def test_Alignment_assertions(self):
a = psw.Alignment()
self.assertRaises(AssertionError, a.append, psw.ColumnUnit(1, 200, "SEQUENCE"))
a.append(psw.ColumnUnit(0, 98, "SEQUENCE"))
self.assertRaises(AssertionError, a.append, psw.ColumnUnit(0, 200, "SEQUENCE"))
a.append(psw.ColumnUnit(1, 200, "SEQUENCE"))
self.assertRaises(AssertionError, a.append, psw.ColumnUnit(1, 200, "SEQUENCE"))
def test_ColumnUnit(self):
self.assertEqual(repr(psw.ColumnUnit(0, 33, "SEQUENCE")),
"ColumnUnit(unit=0, column=33, SEQUENCE)")
self.assertEqual(repr(psw.ColumnUnit(1, 33, "INSERT")),
"ColumnUnit(unit=1, column=33, INSERT)")
self.assertEqual(repr(psw.ColumnUnit(1, 33, "END")),
"ColumnUnit(unit=1, column=33, END)")
def test_ColumnUnit(self):
self.assertEqual(repr(psw.ColumnUnit(0, 33, "SEQUENCE")),
"ColumnUnit(unit=0, column=33, kind='SEQUENCE')")
self.assertEqual(repr(psw.ColumnUnit(1, 33, "INSERT")),
"ColumnUnit(unit=1, column=33, kind='INSERT')")
self.assertEqual(repr(psw.ColumnUnit(1, 33, "END")),
"ColumnUnit(unit=1, column=33, kind='END')")
def test_AlignmentColumn_assertions(self):
self.assertRaises(
AssertionError, psw.AlignmentColumn,
psw.ColumnUnit(1, random.randint(0, 9999), "SEQUENCE"))
ac = psw.AlignmentColumn(
psw.ColumnUnit(0, random.randint(0, 9999), "SEQUENCE"))
self.assertRaises(
AssertionError, ac.append,
psw.ColumnUnit(0, random.randint(0, 9999), "SEQUENCE"))
def test_AlignmentColumn_kinds(self):
ac = psw.AlignmentColumn(psw.ColumnUnit(0, random.randint(0, 9999), "SEQUENCE"))
ac.append(psw.ColumnUnit(1, random.randint(0, 9999), "INSERT"))
self.assertEqual(ac.kind, "INSERT")
ac = psw.AlignmentColumn(psw.ColumnUnit(0, random.randint(0, 9999), "INSERT"))
ac.append(psw.ColumnUnit(1, random.randint(0, 9999), "SEQUENCE"))
self.assertEqual(ac.kind, "INSERT")
ac = psw.AlignmentColumn(psw.ColumnUnit(0, random.randint(0, 9999), "SEQUENCE"))
ac.append(psw.ColumnUnit(1, random.randint(0, 9999), "SEQUENCE"))
self.assertEqual(ac.kind, "SEQUENCE")
ac = psw.AlignmentColumn(psw.ColumnUnit(0, random.randint(0, 9999), "SEQUENCE"))
ac.append(psw.ColumnUnit(1, random.randint(0, 9999), "END"))
self.assertEqual(ac.kind, "END")
def test_Alignment_normal(self):
a = psw.Alignment()
a.append(psw.ColumnUnit(0, 98, "SEQUENCE"))
a.append(psw.ColumnUnit(1, 200, "SEQUENCE"))
a.append(psw.ColumnUnit(0, 98, "INSERT"))
a.append(psw.ColumnUnit(1, 201, "SEQUENCE"))
a.append(psw.ColumnUnit(0, 98, "END"))
a.append(psw.ColumnUnit(1, 201, "END"))
self.assertEqual(str(a), "[SEQUENCE(98, 200), INSERT(98, 201), END(98, 201)]")
def test_AlignmentColumn_full(self):
ac = psw.AlignmentColumn(
psw.ColumnUnit(0, random.randint(0, 9999), "SEQUENCE"))
ac.append(psw.ColumnUnit(1, random.randint(0, 9999), "END"))
self.assertRaises(psw.AlignmentColumnFullException, ac.append,
psw.ColumnUnit(1, random.randint(0, 9999), "END"))
def test_AlignmentColumn_repr(self):
ac = psw.AlignmentColumn(psw.ColumnUnit(0, 34, "SEQUENCE"))
ac.append(psw.ColumnUnit(1, 55, "END"))
self.assertEqual(repr(ac), "END(34, 55)")
