Mercurial > repos > metexplore > met4j

annotate tools/convert/FbcToNotes/FbcToNotes.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 7a6f2380fc1d
children 6a112eaf8f38
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1 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
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2 <tool id="met4j_FbcToNotes" name="FbcToNotes" version="develop">
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3 <description>Convert FBC package annotations to sbml html notes</description>
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4 <xrefs>
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5 <xref type="bio.tools">met4j</xref>
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6 </xrefs>
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7 <requirements>
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8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:develop</container>
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9 </requirements>
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10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.FbcToNotes -i "$inputPath"
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11 -o "$outputPath"
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12 ]]></command>
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13 <inputs>
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14 <param argument="-i" format="sbml" label="input SBML file" name="inputPath" optional="false" type="data" value=""/>
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15 </inputs>
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16 <outputs>
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17 <data format="sbml" name="outputPath"/>
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18 </outputs>
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19 <tests>
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20 <test>
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32 <param name="inputPath" value="ECOL.xml"/>
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44 <output ftype="sbml" name="outputPath">
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56 <assert_contents>
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68 <is_valid_xml/>
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80 <has_line_matching expression=".*GENE_ASSOCIATION: b2312.*" n="1"/>
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92 </assert_contents>
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104 </output>
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116 </test>
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117 </tests>
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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>
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119 <citations>
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120 <citation type="doi">10.1515/jib-2017-0082</citation>
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121 </citations>
0
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122 </tool>