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authorRanke Johannes <johannes.ranke@agroscope.admin.ch>2024-01-31 14:09:50 +0100
committerRanke Johannes <johannes.ranke@agroscope.admin.ch>2024-01-31 14:09:50 +0100
commitf58caa911add00f02c8be879018f370299ff02bf (patch)
tree2d8375bf1fedbd4a85f146ad9b2f91fc9560b82e /docs/reference/PEC_soil.html
parent6a3c816f4a08e2e9b1ae4d1a64dcd4331af8a73a (diff)
Rebuild all online docs
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@@ -1,51 +1,9 @@
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-based on complete, instantaneous mixing. If an interval is given, an
-attempt is made at calculating a long term maximum concentration using
-the concepts layed out in the PPR panel opinion (EFSA PPR panel 2012
-and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017)."><!-- 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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- <h1>Calculate predicted environmental concentrations in soil</h1>
-=======
<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><meta name="description" content="This is a basic calculation of a contaminant concentration in bulk soil
based on complete, instantaneous mixing. If an interval is given, an
attempt is made at calculating a long term maximum concentration using
the concepts layed out in the PPR panel opinion (EFSA PPR panel 2012
-and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017)."><title>Calculate predicted environmental concentrations in soil — PEC_soil • pfm</title><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.2.2/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.2.2/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Calculate predicted environmental concentrations in soil — PEC_soil"><meta property="og:description" content="This is a basic calculation of a contaminant concentration in bulk soil
+and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017)."><title>Calculate predicted environmental concentrations in soil — PEC_soil • pfm</title><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.3.1/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.3.1/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Calculate predicted environmental concentrations in soil — PEC_soil"><meta property="og:description" content="This is a basic calculation of a contaminant concentration in bulk soil
based on complete, instantaneous mixing. If an interval is given, an
attempt is made at calculating a long term maximum concentration using
the concepts layed out in the PPR panel opinion (EFSA PPR panel 2012
@@ -60,7 +18,7 @@ and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017)."><!-- math
<a class="navbar-brand me-2" href="../index.html">pfm</a>
- <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">0.6.0</small>
+ <small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">0.6.1</small>
<button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
@@ -82,7 +40,6 @@ and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017)."><!-- math
</li>
</ul></div>
->>>>>>> refs/remotes/origin/main
</div>
</nav><div class="container template-reference-topic">
@@ -101,12 +58,8 @@ the concepts layed out in the PPR panel opinion (EFSA PPR panel 2012
and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017).</p>
</div>
-<<<<<<< HEAD
- <div id="ref-usage">
-=======
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
->>>>>>> refs/remotes/origin/main
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">PEC_soil</span><span class="op">(</span></span>
<span> <span class="va">rate</span>,</span>
<span> rate_units <span class="op">=</span> <span class="st">"g/ha"</span>,</span>
@@ -133,13 +86,8 @@ and in the EFSA guidance on PEC soil calculations (EFSA, 2015, 2017).</p>
<span><span class="op">)</span></span></code></pre></div>
</div>
-<<<<<<< HEAD
- <div id="arguments">
- <h2>Arguments</h2>
-=======
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
->>>>>>> refs/remotes/origin/main
<dl><dt>rate</dt>
<dd><p>Application rate in units specified below</p></dd>
@@ -255,24 +203,14 @@ soil concentrations? Based on equation (7) given in the PPR panel opinion
p. 13).</p></dd>
</dl></div>
-<<<<<<< HEAD
- <div id="value">
- <h2>Value</h2>
-=======
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
->>>>>>> refs/remotes/origin/main
<p>The predicted concentration in soil</p>
</div>
-<<<<<<< HEAD
- <div id="details">
- <h2>Details</h2>
-=======
<div class="section level2">
<h2 id="details">Details<a class="anchor" aria-label="anchor" href="#details"></a></h2>
->>>>>>> refs/remotes/origin/main
<p>This assumes that the complete load to soil during the time specified by
'interval' (typically 365 days) is dosed at once. As in the PPR panel
opinion cited below (EFSA PPR panel 2012), only temperature correction using the
@@ -280,13 +218,8 @@ Arrhenius equation is performed.</p>
<p>Total soil and porewater PEC values for the scenarios as defined in the EFSA
guidance (2017, p. 14/15) can easily be calculated.</p>
</div>
-<<<<<<< HEAD
- <div id="note">
- <h2>Note</h2>
-=======
<div class="section level2">
<h2 id="note">Note<a class="anchor" aria-label="anchor" href="#note"></a></h2>
->>>>>>> refs/remotes/origin/main
<p>While time weighted average (TWA) concentrations given in the examples
from the EFSA guidance from 2015 (p. 80) are be reproduced, this is not
true for the TWA concentrations given for the same example in the EFSA guidance
@@ -298,21 +231,12 @@ place. However, as the amount leaching below the evaluation depth
(often 5 cm) will partly be mixed back during tillage, the default in this function
is to use the tillage depth for the calculation of the leaching rate.</p>
<p>If temperature information is available in the selected scenarios, as
-<<<<<<< HEAD
- e.g. in the EFSA scenarios, the DT50 for groundwater modelling
- (destination 'PECgw') is taken from the chent object, otherwise the DT50
- with destination 'PECsoil'.</p>
- </div>
- <div id="references">
- <h2>References</h2>
-=======
e.g. in the EFSA scenarios, the DT50 for groundwater modelling
(destination 'PECgw') is taken from the chent object, otherwise the DT50
with destination 'PECsoil'.</p>
</div>
<div class="section level2">
<h2 id="references">References<a class="anchor" aria-label="anchor" href="#references"></a></h2>
->>>>>>> refs/remotes/origin/main
<p>EFSA Panel on Plant Protection Products and their Residues (2012)
Scientific Opinion on the science behind the guidance for scenario
selection and scenario parameterisation for predicting environmental
@@ -324,20 +248,6 @@ protection products and transformation products of these active substances
in soil. <em>EFSA Journal</em> <b>15</b>(10) 4982
doi:10.2903/j.efsa.2017.4982</p>
<p>EFSA (European Food Safety Authority) (2015) EFSA guidance document for
-<<<<<<< HEAD
- predicting environmental concentrations of active substances of plant
- protection products and transformation products of these active substances
- in soil. <em>EFSA Journal</em> <b>13</b>(4) 4093
- doi:10.2903/j.efsa.2015.4093</p>
- </div>
- <div id="author">
- <h2>Author</h2>
- <p>Johannes Ranke</p>
- </div>
-
- <div id="ref-examples">
- <h2>Examples</h2>
-=======
predicting environmental concentrations of active substances of plant
protection products and transformation products of these active substances
in soil. <em>EFSA Journal</em> <b>13</b>(4) 4093
@@ -350,7 +260,6 @@ doi:10.2903/j.efsa.2015.4093</p>
<div class="section level2">
<h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
->>>>>>> refs/remotes/origin/main
<div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="fu">PEC_soil</span><span class="op">(</span><span class="fl">100</span>, interception <span class="op">=</span> <span class="fl">0.25</span><span class="op">)</span></span></span>
<span class="r-out co"><span class="r-pr">#&gt;</span> scenario</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> t_avg default</span>
@@ -396,24 +305,6 @@ doi:10.2903/j.efsa.2015.4093</p>
<span class="r-in"><span> Kom <span class="op">=</span> <span class="fl">100</span>, scenarios <span class="op">=</span> <span class="st">"EFSA_2015"</span>, porewater <span class="op">=</span> <span class="cn">TRUE</span><span class="op">)</span></span></span>
</code></pre></div>
</div>
-<<<<<<< HEAD
- </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>
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- <p></p><p>Developed by Johannes Ranke.</p>
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- </footer></div>
-=======
</main><aside class="col-md-3"><nav id="toc"><h2>On this page</h2>
</nav></aside></div>
@@ -427,16 +318,10 @@ doi:10.2903/j.efsa.2015.4093</p>
</div>
</footer></div>
->>>>>>> refs/remotes/origin/main
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-=======
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