@Test(expected = gov.nih.nci.caarray.services.external.v1_0.IncorrectEntityTypeException.class)
public void testGetDataSet_NonDataFile() throws Exception {
logForSilverCompatibility(TEST_NAME, "testGetDataSet_NonDataFile");
Class<?> c = gov.nih.nci.caarray.external.v1_0.vocabulary.Term.class;
assertFalse(c.isAssignableFrom(CaArrayFile.class));
DataSetRequest dataRequest = new DataSetRequest();
String dfid = "URN:LSID:" + c.getName() + ":1";
dataRequest.setDataFiles(Collections.singleton(new CaArrayEntityReference(dfid)));
String qtid = "URN:LSID:gov.nih.nci.caarray.external.v1_0.data.QuantitationType:1";
dataRequest.setQuantitationTypes(Collections.singleton(new CaArrayEntityReference(qtid)));
service.getDataSet(dataRequest);
fail("expected an IncorrectEntityTypeException");
}
@Test
public void testGetDataSet_Hybridizations1() throws Exception {
logForSilverCompatibility(TEST_NAME, "testGetDataSet_Hybridizations1");
DataSetRequest dataRequest = new DataSetRequest();
String hid =
"URN:LSID:caarray.nci.nih.gov:gov.nih.nci.caarray.external.v1_0.sample.Hybridization:1";
dataRequest.setHybridizations(Collections.singleton(new CaArrayEntityReference(hid)));
String qtid =
"URN:LSID:caarray.nci.nih.gov:gov.nih.nci.caarray.external.v1_0.data.QuantitationType:24";
dataRequest.setQuantitationTypes(Collections.singleton(new CaArrayEntityReference(qtid)));
DataSet ds = service.getDataSet(dataRequest);
List<HybridizationData> l = ds.getDatas();
assertEquals(1, l.size());
HybridizationData hd = l.get(0);
assertEquals(1, hd.getDataColumns().size());
assertEquals(qtid, hd.getDataColumns().get(0).getQuantitationType().getId());
String resultId = hd.getHybridization().getId();
assertEquals(hid, resultId);
}
@Test
public void testGetDataSet_checkRequest() throws Exception {
logForSilverCompatibility(TEST_NAME, "testGetDataSet_checkRequest");
logForSilverCompatibility(TEST_OUTPUT, "Null");
DataSetRequest dataRequest = null;
try {
service.getDataSet(dataRequest);
logForSilverCompatibility(TEST_OUTPUT, "unexpected validation outcome");
fail("Expected an InvalidInputException");
} catch (InvalidInputException e) {
logForSilverCompatibility(TEST_OUTPUT, "null validation :" + e);
}
logForSilverCompatibility(TEST_OUTPUT, "Empty");
dataRequest = new DataSetRequest();
try {
service.getDataSet(dataRequest);
logForSilverCompatibility(TEST_OUTPUT, "unexpected validation outcome");
fail("Expected an InvalidInputException");
} catch (InvalidInputException e) {
logForSilverCompatibility(TEST_OUTPUT, "validation :" + e);
}
logForSilverCompatibility(TEST_OUTPUT, "BadHib");
dataRequest = new DataSetRequest();
String qtid =
"URN:LSID:caarray.nci.nih.gov:gov.nih.nci.caarray.external.v1_0.data.QuantitationType:24";
dataRequest.setQuantitationTypes(Collections.singleton(new CaArrayEntityReference(qtid)));
try {
dataRequest.setHybridizations(Collections.singleton(new CaArrayEntityReference("foo hib")));
service.getDataSet(dataRequest);
logForSilverCompatibility(TEST_OUTPUT, "unexpected validation outcome");
fail("Expected an InvalidReferenceException");
} catch (InvalidReferenceException e) {
logForSilverCompatibility(TEST_OUTPUT, "validation :" + e);
}
logForSilverCompatibility(TEST_OUTPUT, "BadDataFiles");
dataRequest = new DataSetRequest();
dataRequest.setQuantitationTypes(Collections.singleton(new CaArrayEntityReference(qtid)));
try {
dataRequest.setDataFiles(Collections.singleton(new CaArrayEntityReference("foo df")));
service.getDataSet(dataRequest);
logForSilverCompatibility(TEST_OUTPUT, "unexpected validation outcome");
fail("Expected an InvalidReferenceException");
} catch (InvalidReferenceException e) {
logForSilverCompatibility(TEST_OUTPUT, "validation :" + e);
}
logForSilverCompatibility(TEST_OUTPUT, "BadQuantitationTypes");
dataRequest = new DataSetRequest();
String hid =
"URN:LSID:caarray.nci.nih.gov:gov.nih.nci.caarray.external.v1_0.sample.Hybridization:1";
dataRequest.setHybridizations(Collections.singleton(new CaArrayEntityReference(hid)));
try {
dataRequest.setQuantitationTypes(Collections.singleton(new CaArrayEntityReference("foo qt")));
service.getDataSet(dataRequest);
logForSilverCompatibility(TEST_OUTPUT, "unexpected validation outcome");
fail("Expected an InvalidReferenceException");
} catch (InvalidReferenceException e) {
logForSilverCompatibility(TEST_OUTPUT, "validation :" + e);
}
}
