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comparison tools/convert/Sbml2Graph/Sbml2Graph.xml @ 2:e69a78624877 draft

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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit cb957f5d5540a48293fe8487c0cfad78ab439d7c
author metexplore
date Tue, 19 Jul 2022 14:20:07 +0000
parents 9b162ee6ff8e
children 6bd9aad9626d
comparison
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1:9b162ee6ff8e 2:e69a78624877
1 <?xml version="1.0" encoding="UTF-8"?> 1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="met4j_Sbml2Graph" name="Sbml2Graph" version="0.12.0"> 2 <tool id="met4j_Sbml2Graph" name="Sbml2Graph" version="1.0.1">
3 <description>Create a graph representation of a SBML file content, and export it in graph file format.</description> 3 <description>Create a graph representation of a SBML file content, and export it in graph file format.</description>
4 <xrefs> 4 <xrefs>
5 <xref type="bio.tools">met4j</xref> 5 <xref type="bio.tools">met4j</xref>
6 </xrefs> 6 </xrefs>
7 <requirements> 7 <requirements>
8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:0.12.0</container> 8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:1.0.1</container>
9 </requirements> 9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.Sbml2Graph -i "$inputPath" 10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.Sbml2Graph -i "$inputPath"
11 $bipartite 11 $bipartite
12 $compound 12 $compound
13 $reaction 13 $reaction
22 <param argument="-r" checked="false" falsevalue="" label="create reaction graph" name="reaction" truevalue="-r" type="boolean" value="false"/> 22 <param argument="-r" checked="false" falsevalue="" label="create reaction graph" name="reaction" truevalue="-r" type="boolean" value="false"/>
23 <param argument="-tab" checked="false" falsevalue="" label="export in tabulated file" name="tab" truevalue="-tab" type="boolean" value="false"/> 23 <param argument="-tab" checked="false" falsevalue="" label="export in tabulated file" name="tab" truevalue="-tab" type="boolean" value="false"/>
24 <param argument="-gml" checked="true" falsevalue="" label="export in GML file" name="gml" truevalue="-gml" type="boolean" value="true"/> 24 <param argument="-gml" checked="true" falsevalue="" label="export in GML file" name="gml" truevalue="-gml" type="boolean" value="true"/>
25 </inputs> 25 </inputs>
26 <outputs> 26 <outputs>
27 <data format="text" name="outputPath"/> 27 <data format="txt" name="outputPath"/>
28 </outputs> 28 </outputs>
29 <tests> 29 <tests>
30 <test> 30 <test>
31 <param name="inputPath" value="toy_model.xml"/> 31 <param name="inputPath" value="toy_model.xml"/>
32 <output name="outputPath"> 32 <output name="outputPath">