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authorJohannes Ranke <jranke@uni-bremen.de>2023-11-12 21:40:01 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2023-11-12 21:40:01 +0100
commitd66bd4aa0bf9c4d9b8793a4e308c9e80691b440f (patch)
tree6bd9d55442019ef452dd21e7714889998668f6d5 /docs/reference/plot.TOXSWA_cwa.html
parent97d0465a296ef1f5ae4502f9374ae339c0a8148e (diff)
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--- a/docs/reference/plot.TOXSWA_cwa.html
+++ b/docs/reference/plot.TOXSWA_cwa.html
@@ -1,216 +1,157 @@
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+segment of a TOXSWA surface water body."><!-- 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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+</nav><div class="container template-reference-topic">
+<div class="row">
+ <main id="main" class="col-md-9"><div class="page-header">
+ <img src="" class="logo" alt=""><h1>Plot TOXSWA surface water concentrations</h1>
+ <small class="dont-index">Source: <a href="https://github.com/jranke/pfm/blob/HEAD/R/TOXSWA_cwa.R" class="external-link"><code>R/TOXSWA_cwa.R</code></a></small>
+ <div class="d-none name"><code>plot.TOXSWA_cwa.Rd</code></div>
+ </div>
-<!-- clipboard.js -->
-<script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.4/clipboard.min.js" integrity="sha256-FiZwavyI2V6+EXO1U+xzLG3IKldpiTFf3153ea9zikQ=" crossorigin="anonymous"></script>
+ <div class="ref-description section level2">
+ <p>Plot TOXSWA hourly concentrations of a chemical substance in a specific
+segment of a TOXSWA surface water body.</p>
+ </div>
-<!-- headroom.js -->
-<script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.9.4/headroom.min.js" integrity="sha256-DJFC1kqIhelURkuza0AvYal5RxMtpzLjFhsnVIeuk+U=" crossorigin="anonymous"></script>
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+ <div class="section level2">
+ <h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
+ <div class="sourceCode"><pre class="sourceCode r"><code><span><span class="co"># S3 method for TOXSWA_cwa</span></span>
+<span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span></span>
+<span> <span class="va">x</span>,</span>
+<span> time_column <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">"datetime"</span>, <span class="st">"t"</span>, <span class="st">"t_firstjan"</span>, <span class="st">"t_rel_to_max"</span><span class="op">)</span>,</span>
+<span> xlab <span class="op">=</span> <span class="st">"default"</span>,</span>
+<span> ylab <span class="op">=</span> <span class="st">"default"</span>,</span>
+<span> add <span class="op">=</span> <span class="cn">FALSE</span>,</span>
+<span> threshold_factor <span class="op">=</span> <span class="fl">1000</span>,</span>
+<span> thin_low <span class="op">=</span> <span class="fl">1</span>,</span>
+<span> total <span class="op">=</span> <span class="cn">FALSE</span>,</span>
+<span> LC_TIME <span class="op">=</span> <span class="st">"C"</span>,</span>
+<span> <span class="va">...</span></span>
+<span><span class="op">)</span></span></code></pre></div>
+ </div>
-<!-- pkgdown -->
-<link href="../pkgdown.css" rel="stylesheet">
-<script src="../pkgdown.js"></script>
+ <div class="section level2">
+ <h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
+ <dl><dt>x</dt>
+<dd><p>The TOXSWA_cwa object to be plotted.</p></dd>
+<dt>time_column</dt>
+<dd><p>What should be used for the time axis. If "t_firstjan" is chosen,
+the time is given in days relative to the first of January in the first year.</p></dd>
-<meta property="og:title" content="Plot TOXSWA surface water concentrations — plot.TOXSWA_cwa" />
-<meta property="og:description" content="Plot TOXSWA hourly concentrations of a chemical substance in a specific
-segment of a TOXSWA surface water body." />
-<meta name="twitter:card" content="summary" />
+<dt>xlab, ylab</dt>
+<dd><p>Labels for x and y axis.</p></dd>
+<dt>add</dt>
+<dd><p>Should we add to an existing plot?</p></dd>
-<!-- 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>
+<dt>threshold_factor</dt>
+<dd><p>The factor by which the data have to be lower than the maximum
+in order to get thinned for plotting (see next argument).</p></dd>
-<!--[if lt IE 9]>
-<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
-<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
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- <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">0.5.7</span>
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-</li>
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- <ul class="nav navbar-nav navbar-right">
-
- </ul>
-
- </div><!--/.nav-collapse -->
- </div><!--/.container -->
-</div><!--/.navbar -->
+<dt>thin_low</dt>
+<dd><p>If an integer greater than 1, the data close to zero (smaller than
+1/threshold_factor of the maximum) in the series will be thinned by this factor
+in order to decrease the amount of data that is included in the plots</p></dd>
-
- </header>
+<dt>total</dt>
+<dd><p>Should the total concentration in water be plotted, including substance sorbed
+to suspended matter?</p></dd>
-<div class="row">
- <div class="col-md-9 contents">
- <div class="page-header">
- <h1>Plot TOXSWA surface water concentrations</h1>
-
- <div class="hidden name"><code>plot.TOXSWA_cwa.Rd</code></div>
- </div>
- <div class="ref-description">
- <p>Plot TOXSWA hourly concentrations of a chemical substance in a specific
-segment of a TOXSWA surface water body.</p>
- </div>
+<dt>LC_TIME</dt>
+<dd><p>Specification of the locale used to format dates</p></dd>
- <pre class="usage"><span class='co'># S3 method for TOXSWA_cwa</span>
-<span class='fu'><a href='https://rdrr.io/r/graphics/plot.html'>plot</a></span>(
- <span class='no'>x</span>,
- <span class='kw'>time_column</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"datetime"</span>, <span class='st'>"t"</span>, <span class='st'>"t_firstjan"</span>, <span class='st'>"t_rel_to_max"</span>),
- <span class='kw'>xlab</span> <span class='kw'>=</span> <span class='st'>"default"</span>,
- <span class='kw'>ylab</span> <span class='kw'>=</span> <span class='st'>"default"</span>,
- <span class='kw'>add</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>,
- <span class='kw'>threshold_factor</span> <span class='kw'>=</span> <span class='fl'>1000</span>,
- <span class='kw'>thin_low</span> <span class='kw'>=</span> <span class='fl'>1</span>,
- <span class='kw'>total</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>,
- <span class='kw'>LC_TIME</span> <span class='kw'>=</span> <span class='st'>"C"</span>,
- <span class='no'>...</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>x</th>
- <td><p>The TOXSWA_cwa object to be plotted.</p></td>
- </tr>
- <tr>
- <th>time_column</th>
- <td><p>What should be used for the time axis. If "t_firstjan" is chosen,
-the time is given in days relative to the first of January in the first year.</p></td>
- </tr>
- <tr>
- <th>xlab, ylab</th>
- <td><p>Labels for x and y axis.</p></td>
- </tr>
- <tr>
- <th>add</th>
- <td><p>Should we add to an existing plot?</p></td>
- </tr>
- <tr>
- <th>threshold_factor</th>
- <td><p>The factor by which the data have to be lower than the maximum
-in order to get thinned for plotting (see next argument).</p></td>
- </tr>
- <tr>
- <th>thin_low</th>
- <td><p>If an integer greater than 1, the data close to zero (smaller than
-1/threshold_factor of the maximum) in the series will be thinned by this factor
-in order to decrease the amount of data that is included in the plots</p></td>
- </tr>
- <tr>
- <th>total</th>
- <td><p>Should the total concentration in water be plotted, including substance sorbed
-to suspended matter?</p></td>
- </tr>
- <tr>
- <th>LC_TIME</th>
- <td><p>Specification of the locale used to format dates</p></td>
- </tr>
- <tr>
- <th>...</th>
- <td><p>Further arguments passed to <code>plot</code> if we are not adding to an existing plot</p></td>
- </tr>
- </table>
-
-
- <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
- <pre class="examples"><div class='input'><span class='no'>H_sw_D4_pond</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='read.TOXSWA_cwa.html'>read.TOXSWA_cwa</a></span>(<span class='st'>"00001p_pa.cwa"</span>,
- <span class='kw'>basedir</span> <span class='kw'>=</span> <span class='st'>"SwashProjects/project_H_sw/TOXSWA"</span>,
- <span class='kw'>zipfile</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/system.file.html'>system.file</a></span>(<span class='st'>"testdata/SwashProjects.zip"</span>, <span class='kw'>package</span> <span class='kw'>=</span> <span class='st'>"pfm"</span>))
-<span class='fu'><a href='https://rdrr.io/r/graphics/plot.html'>plot</a></span>(<span class='no'>H_sw_D4_pond</span>)</div><div class='img'><img src='plot.TOXSWA_cwa-1.png' alt='' width='700' height='433' /></div><div class='input'><span class='fu'><a href='https://rdrr.io/r/graphics/plot.html'>plot</a></span>(<span class='no'>H_sw_D4_pond</span>, <span class='kw'>time_column</span> <span class='kw'>=</span> <span class='st'>"t"</span>)</div><div class='img'><img src='plot.TOXSWA_cwa-2.png' alt='' width='700' height='433' /></div><div class='input'><span class='fu'><a href='https://rdrr.io/r/graphics/plot.html'>plot</a></span>(<span class='no'>H_sw_D4_pond</span>, <span class='kw'>time_column</span> <span class='kw'>=</span> <span class='st'>"t_firstjan"</span>)</div><div class='img'><img src='plot.TOXSWA_cwa-3.png' alt='' width='700' height='433' /></div><div class='input'><span class='fu'><a href='https://rdrr.io/r/graphics/plot.html'>plot</a></span>(<span class='no'>H_sw_D4_pond</span>, <span class='kw'>time_column</span> <span class='kw'>=</span> <span class='st'>"t_rel_to_max"</span>)</div><div class='img'><img src='plot.TOXSWA_cwa-4.png' alt='' width='700' height='433' /></div><div class='input'>
-<span class='no'>H_sw_R1_stream</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='read.TOXSWA_cwa.html'>read.TOXSWA_cwa</a></span>(<span class='st'>"00003s_pa.cwa"</span>,
- <span class='kw'>basedir</span> <span class='kw'>=</span> <span class='st'>"SwashProjects/project_H_sw/TOXSWA"</span>,
- <span class='kw'>zipfile</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/system.file.html'>system.file</a></span>(<span class='st'>"testdata/SwashProjects.zip"</span>, <span class='kw'>package</span> <span class='kw'>=</span> <span class='st'>"pfm"</span>))
-<span class='fu'><a href='https://rdrr.io/r/graphics/plot.html'>plot</a></span>(<span class='no'>H_sw_R1_stream</span>, <span class='kw'>time_column</span> <span class='kw'>=</span> <span class='st'>"t_rel_to_max"</span>)</div><div class='img'><img src='plot.TOXSWA_cwa-5.png' alt='' width='700' height='433' /></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="#examples">Examples</a></li>
- </ul>
-
- <h2>Author</h2>
+
+<dt>...</dt>
+<dd><p>Further arguments passed to <code>plot</code> if we are not adding to an existing plot</p></dd>
+
+</dl></div>
+ <div class="section level2">
+ <h2 id="author">Author<a class="anchor" aria-label="anchor" href="#author"></a></h2>
<p>Johannes Ranke</p>
- </div>
-</div>
+ </div>
+
+ <div class="section level2">
+ <h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
+ <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="va">H_sw_D4_pond</span> <span class="op">&lt;-</span> <span class="fu"><a href="read.TOXSWA_cwa.html">read.TOXSWA_cwa</a></span><span class="op">(</span><span class="st">"00001p_pa.cwa"</span>,</span></span>
+<span class="r-in"><span> basedir <span class="op">=</span> <span class="st">"SwashProjects/project_H_sw/TOXSWA"</span>,</span></span>
+<span class="r-in"><span> zipfile <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/system.file.html" class="external-link">system.file</a></span><span class="op">(</span><span class="st">"testdata/SwashProjects.zip"</span>, package <span class="op">=</span> <span class="st">"pfm"</span><span class="op">)</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">H_sw_D4_pond</span><span class="op">)</span></span></span>
+<span class="r-plt img"><img src="plot.TOXSWA_cwa-1.png" alt="" width="700" height="433"></span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">H_sw_D4_pond</span>, time_column <span class="op">=</span> <span class="st">"t"</span><span class="op">)</span></span></span>
+<span class="r-plt img"><img src="plot.TOXSWA_cwa-2.png" alt="" width="700" height="433"></span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">H_sw_D4_pond</span>, time_column <span class="op">=</span> <span class="st">"t_firstjan"</span><span class="op">)</span></span></span>
+<span class="r-plt img"><img src="plot.TOXSWA_cwa-3.png" alt="" width="700" height="433"></span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">H_sw_D4_pond</span>, time_column <span class="op">=</span> <span class="st">"t_rel_to_max"</span><span class="op">)</span></span></span>
+<span class="r-plt img"><img src="plot.TOXSWA_cwa-4.png" alt="" width="700" height="433"></span>
+<span class="r-in"><span></span></span>
+<span class="r-in"><span><span class="va">H_sw_R1_stream</span> <span class="op">&lt;-</span> <span class="fu"><a href="read.TOXSWA_cwa.html">read.TOXSWA_cwa</a></span><span class="op">(</span><span class="st">"00003s_pa.cwa"</span>,</span></span>
+<span class="r-in"><span> basedir <span class="op">=</span> <span class="st">"SwashProjects/project_H_sw/TOXSWA"</span>,</span></span>
+<span class="r-in"><span> zipfile <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/system.file.html" class="external-link">system.file</a></span><span class="op">(</span><span class="st">"testdata/SwashProjects.zip"</span>, package <span class="op">=</span> <span class="st">"pfm"</span><span class="op">)</span><span class="op">)</span></span></span>
+<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/graphics/plot.default.html" class="external-link">plot</a></span><span class="op">(</span><span class="va">H_sw_R1_stream</span>, time_column <span class="op">=</span> <span class="st">"t_rel_to_max"</span><span class="op">)</span></span></span>
+<span class="r-plt img"><img src="plot.TOXSWA_cwa-5.png" alt="" width="700" height="433"></span>
+</code></pre></div>
+ </div>
+ </main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
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