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authorRanke Johannes <johannes.ranke@agroscope.admin.ch>2024-01-31 13:16:17 +0100
committerRanke Johannes <johannes.ranke@agroscope.admin.ch>2024-01-31 13:27:50 +0100
commitaed160d7f0eaf5865e2bd9bf6c4b1c9d7b13d911 (patch)
tree7ca136834857c12449f50a1e086a589cc9b79e2e /docs/reference/PEC_sw_sed.html
parent64f629efbe666bae56f48a309adf33d1eb09c358 (diff)
Reorganise data generation
- Use inst/data_generation for R code generating data as in some of my other packages - data/*.RData files were checked using https://github.com/jranke/dotfiles/blob/main/bin/rda_diff contents were not changed - Remove ChangeLog, the history is in the git logs - Update docs and some links contained therein - use \doi{} markup - Move logs to log directory
Diffstat (limited to 'docs/reference/PEC_sw_sed.html')
-rw-r--r--docs/reference/PEC_sw_sed.html224
1 files changed, 79 insertions, 145 deletions
diff --git a/docs/reference/PEC_sw_sed.html b/docs/reference/PEC_sw_sed.html
index 458eeb7..247c8d7 100644
--- a/docs/reference/PEC_sw_sed.html
+++ b/docs/reference/PEC_sw_sed.html
@@ -1,67 +1,15 @@
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+water concentrations — PEC_sw_sed"><meta property="og:description" content="The method 'percentage' is equivalent to what is used in the CRD spreadsheet
+PEC calculator"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
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<button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false">
@@ -72,35 +20,21 @@ PEC calculator" />
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- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">0.5.7</span>
+ <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">0.6.1</span>
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+ </header><div class="row">
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<div class="page-header">
<h1>Calculate predicted environmental concentrations in sediment from surface
@@ -114,89 +48,89 @@ water concentrations</h1>
PEC calculator</p>
</div>
- <pre class="usage"><span class='fu'>PEC_sw_sed</span>(
- <span class='no'>PEC_sw</span>,
- <span class='kw'>percentage</span> <span class='kw'>=</span> <span class='fl'>100</span>,
- <span class='kw'>method</span> <span class='kw'>=</span> <span class='st'>"percentage"</span>,
- <span class='kw'>sediment_depth</span> <span class='kw'>=</span> <span class='fl'>5</span>,
- <span class='kw'>water_depth</span> <span class='kw'>=</span> <span class='fl'>30</span>,
- <span class='kw'>sediment_density</span> <span class='kw'>=</span> <span class='fl'>1.3</span>,
- <span class='kw'>PEC_sed_units</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"µg/kg"</span>, <span class='st'>"mg/kg"</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>PEC_sw</th>
- <td><p>Numeric vector or matrix of surface water concentrations in µg/L for
-which the corresponding sediment concentration is to be estimated</p></td>
- </tr>
- <tr>
- <th>percentage</th>
- <td><p>The percentage in sediment, used for the percentage method</p></td>
- </tr>
- <tr>
- <th>method</th>
- <td><p>The method used for the calculation</p></td>
- </tr>
- <tr>
- <th>sediment_depth</th>
- <td><p>Depth of the sediment layer</p></td>
- </tr>
- <tr>
- <th>water_depth</th>
- <td><p>Depth of the water body in cm</p></td>
- </tr>
- <tr>
- <th>sediment_density</th>
- <td><p>The density of the sediment in L/kg (equivalent to
-g/cm3)</p></td>
- </tr>
- <tr>
- <th>PEC_sed_units</th>
- <td><p>The units of the estimated sediment PEC value</p></td>
- </tr>
- </table>
-
- <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>
-
- <p>The predicted concentration in sediment</p>
-
- <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
- <pre class="examples"><div class='input'><span class='fu'>PEC_sw_sed</span>(<span class='fu'><a href='PEC_sw_drift.html'>PEC_sw_drift</a></span>(<span class='fl'>100</span>, <span class='kw'>distances</span> <span class='kw'>=</span> <span class='fl'>1</span>), <span class='kw'>percentage</span> <span class='kw'>=</span> <span class='fl'>50</span>)</div><div class='output co'>#&gt; 1 m
-#&gt; 2.130769 </div></pre>
- </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="#value">Value</a></li>
- <li><a href="#examples">Examples</a></li>
- </ul>
+ <div id="ref-usage">
+ <div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">PEC_sw_sed</span><span class="op">(</span></span>
+<span> <span class="va">PEC_sw</span>,</span>
+<span> percentage <span class="op">=</span> <span class="fl">100</span>,</span>
+<span> method <span class="op">=</span> <span class="st">"percentage"</span>,</span>
+<span> sediment_depth <span class="op">=</span> <span class="fl">5</span>,</span>
+<span> water_depth <span class="op">=</span> <span class="fl">30</span>,</span>
+<span> sediment_density <span class="op">=</span> <span class="fl">1.3</span>,</span>
+<span> PEC_sed_units <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><span class="st">"µg/kg"</span>, <span class="st">"mg/kg"</span><span class="op">)</span></span>
+<span><span class="op">)</span></span></code></pre></div>
+ </div>
+
+ <div id="arguments">
+ <h2>Arguments</h2>
+ <dl><dt>PEC_sw</dt>
+<dd><p>Numeric vector or matrix of surface water concentrations in µg/L for
+which the corresponding sediment concentration is to be estimated</p></dd>
+
+
+<dt>percentage</dt>
+<dd><p>The percentage in sediment, used for the percentage method</p></dd>
+
+
+<dt>method</dt>
+<dd><p>The method used for the calculation</p></dd>
+
+
+<dt>sediment_depth</dt>
+<dd><p>Depth of the sediment layer</p></dd>
+
+
+<dt>water_depth</dt>
+<dd><p>Depth of the water body in cm</p></dd>
+
+<dt>sediment_density</dt>
+<dd><p>The density of the sediment in L/kg (equivalent to
+g/cm3)</p></dd>
+
+
+<dt>PEC_sed_units</dt>
+<dd><p>The units of the estimated sediment PEC value</p></dd>
+
+</dl></div>
+ <div id="value">
+ <h2>Value</h2>
+
+
+<p>The predicted concentration in sediment</p>
+ </div>
+ <div id="author">
<h2>Author</h2>
<p>Johannes Ranke</p>
+ </div>
+
+ <div id="ref-examples">
+ <h2>Examples</h2>
+ <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="fu">PEC_sw_sed</span><span class="op">(</span><span class="fu"><a href="PEC_sw_drift.html">PEC_sw_drift</a></span><span class="op">(</span><span class="fl">100</span>, distances <span class="op">=</span> <span class="fl">1</span><span class="op">)</span>, percentage <span class="op">=</span> <span class="fl">50</span><span class="op">)</span></span></span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> 1 m </span>
+<span class="r-out co"><span class="r-pr">#&gt;</span> 2.130769 </span>
+</code></pre></div>
+ </div>
</div>
+ <div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar">
+ <nav id="toc" data-toggle="toc" class="sticky-top"><h2 data-toc-skip>Contents</h2>
+ </nav></div>
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