Mercurial > repos > metexplore > met4j
comparison tools/networkAnalysis/NetworkSummary/NetworkSummary.xml @ 11:40c15b7467f1 draft default tip
planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 61dbdbae896d18b519a470e056cb8b4f98394518
| author | metexplore |
|---|---|
| date | Thu, 13 Feb 2025 15:08:22 +0000 |
| parents | 6a112eaf8f38 |
| children |
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| 10:6a112eaf8f38 | 11:40c15b7467f1 |
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| 1 <?xml version="1.0" encoding="UTF-8" standalone="no"?> | 1 <?xml version="1.0" encoding="UTF-8" standalone="no"?> |
| 2 <tool id="met4j_NetworkSummary" name="NetworkSummary" version="2.0.0"> | 2 <tool id="met4j_NetworkSummary" name="NetworkSummary" version="2.0.1"> |
| 3 <description>Create a report summarizing several graph measures characterising the structure of a metabolic 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:2.0.0</container> | 8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:2.0.1</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 | |
| 29 <param name="inputPath" value="toy_model.xml"/> | 30 <param name="inputPath" value="toy_model.xml"/> |
| 31 | |
| 30 <output name="outputPath"> | 32 <output name="outputPath"> |
| 33 | |
| 31 <assert_contents> | 34 <assert_contents> |
| 35 | |
| 32 <has_n_lines min="1"/> | 36 <has_n_lines min="1"/> |
| 37 | |
| 33 </assert_contents> | 38 </assert_contents> |
| 39 | |
| 34 </output> | 40 </output> |
| 41 | |
| 35 </test> | 42 </test> |
| 36 </tests> | 43 </tests> |
| 37 <help><![CDATA[Create a report summarizing several graph measures characterising the structure of a metabolic network. | 44 <help><![CDATA[Create a report summarizing several graph measures characterising the structure of a metabolic network. |
| 38 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> | 45 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> |
| 39 <citations/> | 46 <citations/> |