Changeset 558 for trunk/grails-app/domain/dbnp/data/Ontology.groovy

Timestamp:

Jun 11, 2010, 4:00:10 PM (13 years ago)

Author:

roberth

Message:

Improved template editor , stringlists and ontologyfields can be edited and extra checks are built in.

File:

• trunk/grails-app/domain/dbnp/data/Ontology.groovy (modified) (1 diff)

trunk/grails-app/domain/dbnp/data/Ontology.groovy

@@ -57 +57 @@
                 );
         }
+
+        static Ontology getBioPortalOntologyByTerm(String termId) {
+                // Get ontology from BioPortal via Ontocat
+                // TODO: maybe make a static OntologyService instance to be more efficient, and decorate it with caching?
+                uk.ac.ebi.ontocat.OntologyService os = new uk.ac.ebi.ontocat.bioportal.BioportalOntologyService()
+                uk.ac.ebi.ontocat.OntologyTerm term = os.getTerm( termId );
+                println( term );
+                uk.ac.ebi.ontocat.Ontology o = os.getOntology( term.getOntologyAccession() );
+                println( o );
+
+                // Instantiate and return Ontology object
+                new dbnp.data.Ontology(
+                        name: o.label,
+                        description: o.description,
+                        url: o.properties['homepage'] ?: "http://bioportal.bioontology.org/ontologies/${o.id}",
+                        versionNumber: o.versionNumber,
+                        ncboId: o.ontologyAccession,
+                        ncboVersionedId: o.id
+                );
+        }
 }