/** Ensures that boundaries can be determined correctly based on lower and upper limits. */
@Test
public void insideBoundary() {
CopyNumberAlterationCriterion criterion = new CopyNumberAlterationCriterion();
CopyNumberAlterationCriterionHandler handler =
CopyNumberAlterationCriterionHandler.create(criterion);
criterion.setLowerLimit(2f);
criterion.setUpperLimit(1f);
assertFalse(criterion.isInsideBoundaryType());
assertEquals(
GenomicCriteriaMatchTypeEnum.MATCH_POSITIVE_OR_NEGATIVE,
handler.getSegmentValueMatchCriterionType(2f));
criterion.setLowerLimit(1f);
criterion.setUpperLimit(2f);
assertTrue(criterion.isInsideBoundaryType());
assertEquals(
GenomicCriteriaMatchTypeEnum.NO_MATCH, handler.getSegmentValueMatchCriterionType(3f));
criterion.setLowerLimit(3f);
criterion.setUpperLimit(1f);
assertFalse(criterion.isInsideBoundaryType());
assertEquals(
GenomicCriteriaMatchTypeEnum.MATCH_POSITIVE_OR_NEGATIVE,
handler.getSegmentValueMatchCriterionType(4f));
}
/** Tests for various segment value match criterion. */
@Test
public void matchCriterion() {
CopyNumberAlterationCriterion criterion = new CopyNumberAlterationCriterion();
CopyNumberAlterationCriterionHandler handler =
CopyNumberAlterationCriterionHandler.create(criterion);
assertEquals(
GenomicCriteriaMatchTypeEnum.MATCH_POSITIVE_OR_NEGATIVE,
handler.getSegmentValueMatchCriterionType(2f));
criterion.setLowerLimit(1f);
assertEquals(
GenomicCriteriaMatchTypeEnum.MATCH_POSITIVE_OR_NEGATIVE,
handler.getSegmentValueMatchCriterionType(2f));
assertEquals(
GenomicCriteriaMatchTypeEnum.NO_MATCH, handler.getSegmentValueMatchCriterionType(0f));
criterion.setLowerLimit(null);
criterion.setUpperLimit(4f);
assertEquals(
GenomicCriteriaMatchTypeEnum.MATCH_POSITIVE_OR_NEGATIVE,
handler.getSegmentValueMatchCriterionType(4f));
assertEquals(
GenomicCriteriaMatchTypeEnum.NO_MATCH, handler.getSegmentValueMatchCriterionType(5f));
criterion.setLowerLimit(2f);
assertEquals(
GenomicCriteriaMatchTypeEnum.MATCH_POSITIVE_OR_NEGATIVE,
handler.getSegmentValueMatchCriterionType(2f));
assertEquals(
GenomicCriteriaMatchTypeEnum.NO_MATCH, handler.getSegmentValueMatchCriterionType(1f));
assertEquals(
GenomicCriteriaMatchTypeEnum.NO_MATCH, handler.getSegmentValueMatchCriterionType(5f));
}
