Mercurial > repos > genouest > openlabcds2csv

comparison openlabcds2csv.xml @ 1:91fa8b697e6a draft default tip

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"planemo upload commit efc6f0fdf414834e1275781106dcfe291b7ffd0a"
author genouest
date Fri, 29 Oct 2021 14:23:46 +0000
parents 9072a2d2178b
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0:9072a2d2178b 1:91fa8b697e6a
1 <tool id="openlabcds2csv" name="Converting multiple OpenLabCDS Text Files to a CSV summary file" version="0.1.0" profile="21.05"> 1 <tool id="openlabcds2csv" name="Converting multiple OpenLabCDS Text Files to a CSV summary file" version="0.1.0" profile="20.09">
2 <requirements> 2 <requirements>
3 <requirement type="package" version="8.0.121">openjdk</requirement> 3 <requirement type="package" version="8.0.121">openjdk</requirement>
4 </requirements> 4 </requirements>
5 <command detect_errors="exit_code"><![CDATA[ 5 <command detect_errors="exit_code"><![CDATA[
6 java -cp '$__tool_directory__/P2M2WorkflowsTools-assembly-0.1.4.jar' fr.inrae.metabolomics.p2m2.OpenLabCDS2CsvCommand 6 java -cp '$__tool_directory__/P2M2WorkflowsTools-assembly-0.1.4.jar' fr.inrae.metabolomics.p2m2.OpenLabCDS2CsvCommand
7 #for $input in $input_openlabscds_files 7 #for $input in $input_openlabscds_files
8 #if $input 8 #if $input
12 --out '$output_csv' --column '$column' 12 --out '$output_csv' --column '$column'
13 ]]></command> 13 ]]></command>
14 <inputs> 14 <inputs>
15 <param type="data" name="input_openlabscds_files" multiple="true" format="txt" /> 15 <param type="data" name="input_openlabscds_files" multiple="true" format="txt" />
16 <param type="select" name="column" label="target column to build as summary"> 16 <param type="select" name="column" label="target column to build as summary">
17 <option value="RetTime">RetTime</option> 17 <option value="RetTime">RetTime</option>
18 <option value="Type">Type</option> 18 <option value="Type">Type</option>
19 <option value="ISTD">ISTD</option> 19 <option value="ISTD">ISTD</option>
20 <option value="Area" selected="true">Area</option> 20 <option value="Area" selected="true">Area</option>
21 <option value="Amt/Area">Amt/Area</option> 21 <option value="Amt/Area">Amt/Area</option>
22 <option value="Amount">Amount</option> 22 <option value="Amount">Amount</option>
23 <option value="Grp">Grp</option> 23 <option value="Grp">Grp</option>
24 </param> 24 </param>
25 </inputs> 25 </inputs>
26 <outputs> 26 <outputs>
27 <data name="output_csv" format="csv" /> 27 <data name="output_csv" format="csv" />
28 </outputs> 28 </outputs>