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comparison bmsb.xml @ 32:7418fc8f0780 draft

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author greg
date Fri, 16 Dec 2016 08:50:41 -0500
parents aefd45f2fa43
children 956daea2c7fe
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31:aefd45f2fa43 32:7418fc8f0780
4 <requirements> 4 <requirements>
5 <requirement type="package" version="1.3.0">r-optparse</requirement> 5 <requirement type="package" version="1.3.0">r-optparse</requirement>
6 </requirements> 6 </requirements>
7 <command> 7 <command>
8 <![CDATA[ 8 <![CDATA[
9 Rscript $__tool_directory__/BMSB.R 9 Rscript $__tool_directory__/bmsb.R
10 -adult_mort $adult_mort 10 -a $adult_mort
11 -adult_nymph_accum $adult_nymph_accum 11 -b $adult_nymph_accum
12 -egg_mort $egg_mort 12 -c $egg_mort
13 -latitude $latitude 13 -d $latitude
14 -location $location 14 -e $location
15 -max_clutch_size $max_clutch_size 15 -f $max_clutch_size
16 -min_clutch_size $min_clutch_size 16 -g $min_clutch_size
17 -nymph_mort $nymph_mort 17 -j $nymph_mort
18 -old_nymph_accum $old_nymph_accum 18 -k $old_nymph_accum
19 -output $output 19 -o $output
20 -oviposition $oviposition 20 -p $oviposition
21 -photoperiod $photoperiod 21 -q $photoperiod
22 -replications $replications 22 -s $replications
23 -se_plot $se_plot 23 -t $se_plot
24 -sim_year $sim_year 24 -u $year
25 -start_year $start_year 25 -v "$temperature_dataset"
26 -temperature_datasets "$temperature_datasets" 26 -y $young_nymph_accum
27 -young_nymph_accum $young_nymph_accum
28 ]]> 27 ]]>
29 </command> 28 </command>
30 <inputs> 29 <inputs>
31 <param name="location" type="select" label="Select a location"> 30 <param name="location" type="select" label="Select a location">
32 <option value="asheville" selected=True>Asheville</option> 31 <option value="asheville" selected="True">Asheville</option>
33 <option value="wenatchee">Wenatchee</option> 32 <option value="wenatchee">Wenatchee</option>
34 </param> 33 </param>
35 <param name="latitude" type="float" value="35.60" label="Latitude of selected location"> 34 <param name="latitude" type="float" value="35.60" label="Latitude of selected location" />
36 <param name="temperature_datasets" type="data" format="csv" multiple="true" label="Select datasets containing temperatures" help="One or more datasets can be selected"/> 35 <param name="temperature_dataset" type="data" format="csv" label="Select dataset containing temperatures" />
37 <param name="start_year" type="integer" min="1990" label="Enter a starting year" /> 36 <param name="year" type="integer" value="2004" min="1990" label="Enter the year for the temperature data" />
38 <param name="replications" type="integer" value="3" label="Number of replications" /> 37 <param name="replications" type="integer" value="3" label="Number of replications" />
39 <param name="photoperiod" type="float" value="13.5" label="Critical photoperiod for diapause induction/termination"> 38 <param name="photoperiod" type="float" value="13.5" label="Critical photoperiod for diapause induction/termination" />
40 <param name="egg_mort" type="integer" label="Adjustment rate for egg mortality" /> 39 <param name="egg_mort" type="integer" value="1" label="Adjustment rate for egg mortality" />
41 <param name="nymph_mort" type="integer" label="Adjustment rate for nymph mortality" /> 40 <param name="nymph_mort" type="integer" value="1" label="Adjustment rate for nymph mortality" />
42 <param name="adult_mort" type="integer" label="Adjustment rate for adult mortality" /> 41 <param name="adult_mort" type="integer" value="1" label="Adjustment rate for adult mortality" />
43 <param name="oviposition" type="integer" label="Adjustment oviposition rate" /> 42 <param name="oviposition" type="integer" value="1" label="Adjustment oviposition rate" />
44 <param name="min_clutch_size" type="integer" label="Adjustment of minimum clutch size" /> 43 <param name="min_clutch_size" type="integer" value="0" label="Adjustment of minimum clutch size" />
45 <param name="max_clutch_size" type="integer" label="Adjustment of maximum clutch size" /> 44 <param name="max_clutch_size" type="integer" value="0" label="Adjustment of maximum clutch size" />
46 <param name="young_nymph_accum" type="integer" label="Adjustment of DD accumulation (egg->young nymph)" /> 45 <param name="young_nymph_accum" type="integer" value="0" label="Adjustment of DD accumulation (egg->young nymph)" />
47 <param name="old_nymph_accum" type="integer" label="Adjustment of DD accumulation (young nymph->old nymph)" /> 46 <param name="old_nymph_accum" type="integer" value="0" label="Adjustment of DD accumulation (young nymph->old nymph)" />
48 <param name="adult_nymph_accum" type="integer" label="Adjustment of DD accumulation (old nymph->adult)" /> 47 <param name="adult_nymph_accum" type="integer" value="0" label="Adjustment of DD accumulation (old nymph->adult)" />
49 <param name="sim_year" type="integer" min="1990" label="Simulation year" />
50 <param name="se_plot" type="select" label="Plot SE?"> 48 <param name="se_plot" type="select" label="Plot SE?">
51 <option value="0" selected=True>No</option> 49 <option value="0" selected="True">No</option>
52 <option value="1">Yes</option> 50 <option value="1">Yes</option>
53 </param> 51 </param>
54 </inputs> 52 </inputs>
55 <outputs> 53 <outputs>
56 <data name="output" format="RData" label="${tool.name}: ${location}, ${sim_year} on ${on_string}" /> 54 <data name="output" format="pdf" label="${tool.name} ${location}:${year} on ${on_string}" />
57 </outputs> 55 </outputs>
58 <help> 56 <help>
59 **What it does** 57 **What it does**
60 58
61 BMSB prototype tool. 59 BMSB prototype tool.