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authorJohannes Ranke <jranke@uni-bremen.de>2017-01-29 16:58:53 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2017-01-29 18:52:24 +0100
commita6c13f70f6c6669a8088827a602ac475fdf9b624 (patch)
treee3bcc3e9ff9e006f3e9d87a1df226752fa4753cc /docs/reference/PELMO_runs.html
parentc22143d8ec53026cb1e439bdbba1d725a11b4b0c (diff)
Setting up PELMO runs, execution and evaluation
It all works!
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+ <h1>Set up runs for FOCUS PELMO</h1>
+ </div>
+
+
+ <p>Per default, the runs are also executed with FOCUS PELMO, and the results are processed
+and returned. Currently, only FOCUS PELMO as installed on Linux (or other Unix systems)
+using the <code>install_PELMO</code> from the <code>PELMO.installeR</code> package
+maintained on github is supported. In such installations, FOCUS PELMO is installed into
+package installation directory of <code>PELMO.installeR</code> and run with <code>wine</code>.</p>
+
+
+ <pre><span class='fu'>PELMO_runs</span>(<span class='no'>runs</span>, <span class='kw'>psm_dir</span> <span class='kw'>=</span> <span class='st'>"."</span>, <span class='kw'>version</span> <span class='kw'>=</span> <span class='st'>"5.5.3"</span>, <span class='kw'>PELMO_base</span> <span class='kw'>=</span> <span class='st'>"auto"</span>,
+ <span class='kw'>execute</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fu'>getOption</span>(<span class='st'>"mc.cores"</span>, <span class='fl'>2L</span>), <span class='kw'>evaluate</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>,
+ <span class='kw'>overwrite</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>)
+
+<span class='fu'>run_PELMO</span>(<span class='no'>runs</span>, <span class='kw'>version</span> <span class='kw'>=</span> <span class='st'>"5.5.3"</span>, <span class='kw'>PELMO_base</span> <span class='kw'>=</span> <span class='st'>"auto"</span>,
+ <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fu'>getOption</span>(<span class='st'>"mc.cores"</span>, <span class='fl'>2L</span>))
+
+<span class='fu'>evaluate_PELMO</span>(<span class='no'>runs</span>, <span class='kw'>version</span> <span class='kw'>=</span> <span class='st'>"5.5.3"</span>, <span class='kw'>PELMO_base</span> <span class='kw'>=</span> <span class='st'>"auto"</span>)</pre>
+
+ <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a> Arguments</h2>
+ <dl class="dl-horizontal">
+ <dt>runs</dt>
+ <dd>A list of lists. Each inner lists has an element named &#39;psm&#39;
+that holds the psm string, and elements named using three letter crop acronyms,
+as used in <code><a href='FOCUS_PELMO_crops.html'>FOCUS_PELMO_crops</a></code>,
+that hold character vectors of three letter scenario acronyms
+as used in <code><a href='FOCUS_GW_scenarios_2012.html'>FOCUS_GW_scenarios_2012</a></code>.</dd>
+ <dt>psm_dir</dt>
+ <dd>The directory where the psm files are located</dd>
+ <dt>version</dt>
+ <dd>The FOCUS PELMO version</dd>
+ <dt>PELMO_base</dt>
+ <dd>Where the FOCUS PELMO installation is located</dd>
+ <dt>execute</dt>
+ <dd>Should PELMO be executed directly?</dd>
+ <dt>cores</dt>
+ <dd>The number of cores to execute PELMO runs in parallel</dd>
+ <dt>evaluate</dt>
+ <dd>Should the results be returned?</dd>
+ <dt>overwrite</dt>
+ <dd>Should an existing run directories be overwritten</dd>
+ </dl>
+
+ <h2 class="hasAnchor" id="references"><a class="anchor" href="#references"></a>References</h2>
+
+ <p>PELMO.installeR <a href = 'https://jranke.github.io/PELMO.installeR'>https://jranke.github.io/PELMO.installeR</a></p>
+ <p>Wine <a href = 'https://winehq.org'>https://winehq.org</a></p>
+
+
+ </div>
+ <div class="col-md-3 hidden-xs hidden-sm" id="sidebar">
+ <h2>Contents</h2>
+ <ul class="nav nav-pills nav-stacked">
+ <li><a href="#arguments">Arguments</a></li>
+
+ <li><a href="#references">References</a></li>
+ </ul>
+
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