Mercurial > repos > greg > insect_phenology_model

comparison insect_phenology_model.xml @ 105:375a2b8e7207 draft

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author greg
date Tue, 05 Dec 2017 11:21:23 -0500
parents 08571981adb3
children 9d5824e4b5d0
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104:d6e37828b094 105:375a2b8e7207
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.4.4">r-optparse</requirement> 4 <requirement type="package" version="1.4.4">r-optparse</requirement>
5 </requirements> 5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
7 Rscript '$__tool_directory__/insect_phenology_model.R' 7 Rscript '$__tool_directory__/insect_phenology_model.R'
8 -a $adult_mort 8 -a $adult_mortality
9 -b $adult_accum 9 -b $adult_accumulation
10 -c $egg_mort 10 -c $egg_mortality
11 -e '$location' 11 -e '$location'
12 -f $max_clutch_size 12 -f $max_clutch_size
13 -i $min_clutch_size 13 -i $min_clutch_size
14 -j $nymph_mort 14 -j $nymph_mortality
15 -k $old_nymph_accum 15 -k $old_nymph_accumulation
16 -n $input.metadata.data_lines 16 -n $input.metadata.data_lines
17 -o '$output' 17 -o '$output'
18 -p $oviposition 18 -p $oviposition
19 -q $photoperiod 19 -q $photoperiod
20 -s $replications 20 -s $replications
21 -t $std_error_plot 21 -t $std_error_plot
22 -v '$input' 22 -v '$input'
23 -y $young_nymph_accum 23 -y $young_nymph_accumulation
24 -x '$insect']]></command> 24 -x '$insect']]></command>
25 <inputs> 25 <inputs>
26 <param name="input" type="data" format="csv" label="Temperature data" /> 26 <param name="input" type="data" format="csv" label="Temperature data" />
27 <param name="location" type="text" value="" optional="false" label="Location" /> 27 <param name="location" type="text" value="" optional="false" label="Location" />
28 <param name="insect" type="select" label="Select insect"> 28 <param name="insect" type="select" label="Select insect">
29 <option value="Brown Marmolated Stink Bug" selected="True">Brown Marmolated Stink Bug</option> 29 <option value="Brown Marmolated Stink Bug" selected="True">Brown Marmolated Stink Bug</option>
30 </param> 30 </param>
31 <param name="replications" type="integer" value="10" min="1" label="Number of replications" /> 31 <param name="replications" type="integer" value="10" min="1" label="Number of replications" />
32 <param name="photoperiod" type="float" value="13.5" min="0" label="Critical photoperiod for diapause induction/termination" /> 32 <param name="photoperiod" type="float" value="13.5" min="0" label="Critical photoperiod for diapause induction/termination" />
33 <param name="egg_mort" type="integer" value="1" min="0" label="Adjustment rate for egg mortality" /> 33 <param name="egg_mortality" type="integer" value="1" min="0" label="Adjustment rate for egg mortality" />
34 <param name="nymph_mort" type="integer" value="1" min="0" label="Adjustment rate for nymph mortality" /> 34 <param name="nymph_mortality" type="integer" value="1" min="0" label="Adjustment rate for nymph mortality" />
35 <param name="adult_mort" type="integer" value="1" min="0" label="Adjustment rate for adult mortality" /> 35 <param name="adult_mortality" type="integer" value="1" min="0" label="Adjustment rate for adult mortality" />
36 <param name="oviposition" type="integer" value="1" min="0" label="Adjustment oviposition rate" /> 36 <param name="oviposition" type="integer" value="1" min="0" label="Adjustment oviposition rate" />
37 <param name="min_clutch_size" type="integer" value="0" min="0" label="Adjustment of minimum clutch size" /> 37 <param name="min_clutch_size" type="integer" value="0" min="0" label="Adjustment of minimum clutch size" />
38 <param name="max_clutch_size" type="integer" value="0" min="0" label="Adjustment of maximum clutch size" /> 38 <param name="max_clutch_size" type="integer" value="0" min="0" label="Adjustment of maximum clutch size" />
39 <param name="young_nymph_accum" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (egg->young nymph)" /> 39 <param name="young_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (egg->young nymph)" />
40 <param name="old_nymph_accum" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (young nymph->old nymph)" /> 40 <param name="old_nymph_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (young nymph->old nymph)" />
41 <param name="adult_accum" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (old nymph->adult)" /> 41 <param name="adult_accumulation" type="integer" value="0" min="0" label="Adjustment of degree-days accumulation (old nymph->adult)" />
42 <param name="std_error_plot" type="select" label="Plot standard error?"> 42 <param name="std_error_plot" type="select" label="Plot standard error?">
43 <option value="1" selected="True">Yes</option> 43 <option value="1" selected="True">Yes</option>
44 <option value="0">No</option> 44 <option value="0">No</option>
45 </param> 45 </param>
46 </inputs> 46 </inputs>