def test_mixed(self):
c = [(CIGAR.EQ, 1), (CIGAR.I, 2), (CIGAR.D, 1), (CIGAR.I, 2),
(CIGAR.D, 1), (CIGAR.EQ, 2)]
exp = [(CIGAR.EQ, 1), (CIGAR.I, 4), (CIGAR.D, 2), (CIGAR.EQ, 2)]
self.assertEqual(exp, _cigar.merge_indels(c))
def test_del_before_ins(self):
c = [(CIGAR.EQ, 1), (CIGAR.D, 1), (CIGAR.I, 2), (CIGAR.EQ, 2)]
exp = [(CIGAR.EQ, 1), (CIGAR.I, 2), (CIGAR.D, 1), (CIGAR.EQ, 2)]
self.assertEqual(exp, _cigar.merge_indels(c))
def test_ins_before_del(self):
exp = [(CIGAR.EQ, 1), (CIGAR.I, 2), (CIGAR.D, 1), (CIGAR.EQ, 2)]
self.assertEqual(exp, _cigar.merge_indels(exp))
def test_no_events(self):
c = [(CIGAR.EQ, 1)]
self.assertEqual(c, _cigar.merge_indels(c))
c = [(CIGAR.EQ, 1), (CIGAR.X, 3), (CIGAR.EQ, 10)]
self.assertEqual(c, _cigar.merge_indels(c))
def test_mixed(self):
c = [(CIGAR.EQ, 1), (CIGAR.I, 2), (CIGAR.D, 1), (CIGAR.I, 2), (CIGAR.D, 1), (CIGAR.EQ, 2)]
exp = [(CIGAR.EQ, 1), (CIGAR.I, 4), (CIGAR.D, 2), (CIGAR.EQ, 2)]
assert _cigar.merge_indels(c) == exp
def test_ins_before_del(self):
exp = [(CIGAR.EQ, 1), (CIGAR.I, 2), (CIGAR.D, 1), (CIGAR.EQ, 2)]
assert _cigar.merge_indels(exp) == exp
def test_del_before_ins(self):
c = [(CIGAR.EQ, 1), (CIGAR.D, 1), (CIGAR.I, 2), (CIGAR.EQ, 2)]
exp = [(CIGAR.EQ, 1), (CIGAR.I, 2), (CIGAR.D, 1), (CIGAR.EQ, 2)]
assert _cigar.merge_indels(c) == exp
def test_no_events(self):
c = [(CIGAR.EQ, 1)]
assert _cigar.merge_indels(c) == c
c = [(CIGAR.EQ, 1), (CIGAR.X, 3), (CIGAR.EQ, 10)]
assert _cigar.merge_indels(c) == c