"><a class="reference internal" href="../installation.html#accept-licences-for-public-datasets">Accept licences for public datasets</a></li> |
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[30f7911] | 96 | <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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[d720895] | 97 | <li class="toctree-l2"><a class="reference internal" href="../installation.html#dependencies">Dependencies</a></li> |
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[30f7911] | 98 | <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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| 99 | <li class="toctree-l3 current"><a class="current reference internal" href="#">Remote mode installation</a><ul> |
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[d720895] | 100 | <li class="toctree-l4"><a class="reference internal" href="#remote-mode-dependencies">Remote mode - dependencies</a></li> |
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[30f7911] | 101 | <li class="toctree-l4"><a class="reference internal" href="#prepare-remote-environment">Prepare remote environment</a></li> |
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| 102 | <li class="toctree-l4"><a class="reference internal" href="#remote-installation">Remote installation</a></li> |
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| 103 | </ul> |
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| 104 | </li> |
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| 105 | <li class="toctree-l3"><a class="reference internal" href="gateway.html">Gateway mode installation</a></li> |
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| 106 | <li class="toctree-l3"><a class="reference internal" href="local.html">Local mode installation</a></li> |
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| 107 | </ul> |
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| 108 | </li> |
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| 109 | <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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| 110 | <li class="toctree-l2"><a class="reference internal" href="../installation.html#test-installation">Test installation</a></li> |
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| 111 | </ul> |
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| 112 | </li> |
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[5bee29a] | 113 | <li class="toctree-l1"><a class="reference internal" href="../quick_start.html">Usage</a></li> |
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| 168 | <li>Remote mode installation</li> |
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| 185 | <div itemprop="articleBody"> |
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| 186 | |
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| 187 | <div class="section" id="remote-mode-installation"> |
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| 188 | <h1>Remote mode installation<a class="headerlink" href="#remote-mode-installation" title="Permalink to this headline">¶</a></h1> |
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| 189 | <div class="toctree-wrapper compound"> |
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| 190 | </div> |
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[d720895] | 191 | <div class="section" id="remote-mode-dependencies"> |
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| 192 | <span id="ref-req-remote"></span><span id="ref-remote-mode"></span><h2>Remote mode - dependencies<a class="headerlink" href="#remote-mode-dependencies" title="Permalink to this headline">¶</a></h2> |
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| 193 | <p>The following software is required, and already available at the ECMWF servers:</p> |
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[b1674ed] | 194 | <table class="docutils align-default"> |
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[30f7911] | 195 | <colgroup> |
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[b1674ed] | 196 | <col style="width: 61%" /> |
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| 197 | <col style="width: 39%" /> |
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[30f7911] | 198 | </colgroup> |
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[b1674ed] | 199 | <tbody> |
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[5bee29a] | 200 | <tr class="row-odd"><td><p>Python code</p></td> |
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| 201 | <td><p>Fortran code</p></td> |
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[30f7911] | 202 | </tr> |
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[b1674ed] | 203 | <tr class="row-even"><td><ul class="simple"> |
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| 204 | <li><p><a class="reference external" href="https://www.python.org/downloads/">Python3</a></p></li> |
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| 205 | <li><p><a class="reference external" href="http://www.numpy.org/">numpy</a></p></li> |
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| 206 | <li><p><a class="reference external" href="https://genshi.edgewall.org/">genshi</a></p></li> |
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| 207 | <li><p><a class="reference external" href="https://packages.debian.org/sid/python3-eccodes">eccodes for python</a></p></li> |
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[30f7911] | 208 | </ul> |
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| 209 | </td> |
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[b1674ed] | 210 | <td><ul class="simple"> |
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| 211 | <li><p><a class="reference external" href="https://gcc.gnu.org/wiki/GFortran">gfortran</a></p></li> |
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| 212 | <li><p><a class="reference external" href="http://www.fftw.org">fftw3</a></p></li> |
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| 213 | <li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/ECC">eccodes</a></p></li> |
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| 214 | <li><p><a class="reference external" href="https://software.ecmwf.int/wiki/display/EMOS/Emoslib">emoslib</a></p></li> |
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[30f7911] | 215 | </ul> |
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| 216 | </td> |
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| 217 | </tr> |
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| 218 | </tbody> |
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| 219 | </table> |
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| 220 | </div> |
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| 221 | <div class="section" id="prepare-remote-environment"> |
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| 222 | <span id="ref-prep-remote"></span><h2>Prepare remote environment<a class="headerlink" href="#prepare-remote-environment" title="Permalink to this headline">¶</a></h2> |
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[d720895] | 223 | <p>ECMWF servers provide all libraries via a module system. Loading the required modules is already built into <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> and no user action is needed.</p> |
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[30f7911] | 224 | </div> |
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| 225 | <div class="section" id="remote-installation"> |
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| 226 | <span id="ref-install-remote"></span><h2>Remote installation<a class="headerlink" href="#remote-installation" title="Permalink to this headline">¶</a></h2> |
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[d720895] | 227 | <p>First, log in on one of the ECMWF servers, such as <em>ecgate</em> or <em>cca/ccb</em>. |
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[30f7911] | 228 | Substitute <em><ecuid></em> with your ECMWF user name:</p> |
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| 229 | <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>ssh -X <ecuid>@ecaccess.ecmwf.int |
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| 230 | </pre></div> |
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| 231 | </div> |
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[b1674ed] | 232 | <p>This will lead to the following output on the command line, asking for your password:</p> |
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[30f7911] | 233 | <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>Authorized access only. |
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| 234 | |
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| 235 | *************************************************************** |
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| 236 | For further information, read the ECaccess documentation at: |
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| 237 | |
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| 238 | https://software.ecmwf.int/wiki/display/ECAC/ECaccess+Home |
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| 239 | |
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| 240 | You can also use ECaccess to load & download files from your |
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| 241 | EChome, ECscratch or ECfs directories using the ECaccess FTP |
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| 242 | server: |
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| 243 | |
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| 244 | ftp://uid@ecaccess.ecmwf.int/ |
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| 245 | |
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| 246 | Please note you must use your UID and ActivID code to login! |
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| 247 | *************************************************************** |
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| 248 | |
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[d720895] | 249 | <ecuid>@<ipname/address>'s password: *** |
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[30f7911] | 250 | Select hostname (ecgate, cca, ccb) [ecgate]: ecgate |
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| 251 | |
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| 252 | [<ecuid>@ecgb11 ~]$ |
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| 253 | </pre></div> |
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| 254 | </div> |
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[d720895] | 255 | <p>Substitute the <em><localuser></em> and <em><localmachine.tld></em> placeholders with your local user name and the IP name or address of your local machine. |
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[30f7911] | 256 | Untar the file and change into the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code> root directory.</p> |
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[d720895] | 257 | <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>scp <localuser>@<localmachine.tld>:</path/to/tarfile/>flex_extract_vX.X.tar.gz <span class="nv">$HOME</span>/ |
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[30f7911] | 258 | <span class="nb">cd</span> <span class="nv">$HOME</span> |
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| 259 | tar xvf flex_extract_vX.X.tar.gz |
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| 260 | <span class="nb">cd</span> flex_extract_vX.X |
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| 261 | </pre></div> |
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| 262 | </div> |
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[d720895] | 263 | <p>Execute the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> script from the <code class="docutils literal notranslate"><span class="pre">flex_extract</span></code>’s root directory. |
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[30f7911] | 264 | Before executing it, it is necessary to adapt some parameters from <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> |
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[5bee29a] | 265 | described in <a class="reference internal" href="../Documentation/Input/setup.html"><span class="doc">The installation script - setup.sh</span></a>.</p> |
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[b1674ed] | 266 | <p>Open <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> with your preferred editor (e.g., nano) and adapt the values:</p> |
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| 267 | <table class="docutils align-default"> |
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[30f7911] | 268 | <colgroup> |
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[b1674ed] | 269 | <col style="width: 50%" /> |
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| 270 | <col style="width: 50%" /> |
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[30f7911] | 271 | </colgroup> |
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[b1674ed] | 272 | <tbody> |
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| 273 | <tr class="row-odd"><td><p>Use this for target = <strong>ectrans</strong></p></td> |
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| 274 | <td><p>Use this for target = <strong>cca</strong> or <strong>ccb</strong></p></td> |
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[30f7911] | 275 | </tr> |
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[b1674ed] | 276 | <tr class="row-even"><td><div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>... |
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[30f7911] | 277 | <span class="c1"># -----------------------------------------</span> |
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| 278 | <span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span> |
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| 279 | <span class="c1">#</span> |
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| 280 | <span class="c1"># THE USER HAS TO SPECIFY THESE PARAMETER</span> |
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| 281 | <span class="c1">#</span> |
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| 282 | <span class="nv">TARGET</span><span class="o">=</span><span class="s1">'ecgate'</span> |
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[b1674ed] | 283 | <span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">'makefile_ecgate'</span> |
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| 284 | <span class="nv">ECUID</span><span class="o">=</span><span class="s1">'<username>'</span> |
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| 285 | <span class="nv">ECGID</span><span class="o">=</span><span class="s1">'<groupID>'</span> |
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| 286 | <span class="nv">GATEWAY</span><span class="o">=</span><span class="s1">'<gatewayname>'</span> |
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| 287 | <span class="nv">DESTINATION</span><span class="o">=</span><span class="s1">'<username>@genericSftp'</span> |
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[30f7911] | 288 | <span class="nv">INSTALLDIR</span><span class="o">=</span>None |
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[6931f61] | 289 | <span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">'installscript.template'</span> |
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[30f7911] | 290 | <span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">'CONTROL_EA5'</span> |
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| 291 | ... |
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| 292 | </pre></div> |
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| 293 | </div> |
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| 294 | </td> |
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[b1674ed] | 295 | <td><div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>... |
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[30f7911] | 296 | <span class="c1"># -----------------------------------------</span> |
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| 297 | <span class="c1"># AVAILABLE COMMANDLINE ARGUMENTS TO SET</span> |
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| 298 | <span class="c1">#</span> |
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| 299 | <span class="c1"># THE USER HAS TO SPECIFY THESE PARAMETER</span> |
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| 300 | <span class="c1">#</span> |
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| 301 | <span class="nv">TARGET</span><span class="o">=</span><span class="s1">'cca'</span> |
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[b1674ed] | 302 | <span class="nv">MAKEFILE</span><span class="o">=</span><span class="s1">'makefile_cray'</span> |
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| 303 | <span class="nv">ECUID</span><span class="o">=</span><span class="s1">'<username>'</span> |
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| 304 | <span class="nv">ECGID</span><span class="o">=</span><span class="s1">'<groupID>'</span> |
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| 305 | <span class="nv">GATEWAY</span><span class="o">=</span><span class="s1">'<gatewayname>'</span> |
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| 306 | <span class="nv">DESTINATION</span><span class="o">=</span><span class="s1">'<username>@genericSftp'</span> |
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[30f7911] | 307 | <span class="nv">INSTALLDIR</span><span class="o">=</span><span class="s1">''</span> |
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[6931f61] | 308 | <span class="nv">JOB_TEMPLATE</span><span class="o">=</span><span class="s1">'installscript.template'</span> |
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[30f7911] | 309 | <span class="nv">CONTROLFILE</span><span class="o">=</span><span class="s1">'CONTROL_EA5'</span> |
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| 310 | ... |
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| 311 | </pre></div> |
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| 312 | </div> |
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| 313 | </td> |
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| 314 | </tr> |
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| 315 | </tbody> |
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| 316 | </table> |
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| 317 | <p><span class="underline">Please substitute the values of ECUID and ECGID |
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[d720895] | 318 | with your own ones (look at any of your files with ``ls -l’’ to see uid and gid).</span></p> |
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[30f7911] | 319 | <div class="admonition note"> |
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[b1674ed] | 320 | <p class="admonition-title">Note</p> |
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| 321 | <p>If a local gateway server is available, files can be transferred with <code class="docutils literal notranslate"><span class="pre">ECaccess</span></code> commands. In that case, a valid <em>GATEWAY</em> and <em>DESTINATION</em> have to be present in the <code class="docutils literal notranslate"><span class="pre">setup.sh</span></code> file (even if not used, the lines must not be deleted).</p> |
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[30f7911] | 322 | </div> |
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| 323 | <p>Afterwards, type:</p> |
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[6931f61] | 324 | <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>./setup.sh |
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[30f7911] | 325 | </pre></div> |
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| 326 | </div> |
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[d720895] | 327 | <p>to start the installation. You should see the following on standard output.</p> |
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[30f7911] | 328 | <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Output of setup.sh</span> |
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| 329 | Create tarball ... |
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| 330 | 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 |
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| 331 | You should get an email with subject <span class="s2">"flexcompile"</span> within the next few minutes! |
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| 332 | </pre></div> |
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| 333 | </div> |
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[b1674ed] | 334 | <p><code class="docutils literal notranslate"><span class="pre">Flex_extract</span></code> automatically uses the email address connected to the user account on ECMWF servers. The email content should look like this with a “SUCCESS” statement in the last line:</p> |
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[08c9091] | 335 | <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>gfortran -O3 -march<span class="o">=</span>native -L/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/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 -I. -I/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./rwgrib2.f90 |
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| 336 | gfortran -O3 -march<span class="o">=</span>native -L/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/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 -I. -I/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./phgrreal.f90 |
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| 337 | gfortran -O3 -march<span class="o">=</span>native -L/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/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 -I. -I/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./grphreal.f90 |
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| 338 | gfortran -O3 -march<span class="o">=</span>native -L/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/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 -I. -I/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./ftrafo.f90 |
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| 339 | gfortran -O3 -march<span class="o">=</span>native -L/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/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 -I. -I/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./calc_etadot.f90 |
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| 340 | gfortran -O3 -march<span class="o">=</span>native -L/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/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 -I. -I/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/include -fdefault-real-8 -fopenmp -fconvert<span class="o">=</span>big-endian -c ./posnam.f90 |
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[b1674ed] | 341 | gfortran rwgrib2.o calc_etadot.o ftrafo.o grphreal.o posnam.o phgrreal.o -o calc_etadot_fast.out -O3 -march<span class="o">=</span>native -L/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/lib -Wl,-rpath,/usr/local/apps/eccodes/2.13.0/GNU/7.3.0/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 -fopenmp |
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| 342 | ln -sf calc_etadot_fast.out calc_etadot |
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| 343 | lrwxrwxrwx. <span class="m">1</span> <username> at <span class="m">20</span> Mar <span class="m">8</span> <span class="m">14</span>:11 calc_etadot -> calc_etadot_fast.out |
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[30f7911] | 344 | SUCCESS! |
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| 345 | </pre></div> |
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