Mercurial > repos > pablocarb > synbiodesign

annotate rpviz.xml @ 27:b30e3e5ee8f8 draft

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planemo upload commit 708fd9f837af7425a8986c336aab18cec7ff5b05
author pablocarb
date Fri, 02 Aug 2019 05:17:33 -0400
parents dbc40b306014
children 501f39987c9b
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1 <tool id="rpviz" name="rpviz" version="0.1.0" python_template_version="3.5">
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2 <description>Pathway visualizer</description>
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3 <requirements>
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4 <requirement type="package">requests</requirement>
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5 </requirements>
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6 <command detect_errors="exit_code"><![CDATA[
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7 python $__tool_directory__/toolRPViz.py $input1 $output1 -server $server
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8 ]]></command>
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9 <inputs>
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10 <param type="data" name="input1" format="tar" label="Input pathways"/>
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11 <param name="input2" type="text" value="sbml" label="Input format">
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12 <option value="sbml">sbml</option>
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13 <option value="csv">CSV</option>
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14 </param>
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15 <param name="input3" type="boolean" truevalue="Y" falsevalue="N" checked="false" label="Retrieve Selenzyme information" />
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16 <param name="server" type="text" label="RPViz RES server" value="http://rpviz.synbiochem.co.uk/REST" help="RPviz REST server" />
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17 </inputs>
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18 <outputs>
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19 <data name="output1" format="html" from_work_dir="out.html" />
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20 </outputs>
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21 <help><![CDATA[
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22 python3 toolRPViz.py [server SERVER] inputfile outputfile --input_format $input2 --selenzyme_table --outfolder $outputfile.extra_files_path
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23 ]]></help>
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24 </tool>