private Synonym createSynonym( String shortLabel, String shortLabelId ) { Synonym syn = new SynonymImpl(); syn.setText( shortLabel ); SynonymType synCat = new SynonymTypeImpl(); synCat.setID(shortLabelId); syn.setSynonymType( synCat ); syn.setScope( 1 ); return syn; }
logger.debug("using user-defined synonym type: " + aSyn.getSynonymType().getName()); Term synTrm = ontologyTerms.get(aSyn.getSynonymType().getID()); if (synTrm != null) { tsb.setSynonymType(synTrm); throw new IllegalStateException( "Attempting to use user-defined synonym type that has not been initialized in common objects: " + aSyn.getSynonymType().getID() );
logger.debug("using user-defined synonym type: " + aSyn.getSynonymType().getName()); Term synTrm = ontologyTerms.get(aSyn.getSynonymType().getID()); if (synTrm != null) { tsb.setSynonymType(synTrm); throw new IllegalStateException( "Attempting to use user-defined synonym type that has not been initialized in common objects: " + aSyn.getSynonymType().getID() );
logger.debug("using user-defined synonym type: " + aSyn.getSynonymType().getName()); Term synTrm = ontologyTerms.get(aSyn.getSynonymType().getID()); if (synTrm != null) { tsb.setSynonymType(synTrm); throw new IllegalStateException( "Attempting to use user-defined synonym type that has not been initialized in common objects: " + aSyn.getSynonymType().getID() );
private void addPsimiShortSyn(OBOClass oboObj, String synonym) { Synonym syn = new SynonymImpl(); syn.setText( synonym ); SynonymType synCat = new SynonymTypeImpl(); synCat.setID(synonym); syn.setSynonymType( synCat ); syn.setScope( 1 ); oboObj.addSynonym( syn ); }
private Synonym createAlias( CvObjectAlias cvAlias, String aliasId ) { Synonym syn = new SynonymImpl(); syn.setText( cvAlias.getName() ); SynonymType synCat = new SynonymTypeImpl(); synCat.setID(aliasId); syn.setSynonymType( synCat ); syn.setScope( 1 ); return syn; }