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comparison build/tools/NetworkSummary/NetworkSummary.xml @ 9:0976a6257300 draft

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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 05db35f63cadb9d56dafff594a3507c59cd85273
author metexplore
date Fri, 31 Jan 2025 18:28:53 +0000
parents 1274e2a62479
children 6a112eaf8f38
comparison
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8:1274e2a62479 9:0976a6257300
1 <?xml version="1.0" encoding="UTF-8"?> 1 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
2 <tool id="met4j_NetworkSummary" name="NetworkSummary" version="1.5.0"> 2 <tool id="met4j_NetworkSummary" name="NetworkSummary" version="develop">
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 a metabolic 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:1.5.0</container> 8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:develop</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
30 <output name="outputPath"> 30
31 <assert_contents> 31
32 <has_n_lines min="1"/> 32
33 </assert_contents> 33
34 </output> 34
35 </test> 35
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40 <param name="inputPath" value="toy_model.xml"/>
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64 <assert_contents>
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76 <has_n_lines min="1"/>
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88 </assert_contents>
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100 </output>
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112 </test>
36 </tests> 113 </tests>
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> 114 <help><![CDATA[Create a report summarizing several graph measures characterising the structure of a metabolic network.
115 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>
38 <citations/> 116 <citations/>
39 </tool> 117 </tool>