Python calculate_conserved_dna Examples

Example #1

def test_calculate_conserved_dna_unvalid(test_fragment_matches):
    #  check conDNA for *unvalid* test fragment matches
    test_fragment_matches = test_fragment_matches[2:]
    conserved_dna = ra.calculate_conserved_dna(
        {k['id']: k
         for k in test_fragment_matches}, test_fragment_matches)
    expected_conserved_dna = 0.0
    assert conserved_dna == expected_conserved_dna

Example #2

def test_calculate_conserved_dna_valid(test_fragment_matches):
    #  check conDNA for *valid* test fragment matches
    test_fragment_matches = test_fragment_matches[0:2]
    conserved_dna = ra.calculate_conserved_dna(
        {k['id']: k
         for k in test_fragment_matches}, test_fragment_matches)
    expected_conserved_dna = sum(
        map(lambda k: k['alignment_length'], test_fragment_matches)) / sum(
            map(lambda k: k['length'], test_fragment_matches))
    assert conserved_dna == expected_conserved_dna

Example #3

def test_calculate_conserved_dna_empty():
    #  check conDNA for empty test fragment matches
    conserved_dna = ra.calculate_conserved_dna({}, [])
    expected_conserved_dna = 0.0
    assert conserved_dna == expected_conserved_dna