@Test
public void testGetCriterionTypeFromQuery() {
Query query = new Query();
CompoundCriterion compoundCriterion1 = new CompoundCriterion();
CompoundCriterion compoundCriterion2 = new CompoundCriterion();
compoundCriterion1.getCriterionCollection().add(new GeneNameCriterion());
compoundCriterion1.getCriterionCollection().add(compoundCriterion2);
compoundCriterion2.getCriterionCollection().add(new SubjectListCriterion());
compoundCriterion2.getCriterionCollection().add(new SubjectListCriterion());
query.setCompoundCriterion(compoundCriterion1);
assertEquals(1, QueryUtil.getCriterionTypeFromQuery(query, GeneNameCriterion.class).size());
assertEquals(2, QueryUtil.getCriterionTypeFromQuery(query, SubjectListCriterion.class).size());
assertEquals(
0, QueryUtil.getCriterionTypeFromQuery(query, StringComparisonCriterion.class).size());
}
CriteriaGroup(QueryForm form) {
if (form.getQuery() == null || form.getQuery().getCompoundCriterion() == null) {
throw new IllegalArgumentException("Argument queryForm requires an initialized query.");
}
this.form = form;
this.compoundCriterion = form.getQuery().getCompoundCriterion();
initializeCriteria(
form.getQuery().getSubscription().getStudy(), compoundCriterion.getCriterionCollection());
}
@Test
public void testIsCompoundCriterionGenomic() {
CompoundCriterion compoundCriterion1 = new CompoundCriterion();
compoundCriterion1.setCriterionCollection(new HashSet<AbstractCriterion>());
CompoundCriterion compoundCriterion2 = new CompoundCriterion();
compoundCriterion2.setCriterionCollection(new HashSet<AbstractCriterion>());
compoundCriterion2.getCriterionCollection().add(new StringComparisonCriterion());
compoundCriterion2.getCriterionCollection().add(new StringComparisonCriterion());
compoundCriterion1.getCriterionCollection().add(compoundCriterion2);
assertFalse(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
assertFalse(QueryUtil.isCompoundCriterionCopyNumber(compoundCriterion1));
GeneNameCriterion geneNameCriterion = new GeneNameCriterion();
compoundCriterion1.getCriterionCollection().add(geneNameCriterion);
geneNameCriterion.setGenomicCriterionType(GenomicCriterionTypeEnum.GENE_EXPRESSION);
assertTrue(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
assertFalse(QueryUtil.isCompoundCriterionCopyNumber(compoundCriterion1));
geneNameCriterion.setGenomicCriterionType(GenomicCriterionTypeEnum.COPY_NUMBER);
assertFalse(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
assertTrue(QueryUtil.isCompoundCriterionCopyNumber(compoundCriterion1));
compoundCriterion1.setCriterionCollection(new HashSet<AbstractCriterion>());
compoundCriterion1.getCriterionCollection().add(compoundCriterion2);
compoundCriterion1.getCriterionCollection().add(new StringComparisonCriterion());
assertFalse(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
assertFalse(QueryUtil.isCompoundCriterionCopyNumber(compoundCriterion1));
compoundCriterion2.getCriterionCollection().add(new FoldChangeCriterion());
assertTrue(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
assertFalse(QueryUtil.isCompoundCriterionCopyNumber(compoundCriterion1));
compoundCriterion1 = new CompoundCriterion();
compoundCriterion1.setCriterionCollection(new HashSet<AbstractCriterion>());
compoundCriterion2 = new CompoundCriterion();
compoundCriterion2.setCriterionCollection(new HashSet<AbstractCriterion>());
compoundCriterion1.getCriterionCollection().add(compoundCriterion2);
compoundCriterion1.getCriterionCollection().add(new StringComparisonCriterion());
assertFalse(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
assertFalse(QueryUtil.isCompoundCriterionCopyNumber(compoundCriterion1));
compoundCriterion2.getCriterionCollection().add(new CopyNumberAlterationCriterion());
assertFalse(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
assertTrue(QueryUtil.isCompoundCriterionCopyNumber(compoundCriterion1));
compoundCriterion1 = new CompoundCriterion();
compoundCriterion2 = new CompoundCriterion();
CompoundCriterion compoundCriterion3 = new CompoundCriterion();
compoundCriterion1.getCriterionCollection().add(compoundCriterion2);
compoundCriterion1.getCriterionCollection().add(compoundCriterion3);
compoundCriterion2.getCriterionCollection().add(new StringComparisonCriterion());
compoundCriterion3.getCriterionCollection().add(geneNameCriterion);
geneNameCriterion.setGenomicCriterionType(GenomicCriterionTypeEnum.GENE_EXPRESSION);
assertTrue(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
compoundCriterion1 = new CompoundCriterion();
compoundCriterion1.setCriterionCollection(new HashSet<AbstractCriterion>());
compoundCriterion1.getCriterionCollection().add(new ExpressionLevelCriterion());
assertTrue(QueryUtil.isCompoundCriterionGeneExpression(compoundCriterion1));
}