Mercurial > repos > metexplore > met4j
diff build/tools/Kegg2Sbml/Kegg2Sbml.xml @ 6:7a6f2380fc1d draft
planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
author | metexplore |
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date | Wed, 17 May 2023 13:26:37 +0000 |
parents | |
children | 1436e9cde9c9 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/build/tools/Kegg2Sbml/Kegg2Sbml.xml Wed May 17 13:26:37 2023 +0000 @@ -0,0 +1,29 @@ +<?xml version="1.0" encoding="UTF-8"?> +<tool id="met4j_Kegg2Sbml" name="Kegg2Sbml" version="1.3.0"> + <description>Build a SBML file from KEGG organism-specific pathways. Uses Kegg API.</description> + <xrefs> + <xref type="bio.tools">met4j</xref> + </xrefs> + <requirements> + <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:1.3.0</container> + </requirements> + <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.Kegg2Sbml#if str($org): + -org "$org" +#end if + -sbml "$sbml" +]]></command> + <inputs> + <param argument="-org" label="[] Kegg org id. Must be 3 letters (" name="org" optional="true" type="text" value=""> + <sanitizer invalid_char="_"> + <valid initial="string.printable"/> + </sanitizer> + </param> + </inputs> + <outputs> + <data format="sbml" name="sbml"/> + </outputs> + <tests/> + <help><![CDATA[Build a SBML file from KEGG organism-specific pathways. Uses Kegg API. +Errors returned by this program could be due to Kegg API dysfunctions or limitations. Try later if this problem occurs.]]></help> + <citations/> +</tool>