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diff --git a/docs/reference/PELMO_runs.html b/docs/reference/PELMO_runs.html index 03b7b7b..e299b7c 100644 --- a/docs/reference/PELMO_runs.html +++ b/docs/reference/PELMO_runs.html @@ -112,20 +112,93 @@ as used in <code><a href='FOCUS_GW_scenarios_2012.html'>FOCUS_GW_scenarios_2012< <dd>Should an existing run directories be overwritten</dd> </dl> + <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2> + + <p>If evaluate is TRUE, a list of lists of matrices holding the + PEC data.</p> + + <h2 class="hasAnchor" id="details"><a class="anchor" href="#details"></a>Details</h2> + + <p>As a side effect, an R data file (period_pfm.rda) is generated in each +run directory, holding the results for all FOCUS periods, equivalent to +the period.plm file generated by the FOCUS PELMO GUI.</p> + <h2 class="hasAnchor" id="references"><a class="anchor" href="#references"></a>References</h2> <p>PELMO.installeR <a href = 'https://jranke.github.io/PELMO.installeR'>https://jranke.github.io/PELMO.installeR</a></p> <p>Wine <a href = 'https://winehq.org'>https://winehq.org</a></p> + <p>PELMO test results <a href = 'http://esdac.jrc.ec.europa.eu/public_path/projects_data/focus/gw/models/pelmo/test-results/test_results_FOCUS_PELMO_5_5_3.doc'>http://esdac.jrc.ec.europa.eu/public_path/projects_data/focus/gw/models/pelmo/test-results/test_results_FOCUS_PELMO_5_5_3.doc</a></p> + <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2> + <pre class="examples"><div class='input'><span class='co'># Reproduce the official test results for annual application of Pesticide D</span> +<span class='co'># to winter cereals at the day before emergence</span> +<span class='no'>runs_1</span> <span class='kw'><-</span> <span class='fu'>list</span>( + <span class='fu'>list</span>(<span class='kw'>psm</span> <span class='kw'>=</span> <span class='st'>'Pesticide_D'</span>, + <span class='kw'>win</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"Cha"</span>, <span class='st'>"Ham"</span>, <span class='st'>"Jok"</span>, <span class='st'>"Kre"</span>, <span class='st'>"Oke"</span>, <span class='st'>"Pia"</span>, <span class='st'>"Por"</span>, <span class='st'>"Sev"</span>, <span class='st'>"Thi"</span>)), + <span class='fu'>list</span>(<span class='kw'>psm</span> <span class='kw'>=</span> <span class='st'>'Pesticide_D_1_day_pre_em_every_third_year'</span>, + <span class='kw'>pot</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"Cha"</span>, <span class='st'>"Ham"</span>, <span class='st'>"Jok"</span>, <span class='st'>"Kre"</span>, <span class='st'>"Oke"</span>, <span class='st'>"Pia"</span>, <span class='st'>"Por"</span>, <span class='st'>"Sev"</span>, <span class='st'>"Thi"</span>))) +<span class='no'>time_1</span> <span class='kw'><-</span> <span class='fu'>system.time</span>( + <span class='no'>PECgw_1</span> <span class='kw'><-</span> <span class='fu'>PELMO_runs</span>(<span class='no'>runs_1</span>, <span class='kw'>psm_dir</span> <span class='kw'>=</span> <span class='fu'>system.file</span>(<span class='st'>"testdata"</span>, <span class='kw'>package</span> <span class='kw'>=</span> <span class='st'>"pfm"</span>), + <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fl'>6</span>, <span class='kw'>overwrite</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>) +) +<span class='fu'>print</span>(<span class='no'>PECgw_1</span>)</div><div class='output co'>#> $Pesticide_D +#> $Pesticide_D$win +#> FOCUS DUMMY D +#> Cha 0.025 +#> Ham 1.621 +#> Jok 0.388 +#> Kre 0.467 +#> Oke 1.608 +#> Pia 0.848 +#> Por 2.386 +#> Sev 0.009 +#> Thi 0.030 +#> +#> +#> $Pesticide_D_1_day_pre_em_every_third_year +#> $Pesticide_D_1_day_pre_em_every_third_year$pot +#> FOCUS DUMMY D +#> Cha 0.010 +#> Ham 0.014 +#> Jok 0.009 +#> Kre 0.027 +#> Oke 0.085 +#> Pia 0.051 +#> Por 0.021 +#> Sev 0.000 +#> Thi 0.001 +#> +#> </div><div class='input'><span class='co'># We get exactly the same PECgw values (on Linux, calling PELMO using Wine).</span> +<span class='fu'>print</span>(<span class='no'>time_1</span>)</div><div class='output co'>#> User System verstrichen +#> 231.892 0.496 57.056 </div><div class='input'> +<span class='co'># Demonstrate some results with metabolites.</span> +<span class='no'>runs_2</span> <span class='kw'><-</span> <span class='fu'>list</span>(<span class='fu'>list</span>(<span class='kw'>psm</span> <span class='kw'>=</span> <span class='st'>'Pesticide_D_1_May_every_other_year_mets'</span>, + <span class='kw'>win</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"Cha"</span>, <span class='st'>"Ham"</span>, <span class='st'>"Kre"</span>))) +<span class='no'>PECgw_2</span> <span class='kw'><-</span> <span class='fu'>PELMO_runs</span>(<span class='no'>runs_2</span>, <span class='kw'>psm_dir</span> <span class='kw'>=</span> <span class='fu'>system.file</span>(<span class='st'>"testdata"</span>, <span class='kw'>package</span> <span class='kw'>=</span> <span class='st'>"pfm"</span>), + <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fl'>3</span>, <span class='kw'>overwrite</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>) +<span class='fu'>print</span>(<span class='no'>PECgw_2</span>)</div><div class='output co'>#> $Pesticide_D_1_May_every_other_year_mets +#> $Pesticide_D_1_May_every_other_year_mets$win +#> FOCUS DUMMY D M1 M2 +#> Cha 0.001 126.195 0.000 +#> Ham 0.054 82.196 0.001 +#> Kre 0.103 75.494 0.001 +#> +#> </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="#details">Details</a></li> + <li><a href="#references">References</a></li> - </ul> + + <li><a href="#examples">Examples</a></li> + </ul> </div> </div> |