Uses of Interface
fr.curie.BiNoM.pathways.biopax.conversion

Packages that use conversion

fr.curie.BiNoM.pathways	Set of converters for conversion of one systems biology format into an other.
fr.curie.BiNoM.pathways.biopax	Java mapping of BioPAX version 2 (generated by Jastor)

Uses of conversion in fr.curie.BiNoM.pathways

Methods in fr.curie.BiNoM.pathways with parameters of type conversion

void	BioPAXToSBMLConverter.addConversionReaction(conversion conv, org.sbml.x2001.ns.celldesigner.ListOfReactionsDocument.ListOfReactions lr)
static void	CytoscapeToBioPAXConverter.removeConversion(conversion br, java.util.HashMap participants, java.util.HashMap allparticipants, java.util.Vector reactions, java.util.HashMap interactions, BioPAXToSBMLConverter b2s)

Uses of conversion in fr.curie.BiNoM.pathways.biopax

Subinterfaces of conversion in fr.curie.BiNoM.pathways.biopax

interface	biochemicalReaction Interface for biochemicalReaction ontology class Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this interface.
interface	complexAssembly Interface for complexAssembly ontology class Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this interface.
interface	transport Interface for transport ontology class Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this interface.
interface	transportWithBiochemicalReaction Interface for transportWithBiochemicalReaction ontology class Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this interface.

Classes in fr.curie.BiNoM.pathways.biopax that implement conversion

class	biochemicalReactionImpl Implementation of biochemicalReaction Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this class.
class	complexAssemblyImpl Implementation of complexAssembly Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this class.
class	conversionImpl Implementation of conversion Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this class.
class	transportImpl Implementation of transport Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this class.
class	transportWithBiochemicalReactionImpl Implementation of transportWithBiochemicalReaction Use the fr.curie.BiNoM.pathways.biopax.biopax_DASH_level2_DOT_owlFactory to create instances of this class.

Methods in fr.curie.BiNoM.pathways.biopax that return conversion

static conversion	biopax_DASH_level2_DOT_owlFactory.createconversion(com.hp.hpl.jena.rdf.model.Resource resource, com.hp.hpl.jena.rdf.model.Model model) Create a new instance of conversion.
static conversion	biopax_DASH_level2_DOT_owlFactory.createconversion(java.lang.String uri, com.hp.hpl.jena.rdf.model.Model model) Create a new instance of conversion.
conversion	catalysisImpl.getCONTROLLED_asconversion()
conversion	catalysis.getCONTROLLED_asconversion() Gets the 'CONTROLLED' property value
static conversion	biopax_DASH_level2_DOT_owlFactory.getconversion(com.hp.hpl.jena.rdf.model.Resource resource, com.hp.hpl.jena.rdf.model.Model model) Create a new instance of conversion.
static conversion	biopax_DASH_level2_DOT_owlFactory.getconversion(java.lang.String uri, com.hp.hpl.jena.rdf.model.Model model) Create a new instance of conversion.
conversion	catalysisImpl.setCONTROLLED_asconversion()
conversion	catalysis.setCONTROLLED_asconversion() Sets the 'CONTROLLED' property value to an anonymous node
conversion	catalysisImpl.setCONTROLLED_asconversion(com.hp.hpl.jena.rdf.model.Resource resource)
conversion	catalysis.setCONTROLLED_asconversion(com.hp.hpl.jena.rdf.model.Resource resource) Sets the 'CONTROLLED' property value to the given resource, and add's rdf:type properties.

Methods in fr.curie.BiNoM.pathways.biopax with parameters of type conversion

void	conversionListener.AVAILABILITYAdded(conversion source, java.lang.String newValue) Called when a value of AVAILABILITY has been added
void	conversionListener.AVAILABILITYRemoved(conversion source, java.lang.String oldValue) Called when a value of AVAILABILITY has been removed
void	conversionListener.COMMENTAdded(conversion source, java.lang.String newValue) Called when a value of COMMENT has been added
void	conversionListener.COMMENTRemoved(conversion source, java.lang.String oldValue) Called when a value of COMMENT has been removed
void	conversionListener.DATA_DASH_SOURCEAdded(conversion source, dataSource newValue) Called when a value of DATA_DASH_SOURCE has been added
void	conversionListener.DATA_DASH_SOURCERemoved(conversion source, dataSource oldValue) Called when a value of DATA_DASH_SOURCE has been removed
void	conversionListener.EVIDENCEAdded(conversion source, evidence newValue) Called when a value of EVIDENCE has been added
void	conversionListener.EVIDENCERemoved(conversion source, evidence oldValue) Called when a value of EVIDENCE has been removed
void	conversionListener.INTERACTION_DASH_TYPEAdded(conversion source, openControlledVocabulary newValue) Called when a value of INTERACTION_DASH_TYPE has been added
void	conversionListener.INTERACTION_DASH_TYPERemoved(conversion source, openControlledVocabulary oldValue) Called when a value of INTERACTION_DASH_TYPE has been removed
void	conversionListener.LEFTAdded(conversion source, physicalEntityParticipant newValue) Called when a value of LEFT has been added
void	conversionListener.LEFTRemoved(conversion source, physicalEntityParticipant oldValue) Called when a value of LEFT has been removed
void	conversionListener.NAMEChanged(conversion source) Called when NAME has changed
void	conversionListener.PARTICIPANTSAdded(conversion source, entity newValue) Called when a value of PARTICIPANTS has been added
void	conversionListener.PARTICIPANTSAdded(conversion source, physicalEntityParticipant newValue) Called when a value of PARTICIPANTS has been added
void	conversionListener.PARTICIPANTSRemoved(conversion source, entity oldValue) Called when a value of PARTICIPANTS has been removed
void	conversionListener.PARTICIPANTSRemoved(conversion source, physicalEntityParticipant oldValue) Called when a value of PARTICIPANTS has been removed
void	conversionListener.RIGHTAdded(conversion source, physicalEntityParticipant newValue) Called when a value of RIGHT has been added
void	conversionListener.RIGHTRemoved(conversion source, physicalEntityParticipant oldValue) Called when a value of RIGHT has been removed
void	catalysisImpl.setCONTROLLED(conversion CONTROLLED)
void	catalysis.setCONTROLLED(conversion CONTROLLED) Sets the 'CONTROLLED' property value
void	conversionListener.SHORT_DASH_NAMEChanged(conversion source) Called when SHORT_DASH_NAME has changed
void	conversionListener.SPONTANEOUSChanged(conversion source) Called when SPONTANEOUS has changed
void	conversionListener.SYNONYMSAdded(conversion source, java.lang.String newValue) Called when a value of SYNONYMS has been added
void	conversionListener.SYNONYMSRemoved(conversion source, java.lang.String oldValue) Called when a value of SYNONYMS has been removed
void	conversionListener.XREFAdded(conversion source, xref newValue) Called when a value of XREF has been added
void	conversionListener.XREFRemoved(conversion source, xref oldValue) Called when a value of XREF has been removed