CvDatabase uniprot = XrefChecker.getCvDatabase( CvDatabase.UNIPROT ); CvXrefQualifier identity = ControlledVocabularyRepository.getIdentityQualifier();
if( XrefChecker.getCvDatabase( primary.getDb() ) != null ) {
if( XrefChecker.getCvDatabase( primary.getDb() ) != null ) {
if( XrefChecker.getCvDatabase( primary.getDb() ) != null ) {
for ( Iterator iterator1 = xrefs.iterator(); iterator1.hasNext(); ) { final XrefTag xrefTag = (XrefTag) iterator1.next(); final CvDatabase cvDatabase = XrefChecker.getCvDatabase( xrefTag.getDb() ); if ( cvDatabase != null ) { CvXrefQualifier cvXrefQualifier = null;
for ( Iterator iterator1 = xrefs.iterator(); iterator1.hasNext(); ) { final XrefTag xrefTag = (XrefTag) iterator1.next(); final CvDatabase cvDatabase = XrefChecker.getCvDatabase( xrefTag.getDb() ); if ( cvDatabase != null ) { CvXrefQualifier cvXrefQualifier = null;
for ( Iterator iterator1 = xrefs.iterator(); iterator1.hasNext(); ) { final XrefTag xrefTag = (XrefTag) iterator1.next(); final CvDatabase cvDatabase = XrefChecker.getCvDatabase( xrefTag.getDb() ); if ( cvDatabase != null ) { CvXrefQualifier cvXrefQualifier = null;
private static void createXref( Protein protein, XrefTag xrefTag, boolean identity ) throws IntactException { CvXrefQualifier qualifier = null; if ( identity ) { qualifier = ControlledVocabularyRepository.getIdentityQualifier(); } CvDatabase database = XrefChecker.getCvDatabase( xrefTag.getDb() ); if ( database == null ) { // failed to find the database, skip the Xref creation } else { InteractorXref xref = new InteractorXref( IntactContext.getCurrentInstance().getInstitution(), database, xrefTag.getId(), xrefTag.getSecondary(), xrefTag.getVersion(), qualifier ); protein.addXref( xref ); IntactContext.getCurrentInstance().getDataContext().getDaoFactory().getXrefDao().persist( xref ); } }
private static void createXref( Protein protein, XrefTag xrefTag, boolean identity ) throws IntactException { CvXrefQualifier qualifier = null; if ( identity ) { qualifier = ControlledVocabularyRepository.getIdentityQualifier(); } CvDatabase database = XrefChecker.getCvDatabase( xrefTag.getDb() ); if ( database == null ) { // failed to find the database, skip the Xref creation } else { InteractorXref xref = new InteractorXref( IntactContext.getCurrentInstance().getInstitution(), database, xrefTag.getId(), xrefTag.getSecondary(), xrefTag.getVersion(), qualifier ); protein.addXref( xref ); IntactContext.getCurrentInstance().getDataContext().getDaoFactory().getXrefDao().persist( xref ); } }
private static void createXref( Protein protein, XrefTag xrefTag, boolean identity ) throws IntactException { CvXrefQualifier qualifier = null; if ( identity ) { qualifier = ControlledVocabularyRepository.getIdentityQualifier(); } CvDatabase database = XrefChecker.getCvDatabase( xrefTag.getDb() ); if ( database == null ) { // failed to find the database, skip the Xref creation } else { InteractorXref xref = new InteractorXref( IntactContext.getCurrentInstance().getInstitution(), database, xrefTag.getId(), xrefTag.getSecondary(), xrefTag.getVersion(), qualifier ); protein.addXref( xref ); IntactContext.getCurrentInstance().getDataContext().getDaoFactory().getXrefDao().persist( xref ); } }
XrefChecker.getCvDatabase( bibRef.getDb() ), bibRef.getId(), bibRef.getSecondary(), XrefTag xrefTag = (XrefTag) iterator.next(); ExperimentXref seeAlsoXref = new ExperimentXref( institution, XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(), XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(),
XrefChecker.getCvDatabase( bibRef.getDb() ), bibRef.getId(), bibRef.getSecondary(), XrefTag xrefTag = (XrefTag) iterator.next(); ExperimentXref seeAlsoXref = new ExperimentXref( institution, XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(), XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(),
XrefChecker.getCvDatabase( bibRef.getDb() ), bibRef.getId(), bibRef.getSecondary(), XrefTag xrefTag = (XrefTag) iterator.next(); ExperimentXref seeAlsoXref = new ExperimentXref( institution, XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(), XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(),
XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(),
XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(),
XrefChecker.getCvDatabase( xrefTag.getDb() ), xrefTag.getId(), xrefTag.getSecondary(),