Mercurial > repos > metexplore > met4j

comparison tools/attributes/SbmlToMetaboliteTable/SbmlToMetaboliteTable.xml @ 0:dcd16521b969 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 5dab0a2d83a1fdd7a1878a50ba0f24e752505393
author metexplore
date Fri, 10 Jun 2022 10:31:34 +0000
parents
children 9b162ee6ff8e
comparison
equal deleted inserted replaced
-1:000000000000 0:dcd16521b969
1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="met4j_SbmlToMetaboliteTable" name="SbmlToMetaboliteTable" version="0.11.0">
3 <description>Create a tabulated file with metabolite attributes from a SBML file</description>
4 <xrefs>
5 <xref type="bio.tools">met4j</xref>
6 </xrefs>
7 <requirements>
8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:0.11.0</container>
9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh attributes.SbmlToMetaboliteTable -s "$sbml"
11 -o "$outputFile"
12 ]]></command>
13 <inputs>
14 <param argument="-s" format="sbml" label="Sbml file" name="sbml" optional="false" type="data" value=""/>
15 </inputs>
16 <outputs>
17 <data format="tsv" name="outputFile"/>
18 </outputs>
19 <tests>
20 <test>
21 <param name="sbml" value="toy_model.xml"/>
22 <output ftype="tsv" name="outputFile">
23 <assert_contents>
24 <has_n_lines n="9"/>
25 <has_n_columns n="6"/>
26 <has_line_matching expression=".*1S/C2H6O/c1-2-3/h3H,2H2,1H3.*" n="1"/>
27 <has_line_matching expression=".*C.*NC.*" n="1"/>
28 </assert_contents>
29 </output>
30 </test>
31 </tests>
32 <help><![CDATA[Create a tabulated file with metabolite attributes from a SBML file]]></help>
33 </tool>