How to use

getName

method

in

uk.ac.ebi.intact.bridges.ontologies.term.OntologyTerm

protected void enrichOrganism(String fieldName, String facetField, SolrInputDocument solrDocument, OntologyTerm ontologyTerm) {
  // name
  solrDocument.addField ( fieldName, ontologyTerm.getName( ) ) ;
  // synonyms
  for ( OntologyTerm synonym : ontologyTerm.getSynonyms ( ) ) {
    solrDocument.addField ( fieldName, synonym.getName() ) ;
  }
  // taxid
  solrDocument.addField ( fieldName, ontologyTerm.getId() ) ;
  // facet field
  if (facetField != null){
    solrDocument.addField(facetField, ontologyTerm.getName());
  }
}

private Field convertTermToField(String type, OntologyTerm term) {
  return new Field( type, term.getId(), term.getName() );
}

private Field convertTermToField(String type, OntologyTerm term) {
  Field field = new DefaultField( );
  field.set(CalimochoKeys.DB, type);
  field.set(CalimochoKeys.VALUE, term.getId());
  field.set(CalimochoKeys.TEXT, term.getName());
  return field;
}

public void enrich(Field field) throws SolrServerException {
  String db = field.get(CalimochoKeys.DB);
  if (fieldEnricher.isExpandableOntology(db)) {
    String id = field.get(CalimochoKeys.VALUE);
    OntologyTerm ontologyTerm = fieldEnricher.findOntologyTerm(id, null);
    field.set(CalimochoKeys.TEXT, ontologyTerm.getName());
  }
}

public void enrich(CrossReference xref) throws SolrServerException {
  if (fieldEnricher.isExpandableOntology(xref.getDatabase())) {
    String id = xref.getIdentifier();
    OntologyTerm ontologyTerm = fieldEnricher.findOntologyTerm(id, null);
    xref.setText(ontologyTerm.getName());
  }
}

public void enrich(CrossReference xref) throws SolrServerException {
  if (fieldEnricher.isExpandableOntology(xref.getDatabase())) {
    String id = xref.getIdentifier();
    OntologyTerm ontologyTerm = fieldEnricher.findOntologyTerm(id, null);
    xref.setText(ontologyTerm.getName());
  }
}

solrDocument.addField ( xrefFieldExact, ontologyTerm_aux.getName ( ) ) ;
solrDocument.addField ( xrefFieldName, ontologyTerm_aux.getName ( ) ) ;
for ( OntologyTerm synonym : ontologyTerm_aux.getSynonyms ( ) ) {
  solrDocument.addField ( xrefFieldExact, synonym.getName ( ) ) ;
  solrDocument.addField ( xrefFieldName, synonym.getName ( ) ) ;
  solrDocument.addField ( xrefFieldName, parent.getName ( ) ) ;
  for ( OntologyTerm synonym : parent.getSynonyms ( ) ) {
    solrDocument.addField ( xrefFieldName, synonym.getName ( ) ) ;

public void enrichOrganism(Interaction interaction, SolrInputDocument solrDocument) throws SolrServerException {
  // retrieve the ontology term for this interaction (using BioSource)
  final OntologyTerm ontologyTerm = findOrganism(interaction) ;
  // add name, all synonyms and tax id to complex_organism
  if ( ontologyTerm != null ) {
    // enrich exact organism
    enrichOrganism(ComplexFieldNames.COMPLEX_ORGANISM_EXACT, null, solrDocument, ontologyTerm);
    // enrich organism for query
    enrichOrganism(ComplexFieldNames.COMPLEX_ORGANISM, ComplexFieldNames.COMPLEX_ORGANISM_F, solrDocument, ontologyTerm);
    // sort field
    solrDocument.addField(ComplexFieldNames.COMPLEX_ORGANISM_SORT, ontologyTerm.getId());
    // stored field to retrieve from the index
    solrDocument.addField(ComplexFieldNames.ORGANISM_NAME, ontologyTerm.getName()+"; "+ontologyTerm.getId());
    // add parents to complex_organism_ontology
    for ( OntologyTerm parent : ontologyTerm.getAllParentsToRoot ( true ) ) {
      enrichOrganism(ComplexFieldNames.COMPLEX_ORGANISM, null, solrDocument, parent);
    }
  }
}