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authorJohannes Ranke <jranke@uni-bremen.de>2022-03-02 18:03:54 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2022-03-02 18:03:54 +0100
commit2bb59c88d49b193f278916ad9cc4de83c0de9604 (patch)
treef286bba254d7c5f2d32eeb2b11f6148938b0e1e1 /docs/reference/CAKE_export.html
parent351248d07f810ccb6c497633a02cd48ee35526e6 (diff)
Make tests more platform independent, update docs
Diffstat (limited to 'docs/reference/CAKE_export.html')
-rw-r--r--docs/reference/CAKE_export.html251
1 files changed, 81 insertions, 170 deletions
diff --git a/docs/reference/CAKE_export.html b/docs/reference/CAKE_export.html
index 05cd04a7..d36f5ed9 100644
--- a/docs/reference/CAKE_export.html
+++ b/docs/reference/CAKE_export.html
@@ -1,68 +1,13 @@
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-<![endif]-->
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@@ -73,13 +18,12 @@ specified as well." />
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<a class="navbar-link" href="../index.html">mkin</a>
- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.0.3</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.1.0</span>
</span>
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- <ul class="nav navbar-nav">
- <li>
+ <ul class="nav navbar-nav"><li>
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@@ -88,8 +32,7 @@ specified as well." />
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@@ -99,6 +42,9 @@ specified as well." />
<a href="../articles/FOCUS_L.html">Example evaluation of FOCUS Laboratory Data L1 to L3</a>
</li>
<li>
+ <a href="../articles/web_only/dimethenamid_2018.html">Example evaluations of dimethenamid data from 2018 with nonlinear mixed-effects models</a>
+ </li>
+ <li>
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</li>
<li>
@@ -113,34 +59,27 @@ specified as well." />
<li>
<a href="../articles/web_only/benchmarks.html">Some benchmark timings</a>
</li>
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+ </header><div class="row">
<div class="col-md-9 contents">
<div class="page-header">
<h1>Export a list of datasets format to a CAKE study file</h1>
- <small class="dont-index">Source: <a href='https://github.com/jranke/mkin/blob/master/R/CAKE_export.R'><code>R/CAKE_export.R</code></a></small>
+ <small class="dont-index">Source: <a href="https://github.com/jranke/mkin/blob/HEAD/R/CAKE_export.R" class="external-link"><code>R/CAKE_export.R</code></a></small>
<div class="hidden name"><code>CAKE_export.Rd</code></div>
</div>
@@ -149,116 +88,88 @@ specified as well." />
specified as well.</p>
</div>
- <pre class="usage"><span class='fu'>CAKE_export</span><span class='op'>(</span>
- <span class='va'>ds</span>,
- map <span class='op'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span>parent <span class='op'>=</span> <span class='st'>"Parent"</span><span class='op'>)</span>,
- links <span class='op'>=</span> <span class='cn'>NA</span>,
- filename <span class='op'>=</span> <span class='st'>"CAKE_export.csf"</span>,
- path <span class='op'>=</span> <span class='st'>"."</span>,
- overwrite <span class='op'>=</span> <span class='cn'>FALSE</span>,
- study <span class='op'>=</span> <span class='st'>"Codlemone aerobic soil degradation"</span>,
- description <span class='op'>=</span> <span class='st'>""</span>,
- time_unit <span class='op'>=</span> <span class='st'>"days"</span>,
- res_unit <span class='op'>=</span> <span class='st'>"% AR"</span>,
- comment <span class='op'>=</span> <span class='st'>"Created using mkin::CAKE_export"</span>,
- date <span class='op'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/Sys.time.html'>Sys.Date</a></span><span class='op'>(</span><span class='op'>)</span>,
- optimiser <span class='op'>=</span> <span class='st'>"IRLS"</span>
-<span class='op'>)</span></pre>
+ <div id="ref-usage">
+ <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">CAKE_export</span><span class="op">(</span>
+ <span class="va">ds</span>,
+ map <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span>parent <span class="op">=</span> <span class="st">"Parent"</span><span class="op">)</span>,
+ links <span class="op">=</span> <span class="cn">NA</span>,
+ filename <span class="op">=</span> <span class="st">"CAKE_export.csf"</span>,
+ path <span class="op">=</span> <span class="st">"."</span>,
+ overwrite <span class="op">=</span> <span class="cn">FALSE</span>,
+ study <span class="op">=</span> <span class="st">"Codlemone aerobic soil degradation"</span>,
+ description <span class="op">=</span> <span class="st">""</span>,
+ time_unit <span class="op">=</span> <span class="st">"days"</span>,
+ res_unit <span class="op">=</span> <span class="st">"% AR"</span>,
+ comment <span class="op">=</span> <span class="st">"Created using mkin::CAKE_export"</span>,
+ date <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/Sys.time.html" class="external-link">Sys.Date</a></span><span class="op">(</span><span class="op">)</span>,
+ optimiser <span class="op">=</span> <span class="st">"IRLS"</span>
+<span class="op">)</span></code></pre></div>
+ </div>
- <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
+ <div id="arguments">
+ <h2>Arguments</h2>
+ <dl><dt>ds</dt>
+<dd><p>A named list of datasets in long format as compatible with
+<code><a href="mkinfit.html">mkinfit</a></code>.</p></dd>
+<dt>map</dt>
+<dd><p>A character vector with CAKE compartment names (Parent, A1, ...),
+named with the names used in the list of datasets.</p></dd>
+<dt>links</dt>
+<dd><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>
-
+names are used as in the datasets supplied.</p></dd>
+<dt>filename</dt>
+<dd><p>Where to write the result. Should end in .csf in order to be
+compatible with CAKE.</p></dd>
+<dt>path</dt>
+<dd><p>An optional path to the output file.</p></dd>
+<dt>overwrite</dt>
+<dd><p>If TRUE, existing files are overwritten.</p></dd>
+<dt>study</dt>
+<dd><p>The name of the study.</p></dd>
+<dt>description</dt>
+<dd><p>An optional description.</p></dd>
+<dt>time_unit</dt>
+<dd><p>The time unit for the residue data.</p></dd>
+<dt>res_unit</dt>
+<dd><p>The unit used for the residues.</p></dd>
+<dt>comment</dt>
+<dd><p>An optional comment.</p></dd>
+<dt>date</dt>
+<dd><p>The date of file creation.</p></dd>
+<dt>optimiser</dt>
+<dd><p>Can be OLS or IRLS.</p></dd>
+</dl></div>
+ <div id="value">
+ <h2>Value</h2>
<p>The function is called for its side effect.</p>
- <h2 class="hasAnchor" id="author"><a class="anchor" href="#author"></a>Author</h2>
-
+ </div>
+ <div id="author">
+ <h2>Author</h2>
<p>Johannes Ranke</p>
+ </div>
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