public static ExperimentDescription createExperiment(String name, String publicationId, InteractionDetectionMethod interactionDetectionMethod, ParticipantIdentificationMethod participantIdentificationMethod, Organism hostOrganism) { ExperimentDescription experiment = new ExperimentDescription(); assignNextId(experiment); experiment.setNames(createNames(name, null)); experiment.setBibref(createBibrefPubmed(publicationId)); experiment.setInteractionDetectionMethod(interactionDetectionMethod); experiment.setParticipantIdentificationMethod(participantIdentificationMethod); experiment.getHostOrganisms().add(hostOrganism); return experiment; }
experimentDescription.getHostOrganisms().add(xmlOrganism);
expDesc.getHostOrganisms().add(organism);
for(Organism organism : experimentDescription.getHostOrganisms()) evidence.addComment("Host " + organism.toString());
if (psiObject.getHostOrganisms() != null && !psiObject.getHostOrganisms().isEmpty()) { Organism hostOrganism = psiObject.getHostOrganisms().iterator().next(); if (psiObject.getHostOrganisms().size() > 1){ log.error("Experiment with "+psiObject.getHostOrganisms().size()+" host organisms : " + experiment.getShortLabel() + ". Only the first host organism will be converted in Intact.");
for ( ExperimentType.HostOrganismList.HostOrganism jHostOrganism : jExperimentDescription.getHostOrganismList().getHostOrganisms() ) { mExperimentDescription.getHostOrganisms().add( organismConverter.fromJaxb( jHostOrganism ) );
for ( psidev.psi.mi.xml254.jaxb.HostOrganism jHostOrganism : jExperimentDescription.getHostOrganismList().getHostOrganisms() ) { mExperimentDescription.getHostOrganisms().add( organismConverter.fromJaxb( jHostOrganism ) );
for ( Organism mOrganism : mExperimentDescription.getHostOrganisms() ) { if ( jExperimentDescription.getHostOrganismList() == null ) { jExperimentDescription.setHostOrganismList( new HostOrganismList() );
for ( Organism mOrganism : mExperimentDescription.getHostOrganisms() ) { if ( jExperimentDescription.getHostOrganismList() == null ) { jExperimentDescription.setHostOrganismList( new ExperimentType.HostOrganismList() );