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view tools/tool_conf.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
parents 0976a6257300
children
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<?xml version="1.0" encoding="UTF-8" standalone="no"?>
<toolbox monitor="true">
  <label id="met4j" text="MET4J"/>
  <section id="met4j_attributes" name="Met4J - attributes"/>
  <tool file="met4j/attributes/ExtractAnnotations/ExtractAnnotations.xml"/>
  <tool file="met4j/attributes/ExtractPathways/ExtractPathways.xml"/>
  <tool file="met4j/attributes/GetEntities/GetEntities.xml"/>
  <tool file="met4j/attributes/GetGenesFromReactions/GetGenesFromReactions.xml"/>
  <tool file="met4j/attributes/GetMetaboliteAttributes/GetMetaboliteAttributes.xml"/>
  <tool file="met4j/attributes/GetReactantsFromReactions/GetReactantsFromReactions.xml"/>
  <tool file="met4j/attributes/SetCharges/SetCharges.xml"/>
  <tool file="met4j/attributes/SetChemicalFormulas/SetChemicalFormulas.xml"/>
  <tool file="met4j/attributes/SetEcNumbers/SetEcNumbers.xml"/>
  <tool file="met4j/attributes/SetGprs/SetGprs.xml"/>
  <tool file="met4j/attributes/SetIds/SetIds.xml"/>
  <tool file="met4j/attributes/SetNames/SetNames.xml"/>
  <tool file="met4j/attributes/SetPathways/SetPathways.xml"/>
  <tool file="met4j/attributes/SetReferences/SetReferences.xml"/>
  <section id="met4j_bigg" name="Met4J - bigg"/>
  <tool file="met4j/bigg/GetBiggModelProteome/GetBiggModelProteome.xml"/>
  <section id="met4j_convert" name="Met4J - convert"/>
  <tool file="met4j/convert/FbcToNotes/FbcToNotes.xml"/>
  <tool file="met4j/convert/Kegg2Sbml/Kegg2Sbml.xml"/>
  <tool file="met4j/convert/Sbml2CarbonSkeletonNet/Sbml2CarbonSkeletonNet.xml"/>
  <tool file="met4j/convert/Sbml2CompoundGraph/Sbml2CompoundGraph.xml"/>
  <tool file="met4j/convert/Sbml2Graph/Sbml2Graph.xml"/>
  <tool file="met4j/convert/Sbml2PathwayNet/Sbml2PathwayNet.xml"/>
  <tool file="met4j/convert/Sbml2Tab/Sbml2Tab.xml"/>
  <tool file="met4j/convert/SbmlWizard/SbmlWizard.xml"/>
  <tool file="met4j/convert/Tab2Sbml/Tab2Sbml.xml"/>
  <section id="met4j_mapping" name="Met4J - mapping"/>
  <tool file="met4j/mapping/NameMatcher/NameMatcher.xml"/>
  <tool file="met4j/mapping/ORApathwayEnrichment/ORApathwayEnrichment.xml"/>
  <section id="met4j_networkanalysis" name="Met4J - networkAnalysis"/>
  <tool file="met4j/networkAnalysis/BipartiteDistanceMatrix/BipartiteDistanceMatrix.xml"/>
  <tool file="met4j/networkAnalysis/ChemSimilarityWeighting/ChemSimilarityWeighting.xml"/>
  <tool file="met4j/networkAnalysis/ChokePoint/ChokePoint.xml"/>
  <tool file="met4j/networkAnalysis/DegreeWeighting/DegreeWeighting.xml"/>
  <tool file="met4j/networkAnalysis/DistanceMatrix/DistanceMatrix.xml"/>
  <tool file="met4j/networkAnalysis/ExtractSubBipNetwork/ExtractSubBipNetwork.xml"/>
  <tool file="met4j/networkAnalysis/ExtractSubNetwork/ExtractSubNetwork.xml"/>
  <tool file="met4j/networkAnalysis/ExtractSubReactionNetwork/ExtractSubReactionNetwork.xml"/>
  <tool file="met4j/networkAnalysis/LoadPoint/LoadPoint.xml"/>
  <tool file="met4j/networkAnalysis/MetaboRank/MetaboRank.xml"/>
  <tool file="met4j/networkAnalysis/NetworkSummary/NetworkSummary.xml"/>
  <tool file="met4j/networkAnalysis/PrecursorNetwork/PrecursorNetwork.xml"/>
  <tool file="met4j/networkAnalysis/ReactionDistanceMatrix/ReactionDistanceMatrix.xml"/>
  <tool file="met4j/networkAnalysis/ScopeNetwork/ScopeNetwork.xml"/>
  <tool file="met4j/networkAnalysis/SeedsAndTargets/SeedsAndTargets.xml"/>
  <tool file="met4j/networkAnalysis/SideCompoundsScan/SideCompoundsScan.xml"/>
  <tool file="met4j/networkAnalysis/TopologicalPathwayAnalysis/TopologicalPathwayAnalysis.xml"/>
  <section id="met4j_reconstruction" name="Met4J - reconstruction"/>
  <tool file="met4j/reconstruction/CreateMetaNetwork/CreateMetaNetwork.xml"/>
  <tool file="met4j/reconstruction/SbmlCheckBalance/SbmlCheckBalance.xml"/>
</toolbox>