def test_init_monomers(self):
"""make_matches with only monomers should produce {(i,i):True}"""
m = make_matches('')
self.assertEqual(m, {})
m = make_matches('qaz')
self.assertEqual(m, {
('q', 'q'): True,
('a', 'a'): True,
('z', 'z'): True
})
def test_init_degen(self):
"""make_matches with only degen should work as expected"""
m = make_matches(None, None, {
'x': 'ab',
'y': 'bc',
'z': 'cd',
'n': 'bcd'
})
self.assertEqual(
m, {
('x', 'x'): False,
('x', 'y'): False,
('x', 'n'): False,
('y', 'x'): False,
('y', 'y'): False,
('y', 'z'): False,
('y', 'n'): False,
('z', 'y'): False,
('z', 'z'): False,
('z', 'n'): False,
('n', 'x'): False,
('n', 'y'): False,
('n', 'z'): False,
('n', 'n'): False
})
self.assertNotContains(m, ('x', 'z'))
def test_init_degen(self):
"""make_matches with only degen should work as expected"""
m = make_matches(None, None, {'x':'ab','y':'bc','z':'cd', 'n':'bcd'})
self.assertEqual(m, {('x','x'):False, ('x','y'):False, ('x','n'):False,
('y','x'):False, ('y','y'):False, ('y','z'):False, ('y','n'):False,
('z','y'):False, ('z','z'):False, ('z','n'):False, ('n','x'):False,
('n','y'):False, ('n','z'):False, ('n','n'):False})
self.assertNotContains(m, ('x','z'))
def test_init_gaps(self):
"""make_matches with only gaps should match all gaps to each other"""
m = make_matches('', '~!')
self.assertEqual(m, {
('~', '~'): True,
('!', '!'): True,
('!', '~'): True,
('~', '!'): True
})
def test_init_all(self):
"""make_matches with everything should produce correct dict"""
m = make_matches('ABC', ('-', '~'), {
'X': 'AB',
'Y': ('B', 'C'),
'N': list('ABC')
})
exp = {
('-', '-'): True,
('~', '~'): True,
('-', '~'): True,
('~', '-'): True,
('A', 'A'): True,
('B', 'B'): True,
('C', 'C'): True,
('A', 'X'): False,
('X', 'A'): False,
('B', 'X'): False,
('X', 'B'): False,
('B', 'Y'): False,
('Y', 'B'): False,
('C', 'Y'): False,
('Y', 'C'): False,
('A', 'N'): False,
('N', 'A'): False,
('B', 'N'): False,
('N', 'B'): False,
('C', 'N'): False,
('N', 'C'): False,
('X', 'X'): False,
('Y', 'Y'): False,
('N', 'N'): False,
('X', 'Y'): False,
('Y', 'X'): False,
('X', 'N'): False,
('N', 'X'): False,
('Y', 'N'): False,
('N', 'Y'): False,
}
self.assertEqual(m, exp)
def test_init_all(self):
"""make_matches with everything should produce correct dict"""
m = make_matches('ABC',('-','~'),{'X':'AB','Y':('B','C'),'N':list('ABC')})
exp = {
('-','-'):True,
('~','~'):True,
('-','~'):True,
('~','-'):True,
('A','A'):True,
('B','B'):True,
('C','C'):True,
('A','X'):False,
('X','A'):False,
('B','X'):False,
('X','B'):False,
('B','Y'):False,
('Y','B'):False,
('C','Y'):False,
('Y','C'):False,
('A','N'):False,
('N','A'):False,
('B','N'):False,
('N','B'):False,
('C','N'):False,
('N','C'):False,
('X','X'):False,
('Y','Y'):False,
('N','N'):False,
('X','Y'):False,
('Y','X'):False,
('X','N'):False,
('N','X'):False,
('Y','N'):False,
('N','Y'):False,
}
self.assertEqual(m, exp)
def test_init_empty(self):
"""make_matches should init ok with no parameters"""
self.assertEqual(make_matches(), {})
def test_init_gaps(self):
"""make_matches with only gaps should match all gaps to each other"""
m = make_matches('', '~!')
self.assertEqual(m, {('~','~'):True,('!','!'):True,('!','~'):True,
('~','!'):True})
def test_init_monomers(self):
"""make_matches with only monomers should produce {(i,i):True}"""
m = make_matches('')
self.assertEqual(m, {})
m = make_matches('qaz')
self.assertEqual(m, {('q','q'):True,('a','a'):True,('z','z'):True})
def test_init_empty(self):
"""make_matches should init ok with no parameters"""
self.assertEqual(make_matches(), {})
