fr.curie.BiNoM.pathways
Class parseBioPAX

java.lang.Object
  fr.curie.BiNoM.pathways.BioPAXToSBMLConverter
      fr.curie.BiNoM.pathways.parseBioPAX

public class parseBioPAX
extends BioPAXToSBMLConverter

Utility class for listing some BioPAX information as a readable text

Nested Class Summary

Nested classes/interfaces inherited from class fr.curie.BiNoM.pathways.BioPAXToSBMLConverter

BioPAXToSBMLConverter.BioPAXSpecies

Field Summary

Fields inherited from class fr.curie.BiNoM.pathways.BioPAXToSBMLConverter

alwaysMentionCompartment, biopax, bioPAXreactions, bpnm, compartments, complexList, considerCompartmentNameRatherThanId, controls, dnaList, includedSpecies, independentSpecies, independentSpeciesIds, proteinList, reactions, rnaList, sbmlDoc, smallMoleculeList, species, useBiopaxModelOntology

Constructor Summary

parseBioPAX()

Method Summary

static void

main(java.lang.String[] args)

Methods inherited from class fr.curie.BiNoM.pathways.BioPAXToSBMLConverter

addControl, addConversionReaction, addIncludedParticipant, findIndependentSpecies, getAllCompartments, getTypeForParticipant, makeComment, makeLists, populateSbml

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

parseBioPAX

public parseBioPAX()

Method Detail

main

public static void main(java.lang.String[] args)