Mercurial > repos > metexplore > met4j_setids
diff SetIds.xml @ 3:d80ba6cbcf39 draft default tip
planemo upload for repository https://forge.inrae.fr/metexplore/met4j-galaxy commit e757d0398a8407d983f1ef3f900b31cafc26e170
| author | metexplore |
|---|---|
| date | Wed, 21 Jan 2026 15:32:56 +0000 |
| parents | 6c8c9af89afe |
| children |
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--- a/SetIds.xml Fri Nov 21 10:23:40 2025 +0000 +++ b/SetIds.xml Wed Jan 21 15:32:56 2026 +0000 @@ -59,67 +59,7 @@ <outputs> <data format="sbml" name="out"/> </outputs> - <tests> - <test> - <param name="sbml" value="toy_model.xml"/> - <param name="tab" value="idMetabolites.tsv"/> - <param name="o" value="METABOLITE"/> - <output ftype="sbml" name="out"> - <assert_contents> - <is_valid_xml/> - <has_line_matching expression=".*id=.metaboliteA.*" n="1"/> - <has_line_matching expression=".*id=.metaboliteB.*" n="1"/> - </assert_contents> - </output> - </test> - <test> - <param name="sbml" value="toy_model.xml"/> - <param name="tab" value="idReactions.tsv"/> - <output ftype="sbml" name="out"> - <assert_contents> - <is_valid_xml/> - <has_line_matching expression=".*id=.reaction1.*" n="1"/> - <has_line_matching expression=".*id=.reaction2.*" n="1"/> - </assert_contents> - </output> - </test> - <test> - <param name="sbml" value="XF_network.sbml"/> - <param name="tab" value="idPathways.tsv"/> - <param name="o" value="PATHWAY"/> - <output ftype="sbml" name="out"> - <assert_contents> - <is_valid_xml/> - <has_line_matching expression=".*groups:id=.CEB.*" n="1"/> - <has_line_matching expression=".*groups:id=.NSP.*" n="1"/> - </assert_contents> - </output> - </test> - <test> - <param name="sbml" value="XF_network.sbml"/> - <param name="tab" value="idGenes.tsv"/> - <param name="o" value="GENE"/> - <output ftype="sbml" name="out"> - <assert_contents> - <is_valid_xml/> - <has_line_matching expression=".*fbc:id=.G1.*" n="1"/> - <has_line_matching expression=".*fbc:id=.G2.*" n="1"/> - </assert_contents> - </output> - </test> - <test> - <param name="sbml" value="XF_network.sbml"/> - <param name="tab" value="idCompartments.tsv"/> - <param name="o" value="COMPARTMENT"/> - <output ftype="sbml" name="out"> - <assert_contents> - <is_valid_xml/> - <has_line_matching expression=".*id=.cytosol.*" n="1"/> - <has_line_matching expression=".*id=.extra.*" n="1"/> - </assert_contents> - </output> - </test> - </tests> + <tests/> <help><![CDATA[Set new ids to network objects in a SBML file from a tabulated file containing the old ids and the new ids The ids must correspond between the tabulated file and the SBML file. If prefix or suffix is different in the SBML file, use the -p or the -s options.