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comparison tools/networkAnalysis/NetworkSummary/NetworkSummary.xml @ 6:7a6f2380fc1d draft

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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
author metexplore
date Wed, 17 May 2023 13:26:37 +0000
parents 35c9abcd8934
children
comparison
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5:35c9abcd8934 6:7a6f2380fc1d
1 <?xml version="1.0" encoding="UTF-8"?> 1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="met4j_NetworkSummary" name="NetworkSummary" version="1.2.1"> 2 <tool id="met4j_NetworkSummary" name="NetworkSummary" version="MET4J_VERSION_TEST">
3 <description>Create a report summarizing several graph measures characterising the structure of the network.</description> 3 <description>Create a report summarizing several graph measures characterising the structure of the network.</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:1.2.1</container> 8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:MET4J_VERSION_TEST</container>
9 </requirements> 9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh networkAnalysis.NetworkSummary -i "$inputPath" 10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh networkAnalysis.NetworkSummary -i "$inputPath"
11 #if str($sideCompoundFile) != 'None': 11 #if str($sideCompoundFile) != 'None':
12 -s "$sideCompoundFile" 12 -s "$sideCompoundFile"
13 #end if 13 #end if
24 <outputs> 24 <outputs>
25 <data format="txt" name="outputPath"/> 25 <data format="txt" name="outputPath"/>
26 </outputs> 26 </outputs>
27 <tests> 27 <tests>
28 <test> 28 <test>
29 <param name="inputPath" value="toy_model.xml"/> 29 <param name="inputPath" value="toy_model.xml"/>
30 <output name="outputPath"> 30 <output name="outputPath">
31 </output> 31 <assert_contents>
32 </test> 32 <has_n_lines min="1"/>
33 </assert_contents>
34 </output>
35 </test>
33 </tests> 36 </tests>
34 <help><![CDATA[Use a metabolic network in SBML file and an optional list of side compounds, and produce a report summarizing several graph measures characterising the structure of the network.This includes (non-exhaustive list): size and order, connectivity, density, degree distribution, shortest paths length, top centrality nodes...]]></help> 37 <help><![CDATA[Use a metabolic network in SBML file and an optional list of side compounds, and produce a report summarizing several graph measures characterising the structure of the network.This includes (non-exhaustive list): size and order, connectivity, density, degree distribution, shortest paths length, top centrality nodes...]]></help>
35 <citations/> 38 <citations/>
36 </tool> 39 </tool>