Mercurial > repos > metexplore > met4j
comparison build/tools/FbcToNotes/FbcToNotes.xml @ 10:6a112eaf8f38 draft
planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 71071300dd662ad01bd064abcf6866a192eeea95
| author | metexplore |
|---|---|
| date | Mon, 03 Feb 2025 15:59:46 +0000 |
| parents | 0976a6257300 |
| children | 40c15b7467f1 |
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| 9:0976a6257300 | 10:6a112eaf8f38 |
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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_FbcToNotes" name="FbcToNotes" version="develop"> | 2 <tool id="met4j_FbcToNotes" name="FbcToNotes" version="2.0.0"> |
| 3 <description>Convert FBC package annotations to sbml html notes</description> | 3 <description>Convert FBC package annotations to sbml html notes</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:develop</container> | 8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:2.0.0</container> |
| 9 </requirements> | 9 </requirements> |
| 10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.FbcToNotes -i "$inputPath" | 10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.FbcToNotes -i "$inputPath" |
| 11 -o "$outputPath" | 11 -o "$outputPath" |
| 12 ]]></command> | 12 ]]></command> |
| 13 <inputs> | 13 <inputs> |
| 16 <outputs> | 16 <outputs> |
| 17 <data format="sbml" name="outputPath"/> | 17 <data format="sbml" name="outputPath"/> |
| 18 </outputs> | 18 </outputs> |
| 19 <tests> | 19 <tests> |
| 20 <test> | 20 <test> |
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| 32 <param name="inputPath" value="ECOL.xml"/> | 21 <param name="inputPath" value="ECOL.xml"/> |
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| 44 <output ftype="sbml" name="outputPath"> | 22 <output ftype="sbml" name="outputPath"> |
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| 56 <assert_contents> | 23 <assert_contents> |
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| 68 <is_valid_xml/> | 24 <is_valid_xml/> |
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| 80 <has_line_matching expression=".*GENE_ASSOCIATION: b2312.*" n="1"/> | 25 <has_line_matching expression=".*GENE_ASSOCIATION: b2312.*" n="1"/> |
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| 92 </assert_contents> | 26 </assert_contents> |
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| 104 </output> | 27 </output> |
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| 116 </test> | 28 </test> |
| 117 </tests> | 29 </tests> |
| 118 <help><![CDATA[Convert FBC package annotations to sbml html notes (see https://www.degruyter.com/document/doi/10.1515/jib-2017-0082/html)]]></help> | 30 <help><![CDATA[Convert FBC package annotations to sbml html notes (see https://www.degruyter.com/document/doi/10.1515/jib-2017-0082/html)]]></help> |
| 119 <citations> | 31 <citations> |
| 120 <citation type="doi">10.1515/jib-2017-0082</citation> | 32 <citation type="doi">10.1515/jib-2017-0082</citation> |