public psidev.psi.mi.xml.model.Confidence fromJaxb( psidev.psi.mi.xml253.jaxb.ConfidenceListType.Confidence jConfidence ) throws ConverterException { if ( jConfidence == null ) { throw new IllegalArgumentException( "You must give a non null JAXB Confidence." ); } checkDependencies(); psidev.psi.mi.xml.model.Confidence mConfidence = new psidev.psi.mi.xml.model.Confidence(); // Initialise the model reading the Jaxb object // 1. set attributes mConfidence.setValue( jConfidence.getValue() ); // 2. set encapsulated objects mConfidence.setUnit( openCvTypeConverter.fromJaxb( jConfidence.getUnit(), psidev.psi.mi.xml.model.Unit.class ) ); // experiments if ( jConfidence.getExperimentRefList() != null ) { PsiDAO<ExperimentDescription> experimentDAO = factory.getExperimentDAO(); for ( Integer experimentId : jConfidence.getExperimentRefList().getExperimentReves() ) { ExperimentDescription experimentDescription = experimentDAO.retreive( experimentId ); if ( experimentDescription == null ) { mConfidence.getExperimentRefs().add( new ExperimentRef( experimentId ) ); } else { mConfidence.getExperiments().add( experimentDescription ); } } } return mConfidence; }
public psidev.psi.mi.xml.model.Confidence fromJaxb( psidev.psi.mi.xml254.jaxb.Confidence jConfidence ) throws ConverterException { if ( jConfidence == null ) { throw new IllegalArgumentException( "You must give a non null JAXB Confidence." ); } checkDependencies(); psidev.psi.mi.xml.model.Confidence mConfidence = new psidev.psi.mi.xml.model.Confidence(); // Initialise the model reading the Jaxb object // 1. set attributes mConfidence.setValue( jConfidence.getValue() ); // 2. set encapsulated objects mConfidence.setUnit( openCvTypeConverter.fromJaxb( jConfidence.getUnit(), psidev.psi.mi.xml.model.Unit.class ) ); // experiments if ( jConfidence.getExperimentRefList() != null ) { PsiDAO<ExperimentDescription> experimentDAO = factory.getExperimentDAO(); for ( Integer experimentId : jConfidence.getExperimentRefList().getExperimentReves() ) { ExperimentDescription experimentDescription = experimentDAO.retreive( experimentId ); if ( experimentDescription == null ) { mConfidence.getExperimentRefs().add( new ExperimentRef( experimentId ) ); } else { mConfidence.getExperiments().add( experimentDescription ); } } } return mConfidence; }
jConfidence.setExperimentRefList( new ExperimentRefList() ); for ( ExperimentRef mExperiment : mConfidence.getExperimentRefs() ) { jConfidence.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
jConfidence.setExperimentRefList( new ExperimentRefListType() ); for ( ExperimentRef mExperiment : mConfidence.getExperimentRefs() ) { jConfidence.getExperimentRefList().getExperimentReves().add( mExperiment.getRef() );
for (Confidence conf : interaction.getConfidences()){ if (conf.hasExperimentRefs()){ for (ExperimentRef eref : conf.getExperimentRefs()){ if( !interaction.getExperiments().isEmpty() ) { ExperimentDescription ed = findExperimentDescriptionInInteraction(eref, interaction); conf.getExperimentRefs().clear();
if ( c.hasExperimentRefs() ) { if( hasInteractionExperimentDescription && !parentInteraction.getExperiments().isEmpty() ) { for ( ExperimentRef eref : c.getExperimentRefs()) { ExperimentDescription ed = findExperimentDescriptionInInteraction(eref, parentInteraction); c.getExperimentRefs().clear(); for ( ExperimentRef eref : c.getExperimentRefs()) { c.getExperimentRefs().clear();