Changeset 544

Timestamp:

08/05/12 02:17:56 (10 months ago)

Author:

tadamusiak

Message:

updating examples for consistency

Location:

trunk/ontoCAT/src/uk/ac/ebi/ontocat/examples

Files:

• Example1.java (modified) (1 diff)
• Example2.java (modified) (1 diff)
• Example3.java (modified) (2 diffs)

trunk/ontoCAT/src/uk/ac/ebi/ontocat/examples/Example1.java

@@ -45 +45 @@
                 }
 
-                // Find all terms containing string thymus
-                for (OntologyTerm ot : os.searchAll("thymus", SearchOptions.EXACT,
+                // Find all terms containing string adipocyte
+                // NB: OLS does not support searching properties in searchAll(), use
+                // searchOntology() instead
+                for (OntologyTerm ot : os.searchAll("adipocyte",
                                 SearchOptions.INCLUDE_PROPERTIES)) {
                         System.out.println(ot);

trunk/ontoCAT/src/uk/ac/ebi/ontocat/examples/Example2.java

@@ -49 +49 @@
                 }
 
-                // Find all terms containing string thymus
-                for (OntologyTerm ot : os.searchAll("thymus", SearchOptions.EXACT,
+                // Find all terms containing string adipocyte
+                for (OntologyTerm ot : os.searchAll("adipocyte",
                                 SearchOptions.INCLUDE_PROPERTIES)) {
                         System.out.println(ot);

trunk/ontoCAT/src/uk/ac/ebi/ontocat/examples/Example3.java

@@ -25 +25 @@
 import java.net.URISyntaxException;
 
+import uk.ac.ebi.ontocat.OntologyService.SearchOptions;
 import uk.ac.ebi.ontocat.OntologyServiceException;
 import uk.ac.ebi.ontocat.OntologyTerm;
@@ -36 +37 @@
  */
 public class Example3 {
-        public static void main(String[] args) throws OntologyServiceException, URISyntaxException {
+        public static void main(String[] args) throws OntologyServiceException,
+                        URISyntaxException {
                 // Instantiate a FileOntologyService
-                FileOntologyService os = new FileOntologyService(new URI("http://www.ebi.ac.uk/efo"), "EFO");
-                // Use a non-SKOS annotation for synonyms
-                os.setSynonymSlot("alternative_term");
+                FileOntologyService os = new FileOntologyService(new URI(
+                                "http://www.ebi.ac.uk/efo"), "EFO");
 
-                // Find all terms containing string thymus
-                for (OntologyTerm ot : os.searchAll("thymus")) {
+                // Find all terms containing string adipocyte
+                for (OntologyTerm ot : os.searchAll("adipocyte",
+                                SearchOptions.INCLUDE_PROPERTIES)) {
                         System.out.println(ot);
                 }