view tools/reconstruction/SbmlCheckBalance/SbmlCheckBalance.xml @ 8:1274e2a62479 draft default tip

planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit e34acf0f51cafcf6ae7c97b4feb3188a39f17c32
author metexplore
date Wed, 26 Jul 2023 15:33:45 +0000
parents 7a6f2380fc1d
children
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<?xml version="1.0" encoding="UTF-8"?>
<tool id="met4j_SbmlCheckBalance" name="SbmlCheckBalance" version="MET4J_VERSION_TEST">
  <description>Check balance of all the reactions in a SBML.</description>
  <xrefs>
    <xref type="bio.tools">met4j</xref>
  </xrefs>
  <requirements>
    <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:MET4J_VERSION_TEST</container>
  </requirements>
  <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh reconstruction.SbmlCheckBalance -sbml "$sbml"
 -out "$out"
]]></command>
  <inputs>
    <param argument="-sbml" format="sbml" label="Original sbml file" name="sbml" optional="false" type="data" value=""/>
  </inputs>
  <outputs>
    <data format="tsv" name="out"/>
  </outputs>
  <tests/>
  <help><![CDATA[Check balance of all the reactions in a SBML.
A reaction is balanced if all its reactants have a chemical formula with a good syntax and if the quantity of each atom is the same in both sides of the reaction.
For each reaction, indicates if the reaction is balanced, the list of the atoms and the sum of their quantity, and the list of the metabolites that don't have a correct chemical formula.]]></help>
  <citations/>
</tool>