Mercurial > repos > metexplore > met4j

annotate tools/attributes/GetMetaboliteAttributes/GetMetaboliteAttributes.xml @ 11:40c15b7467f1 draft default tip

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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 61dbdbae896d18b519a470e056cb8b4f98394518
author metexplore
date Thu, 13 Feb 2025 15:08:22 +0000
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0976a6257300 planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 05db35f63cadb9d56dafff594a3507c59cd85273
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1 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
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2 <tool id="met4j_GetMetaboliteAttributes" name="GetMetaboliteAttributes" version="2.0.1">
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3 <description>Create a tabulated file with metabolite attributes from a SBML file</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:2.0.1</container>
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9 </requirements>
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10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh attributes.GetMetaboliteAttributes -i "$sbml"
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11 -o "$outputFile"
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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="sbml" optional="false" type="data" value=""/>
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15 </inputs>
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16 <outputs>
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17 <data format="tsv" name="outputFile"/>
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18 </outputs>
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19 <tests>
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20 <test>
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22 <param name="sbml" value="toy_model.xml"/>
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24 <output ftype="tsv" name="outputFile">
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26 <assert_contents>
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28 <has_n_lines n="9"/>
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30 <has_n_columns n="6"/>
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32 <has_line_matching expression=".*1S/C2H6O/c1-2-3/h3H,2H2,1H3.*" n="1"/>
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34 <has_line_matching expression=".*C.*NC.*" n="1"/>
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36 </assert_contents>
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38 </output>
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40 </test>
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41 </tests>
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42 <help><![CDATA[Create a tabulated file with metabolite attributes from a SBML file]]></help>
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43 <citations/>
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44 </tool>