/** * Retrieve an experiment description in an interaction using an experiment ref * @param eref : the experiment reference * @param i : the interaction to look into * @return the experiment which has been found */ private ExperimentDescription findExperimentDescriptionInInteraction(ExperimentRef eref, Interaction i){ for ( ExperimentDescription ed : i.getExperiments() ) { if( ed.getId() == eref.getRef() ) { return ed; } } return null; }
public psidev.psi.mi.xml253.jaxb.ParticipantType.ParticipantIdentificationMethodList.ParticipantIdentificationMethod toJaxb( psidev.psi.mi.xml.model.ParticipantIdentificationMethod mParticipantIdentificationMethod ) throws ConverterException { if ( mParticipantIdentificationMethod == null ) { throw new IllegalArgumentException( "You must give a non null model Participant Identification Method." ); } // Initialise the JAXB object reading the model // 1. convert the CvType psidev.psi.mi.xml253.jaxb.ParticipantType.ParticipantIdentificationMethodList.ParticipantIdentificationMethod jParticipantIdentificationMethod = cvTypeConverter.toJaxb( mParticipantIdentificationMethod, psidev.psi.mi.xml253.jaxb.ParticipantType.ParticipantIdentificationMethodList.ParticipantIdentificationMethod.class ); // 2. convert remaining components // experiments if ( mParticipantIdentificationMethod.hasExperiments() ) { for ( ExperimentDescription mExperiment : mParticipantIdentificationMethod.getExperiments() ) { addExperimentRef( jParticipantIdentificationMethod, mExperiment.getId() ); } } else if ( mParticipantIdentificationMethod.hasExperimentRefs() ) { for ( ExperimentRef mExperiment : mParticipantIdentificationMethod.getExperimentRefs() ) { addExperimentRef( jParticipantIdentificationMethod, mExperiment.getRef() ); } } return jParticipantIdentificationMethod; }
public psidev.psi.mi.xml254.jaxb.ParticipantIdentificationMethod toJaxb( psidev.psi.mi.xml.model.ParticipantIdentificationMethod mParticipantIdentificationMethod ) throws ConverterException { if ( mParticipantIdentificationMethod == null ) { throw new IllegalArgumentException( "You must give a non null model Participant Identification Method." ); } // Initialise the JAXB object reading the model // 1. convert the CvType psidev.psi.mi.xml254.jaxb.ParticipantIdentificationMethod jParticipantIdentificationMethod = cvTypeConverter.toJaxb( mParticipantIdentificationMethod, psidev.psi.mi.xml254.jaxb.ParticipantIdentificationMethod.class ); // 2. convert remaining components // experiments if ( mParticipantIdentificationMethod.hasExperiments() ) { for ( ExperimentDescription mExperiment : mParticipantIdentificationMethod.getExperiments() ) { addExperimentRef( jParticipantIdentificationMethod, mExperiment.getId() ); } } else if ( mParticipantIdentificationMethod.hasExperimentRefs() ) { for ( ExperimentRef mExperiment : mParticipantIdentificationMethod.getExperimentRefs() ) { addExperimentRef( jParticipantIdentificationMethod, mExperiment.getRef() ); } } return jParticipantIdentificationMethod; }
jExperimentalPreparation.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
jExperimentalPreparation.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
jExperimentalRole.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
jExperimentalRole.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
Integer experimentId = mExperiment.getRef(); jInferredInteraction.getExperimentRefList().getExperimentReves().add( experimentId );
Integer experimentId = mExperiment.getRef(); jInferredInteraction.getExperimentRefList().getExperimentReves().add( experimentId );
jExperimentalInteractor.getExperimentRefList().getExperimentReves().add( experimentDescription.getRef() );
jExperimentalInteractor.getExperimentRefList().getExperimentReves().add( experimentDescription.getRef() );
jConfidence.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
jConfidence.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
jParameter.setExperimentRef( mParameter.getExperiment().getId() ); } else if ( mParameter.hasExperimentRef() ) { jParameter.setExperimentRef( mParameter.getExperimentRef().getRef() );
jParameter.setExperimentRef( mParameter.getExperiment().getId() ); } else if ( mParameter.hasExperimentRef() ) { jParameter.setExperimentRef( mParameter.getExperimentRef().getRef() );
jParameter.setExperimentRef( mParameter.getExperiment().getId() ); } else if ( mParameter.hasExperimentRef() ) { jParameter.setExperimentRef( mParameter.getExperimentRef().getRef() );
jParameter.setExperimentRef( mParameter.getExperiment().getId() ); } else if ( mParameter.hasExperimentRef() ) { jParameter.setExperimentRef( mParameter.getExperimentRef().getRef() );
jOrganism.getExperimentRefList().getExperimentReves().add( mExperiemnt.getRef() );
jOrganism.getExperimentRefList().getExperimentReves().add( mExperiemnt.getRef() );
jFeature.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );