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1 <?xml version="."?>
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2 <tool id="bmsb_model" name="Brown Marmorated Stink Bug" version="1.0.0">
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3 <description></description>
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4 <requirements>
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5 <requirement type="package" version="1.3.0">r-optparse</requirement>
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6 </requirements>
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7 <command>
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8 <![CDATA[
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9 Rscript $__tool_directory__/bmsb.R
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10 -a $adult_mort
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11 -b $adult_accum
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12 -c $egg_mort
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13 -d $latitude
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14 -e $location
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15 -f $max_clutch_size
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16 -i $min_clutch_size
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17 -j $nymph_mort
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18 -k $old_nymph_accum
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19 -o $output
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20 -p $oviposition
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21 -q $photoperiod
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22 -s $replications
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23 -t $se_plot
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24 -u $year
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25 -v "$temperature_dataset"
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26 -y $young_nymph_accum
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27 ]]>
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28 </command>
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29 <inputs>
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30 <param name="location" type="select" label="Select a location">
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31 <option value="asheville" selected="True">Asheville</option>
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32 <option value="wenatchee">Wenatchee</option>
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33 </param>
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34 <param name="latitude" type="float" value="35.60" label="Latitude of selected location" />
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35 <param name="temperature_dataset" type="data" format="csv" label="Select dataset containing temperatures" />
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38
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36 <param name="year" type="select" label="Select the year for the temperature data">
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37 <option value="1995">1995</option>
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38 <option value="1996">1996</option>
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39 <option value="1997">1997</option>
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40 <option value="1998">1998</option>
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41 <option value="1999">1999</option>
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42 <option value="2000">2000</option>
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43 <option value="2001">2001</option>
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44 <option value="2002">2002</option>
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45 <option value="2003">2003</option>
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46 <option value="2004">2004</option>
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47 <option value="2005">2005</option>
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48 <option value="2006">2006</option>
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49 <option value="2007">2007</option>
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50 <option value="2008">2008</option>
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51 <option value="2009">2009</option>
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52 <option value="2010">2010</option>
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53 <option value="2011">2011</option>
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54 <option value="2012">2012</option>
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55 <option value="2013">2013</option>
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56 <option value="2014">2014</option>
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57 <option value="2015">2015</option>
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58 <option value="2016">2016</option>
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59 <option value="2017">2017</option>
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60 <option value="2018">2018</option>
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61 <option value="2019">2019</option>
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62 <option value="2020">2020</option>
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63 <option value="2021">2021</option>
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64 <option value="2022">2022</option>
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65 <option value="2023">2023</option>
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66 <option value="2024">2024</option>
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67 <option value="2025">2025</option>
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68 </param>
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69 <param name="replications" type="integer" value="10" min="1" label="Number of replications" />
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70 <param name="photoperiod" type="float" value="13.5" label="Critical photoperiod for diapause induction/termination" />
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71 <param name="egg_mort" type="integer" value="1" label="Adjustment rate for egg mortality" />
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72 <param name="nymph_mort" type="integer" value="1" label="Adjustment rate for nymph mortality" />
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73 <param name="adult_mort" type="integer" value="1" label="Adjustment rate for adult mortality" />
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74 <param name="oviposition" type="integer" value="1" label="Adjustment oviposition rate" />
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75 <param name="min_clutch_size" type="integer" value="0" label="Adjustment of minimum clutch size" />
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76 <param name="max_clutch_size" type="integer" value="0" label="Adjustment of maximum clutch size" />
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77 <param name="young_nymph_accum" type="integer" value="0" label="Adjustment of DD accumulation (egg->young nymph)" />
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78 <param name="old_nymph_accum" type="integer" value="0" label="Adjustment of DD accumulation (young nymph->old nymph)" />
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79 <param name="adult_accum" type="integer" value="0" label="Adjustment of DD accumulation (old nymph->adult)" />
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80 <param name="se_plot" type="select" label="Plot SE?">
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81 <option value="1" selected="True">Yes</option>
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82 <option value="0">No</option>
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31
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83 </param>
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84 </inputs>
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85 <outputs>
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86 <data name="output" format="pdf" label="${tool.name} ${location}:${year} on ${on_string}" />
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87 </outputs>
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88 <tests>
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89 <test>
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90 <param name="temperature_dataset" value="asheville2014.csv" ftype="csv" />
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91 <param name="location" value="asheville" />
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92 <param name="latitude" value="35.60" />
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93 <param name="year" value="2014" />
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94 <param name="replications" value="3" />
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95 <output name="output" file="output.pdf" ftype="pdf" compare="sim_size" />
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96 </test>
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97 </tests>
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98 <help>
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99 **What it does**
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100
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101 BMSB prototype tool.
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102 </help>
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103 <citations>
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104 <citation></citation>
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105 </citations>
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106 </tool>
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