Ejemplo n.º 1
0
  @Test(dataProvider = "ploidyData")
  public void testFirst(final int ploidy) {
    final GenotypeAlleleCounts subject = GenotypeAlleleCounts.first(ploidy);
    Assert.assertNotNull(subject);
    Assert.assertEquals(subject.ploidy(), ploidy);
    Assert.assertEquals(subject.distinctAlleleCount(), 1);
    Assert.assertEquals(subject.alleleCountAt(0), ploidy);
    Assert.assertEquals(subject.alleleCountFor(0), ploidy);
    Assert.assertEquals(subject.alleleRankFor(0), 0);
    Assert.assertEquals(subject.alleleRankFor(1), -2);
    Assert.assertTrue(subject.containsAllele(0));
    Assert.assertFalse(subject.containsAllele(1));
    Assert.assertEquals(subject.alleleIndexAt(0), 0);
    Assert.assertEquals(subject.maximumAlleleIndex(), 0);
    Assert.assertEquals(subject.minimumAlleleIndex(), 0);
    Assert.assertTrue(subject.compareTo(subject) == 0);
    Assert.assertTrue(subject.equals(subject));
    Assert.assertEquals(subject.index(), 0);
    Assert.assertEquals(
        subject.asAlleleList(testAlleles), Collections.nCopies(ploidy, testAlleles.get(0)));
    for (int maximumAlleleIndex = 0;
        maximumAlleleIndex <= MAXIMUM_ALLELE_INDEX;
        maximumAlleleIndex++) {
      final int[] expected = new int[maximumAlleleIndex + 1];
      expected[0] = ploidy;
      Assert.assertEquals(subject.alleleCountsByIndex(maximumAlleleIndex), expected);
    }

    Assert.assertNotNull(subject.toString());
    Assert.assertEquals(
        subject.toUnphasedGenotypeString(),
        ploidy == 1 ? "0" : Strings.repeat("0/", ploidy - 1) + "0");
  }