/**
* Test map synonymto preferred names.
*
* @throws LBException the LB exception
*/
public void testMapSynonymtoPreferredNames() throws LBException {
CodedNodeSet cns =
ServiceHolder.instance().getLexBIGService().getCodingSchemeConcepts(THES_SCHEME, null);
cns =
cns.restrictToMatchingDesignations(
"skeleton", SearchDesignationOption.ALL, "exactMatch", null);
ResolvedConceptReference[] rcr =
cns.resolveToList(null, null, null, 0).getResolvedConceptReference();
assertTrue(rcr.length == 2);
boolean found = false;
for (int i = 0; i < rcr.length; i++) {
if (rcr[i].getConceptCode().equals("C12788")) {
found = true;
assertTrue(rcr[i].getReferencedEntry().getPropertyCount() == 5);
assertTrue(
rcr[i]
.getReferencedEntry()
.getEntityDescription()
.getContent()
.equals("Skeletal System"));
}
}
assertTrue(found);
}
/**
* Test limit returned values.
*
* @throws LBException the LB exception
*/
public void testLimitReturnedValues() throws LBException {
CodedNodeSet cns =
ServiceHolder.instance().getLexBIGService().getCodingSchemeConcepts(THES_SCHEME, null);
cns =
cns.restrictToMatchingDesignations(
"heaart", SearchDesignationOption.ALL, "DoubleMetaphoneLuceneQuery", null);
ResolvedConceptReference[] rcr =
cns.resolveToList(null, null, null, 1).getResolvedConceptReference();
assertTrue(rcr.length == 1);
}
public void testNextInt() {
try {
LexBIGService lbs = ServiceHolder.instance().getLexBIGService();
CodedNodeSet cns = lbs.getCodingSchemeConcepts("NCI Thesaurus", null);
cns = cns.restrictToMatchingDesignations("heart", null, "startsWith", null);
ResolvedConceptReferencesIterator rcrl = cns.resolve(null, null, null, null, false);
ResolvedConceptReferenceList list1 = rcrl.next(10);
ResolvedConceptReferenceList list2 = rcrl.next(10);
assertFalse(compareResolvedConceptReferenceList(list1, list2));
} catch (Exception e) {
fail("Exception Thrown: " + e.getMessage());
e.printStackTrace();
}
}
/**
* Testfor current or obsolete conceptb.
*
* @throws LBException the LB exception
*/
public void testforCurrentOrObsoleteConceptb() throws LBException {
// same as above, but this time, using the new methods (that aren't deprecated)
CodedNodeSet cns =
ServiceHolder.instance().getLexBIGService().getCodingSchemeConcepts(THES_SCHEME, null);
cns = cns.restrictToStatus(ActiveOption.ACTIVE_ONLY, null);
cns =
cns.restrictToCodes(
Constructors.createConceptReferenceList(new String[] {"C38389"}, THES_SCHEME));
ResolvedConceptReference[] rcr =
cns.resolveToList(null, null, null, 0).getResolvedConceptReference();
assertTrue("1", rcr.length == 0);
cns = ServiceHolder.instance().getLexBIGService().getCodingSchemeConcepts(THES_SCHEME, null);
cns = cns.restrictToStatus(ActiveOption.ALL, null);
cns =
cns.restrictToCodes(
Constructors.createConceptReferenceList(new String[] {"C38389"}, THES_SCHEME));
rcr = cns.resolveToList(null, null, null, 0).getResolvedConceptReference();
assertTrue("2", rcr.length == 1);
// same test again - no status restriction
cns = ServiceHolder.instance().getLexBIGService().getCodingSchemeConcepts(THES_SCHEME, null);
cns =
cns.restrictToCodes(
Constructors.createConceptReferenceList(new String[] {"C38389"}, THES_SCHEME));
rcr = cns.resolveToList(null, null, null, 0).getResolvedConceptReference();
assertTrue("3", rcr.length == 1);
// add a status restriction
cns = ServiceHolder.instance().getLexBIGService().getCodingSchemeConcepts(THES_SCHEME, null);
cns =
cns.restrictToMatchingDesignations(
"Sex Not Known", SearchDesignationOption.ALL, "exactMatch", null);
cns = cns.restrictToStatus(ActiveOption.INACTIVE_ONLY, null);
rcr = cns.resolveToList(null, null, null, 0).getResolvedConceptReference();
assertTrue("4", rcr.length == 1);
assertFalse("6", rcr[0].getReferencedEntry().getIsActive().booleanValue());
}
public void testNext() {
try {
LexBIGService lbs = ServiceHolder.instance().getLexBIGService();
CodedNodeSet cns = lbs.getCodingSchemeConcepts("NCI Thesaurus", null);
cns = cns.restrictToMatchingDesignations("heart", null, "startsWith", null);
ResolvedConceptReferencesIterator rcrl = cns.resolve(null, null, null, null, false);
String conceptCode = null;
while (rcrl.hasNext()) {
ResolvedConceptReference ref = rcrl.next();
String currentCode = ref.getConceptCode();
assertFalse(currentCode.equals(conceptCode));
conceptCode = currentCode;
}
} catch (Exception e) {
fail("Exception Thrown: " + e.getMessage());
e.printStackTrace();
}
}
public void testT1_FNC_17() throws LBException {
CodedNodeSet cns =
ServiceHolder.instance().getLexBIGService().getCodingSchemeConcepts(THES_SCHEME, null);
cns =
cns.restrictToMatchingDesignations(
"heaart", SearchDesignationOption.ALL, "DoubleMetaphoneLuceneQuery", null);
ResolvedConceptReference[] rcr =
cns.resolveToList(null, null, null, 0).getResolvedConceptReference();
// should have found the concept code C48589 - "Base of the Heart"
boolean found = false;
for (int i = 0; i < rcr.length; i++) {
if (rcr[i].getConceptCode().equals("Base_of_the_Heart")) {
found = true;
}
}
assertTrue(found);
}
private static ResolvedConceptReferenceList searchPrefTerm(
LexEVSApplicationService evsService,
String dtsVocab,
String prefName,
int sMetaLimit,
String algorithm) {
ResolvedConceptReferenceList concepts = new ResolvedConceptReferenceList();
int codesSize = 0;
try {
CodedNodeSet metaNodes = evsService.getNodeSet(dtsVocab, null, null);
metaNodes =
metaNodes.restrictToMatchingDesignations(
prefName, // the text to match
CodedNodeSet.SearchDesignationOption
.ALL, // whether to search all designation, only Preferred or only Non-Preferred
algorithm, // the match algorithm to use
null); // the language to match (null matches all)
metaNodes = metaNodes.restrictToStatus(ActiveOption.ACTIVE_ONLY, null);
concepts =
metaNodes.resolveToList(
null, // Sorts used to sort results (null means sort by match score)
null, // PropertyNames to resolve (null resolves all)
new CodedNodeSet.PropertyType[] {
PropertyType.DEFINITION, PropertyType.PRESENTATION
}, // PropertyTypess to resolve (null resolves all)
sMetaLimit // cap the number of results returned (-1 resolves all)
);
codesSize = concepts.getResolvedConceptReferenceCount();
} catch (Exception ex) {
// ex.printStackTrace();
System.out.println("Error do_EVSSearch DescLogic: " + ex.toString());
}
return concepts;
}
public static String getEVSCode(String prefName, String dtsVocab) {
LexEVSApplicationService evsService = null;
try {
evsService =
(LexEVSApplicationService)
ApplicationServiceProvider.getApplicationService("EvsServiceInfo");
} catch (Exception e) {
throw new RuntimeException(e);
}
if (dtsVocab == null) dtsVocab = "";
String CCode = "";
if (dtsVocab.equals("Thesaurus/Metathesaurus")
|| dtsVocab.equals("")
|| dtsVocab.equals("NCI Thesaurus")
|| dtsVocab.equals("NCI_Thesaurus")) dtsVocab = "NCI_Thesaurus";
ResolvedConceptReferenceList codes2 = null;
int codesSize = 0;
try {
CodedNodeSet metaNodes = evsService.getNodeSet("NCI MetaThesaurus", null, null);
metaNodes =
metaNodes.restrictToMatchingDesignations(
prefName, // the text to match
CodedNodeSet.SearchDesignationOption
.PREFERRED_ONLY, // whether to search all designation, only Preferred or only
// Non-Preferred
"exactMatch", // the match algorithm to use
null); // the language to match (null matches all)
metaNodes = metaNodes.restrictToStatus(ActiveOption.ACTIVE_ONLY, null);
codes2 =
metaNodes.resolveToList(
null, // Sorts used to sort results (null means sort by match score)
null, // PropertyNames to resolve (null resolves all)
new CodedNodeSet.PropertyType[] {
PropertyType.DEFINITION, PropertyType.PRESENTATION
}, // PropertyTypess to resolve (null resolves all) //PropertyTypess to resolve (null
// resolves all)
10 // cap the number of results returned (-1 resolves all)
);
codesSize = codes2.getResolvedConceptReferenceCount();
} catch (Exception ex) {
System.err.println("Error do_getEVSCode:resolveToList: " + ex.toString());
ex.printStackTrace();
}
if (codes2 != null) {
ResolvedConceptReference conceptReference = new ResolvedConceptReference();
// logger.debug("Got "+codesSize+" results for the do_getEVSCode search using prefName and
// exactMatch");
for (int i = 0; i < codesSize; i++) {
conceptReference = (ResolvedConceptReference) codes2.getResolvedConceptReference(i);
CCode = (String) conceptReference.getConceptCode();
}
}
evsService = null;
return CCode;
}