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authorJohannes Ranke <jranke@uni-bremen.de>2020-05-27 06:06:08 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2020-05-27 06:06:08 +0200
commita77a10ea6c607346778ba0700b3b66ac393101a2 (patch)
treee91f627fba0580ef237ecbc8f24d6294a59597d3 /docs/dev/reference/CAKE_export.html
parent675a733fa2acc08daabb9b8b571c7d658f281f73 (diff)
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+<meta property="og:description" content="In addition to the datasets, the pathways in the degradation model can be
+specified as well." />
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+ <div class="page-header">
+ <h1>Export a list of datasets format to a CAKE study file</h1>
+ <small class="dont-index">Source: <a href='http://github.com/jranke/mkin/blob/master/R/CAKE_export.R'><code>R/CAKE_export.R</code></a></small>
+ <div class="hidden name"><code>CAKE_export.Rd</code></div>
+ </div>
+
+ <div class="ref-description">
+ <p>In addition to the datasets, the pathways in the degradation model can be
+specified as well.</p>
+ </div>
+
+ <pre class="usage"><span class='fu'>CAKE_export</span>(
+ <span class='no'>ds</span>,
+ <span class='kw'>map</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='st'>"Parent"</span>),
+ <span class='kw'>links</span> <span class='kw'>=</span> <span class='fl'>NA</span>,
+ <span class='kw'>filename</span> <span class='kw'>=</span> <span class='st'>"CAKE_export.csf"</span>,
+ <span class='kw'>path</span> <span class='kw'>=</span> <span class='st'>"."</span>,
+ <span class='kw'>overwrite</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>,
+ <span class='kw'>study</span> <span class='kw'>=</span> <span class='st'>"Codlemone aerobic soil degradation"</span>,
+ <span class='kw'>description</span> <span class='kw'>=</span> <span class='st'>""</span>,
+ <span class='kw'>time_unit</span> <span class='kw'>=</span> <span class='st'>"days"</span>,
+ <span class='kw'>res_unit</span> <span class='kw'>=</span> <span class='st'>"% AR"</span>,
+ <span class='kw'>comment</span> <span class='kw'>=</span> <span class='st'>"Created using mkin::CAKE_export"</span>,
+ <span class='kw'>date</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/Sys.time.html'>Sys.Date</a></span>(),
+ <span class='kw'>optimiser</span> <span class='kw'>=</span> <span class='st'>"IRLS"</span>
+)</pre>
+
+ <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2>
+ <table class="ref-arguments">
+ <colgroup><col class="name" /><col class="desc" /></colgroup>
+ <tr>
+ <th>ds</th>
+ <td><p>A named list of datasets in long format as compatible with
+<code><a href='mkinfit.html'>mkinfit</a></code>.</p></td>
+ </tr>
+ <tr>
+ <th>map</th>
+ <td><p>A character vector with CAKE compartment names (Parent, A1, ...),
+named with the names used in the list of datasets.</p></td>
+ </tr>
+ <tr>
+ <th>links</th>
+ <td><p>An optional character vector of target compartments, named with
+the names of the source compartments. In order to make this easier, the
+names are used as in the datasets supplied.</p></td>
+ </tr>
+ <tr>
+ <th>filename</th>
+ <td><p>Where to write the result. Should end in .csf in order to be
+compatible with CAKE.</p></td>
+ </tr>
+ <tr>
+ <th>path</th>
+ <td><p>An optional path to the output file.</p></td>
+ </tr>
+ <tr>
+ <th>overwrite</th>
+ <td><p>If TRUE, existing files are overwritten.</p></td>
+ </tr>
+ <tr>
+ <th>study</th>
+ <td><p>The name of the study.</p></td>
+ </tr>
+ <tr>
+ <th>description</th>
+ <td><p>An optional description.</p></td>
+ </tr>
+ <tr>
+ <th>time_unit</th>
+ <td><p>The time unit for the residue data.</p></td>
+ </tr>
+ <tr>
+ <th>res_unit</th>
+ <td><p>The unit used for the residues.</p></td>
+ </tr>
+ <tr>
+ <th>comment</th>
+ <td><p>An optional comment.</p></td>
+ </tr>
+ <tr>
+ <th>date</th>
+ <td><p>The date of file creation.</p></td>
+ </tr>
+ <tr>
+ <th>optimiser</th>
+ <td><p>Can be OLS or IRLS.</p></td>
+ </tr>
+ </table>
+
+ <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>
+
+ <p>The function is called for its side effect.</p>
+
+ </div>
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