def test_pair_members_to_new_node(self):
self.assertEqual(_pair_members_to_new_node(self.dm1, 'a', 'b', True),
(2, 3))
self.assertEqual(_pair_members_to_new_node(self.dm1, 'a', 'c', True),
(4, 5))
self.assertEqual(_pair_members_to_new_node(self.dm1, 'd', 'e', True),
(2, 1))
def test_pair_members_to_new_node(self):
self.assertEqual(_pair_members_to_new_node(self.dm1, 'a', 'b', True),
(2, 3))
self.assertEqual(_pair_members_to_new_node(self.dm1, 'a', 'c', True),
(4, 5))
self.assertEqual(_pair_members_to_new_node(self.dm1, 'd', 'e', True),
(2, 1))
def test_pair_members_to_new_node_zero_branch_length(self):
# the values in this example don't really make sense
# (I'm not sure how you end up with these distances between
# three sequences), but that doesn't really matter for the sake
# of this test
data = [[0, 4, 2], [4, 0, 38], [2, 38, 0]]
ids = ['a', 'b', 'c']
dm = DistanceMatrix(data, ids)
self.assertEqual(_pair_members_to_new_node(dm, 'a', 'b', True), (0, 4))
# this makes it clear why negative branch lengths don't make sense...
self.assertEqual(_pair_members_to_new_node(dm, 'a', 'b', False),
(-16, 20))
def test_pair_members_to_new_node_zero_branch_length(self):
# the values in this example don't really make sense
# (I'm not sure how you end up with these distances between
# three sequences), but that doesn't really matter for the sake
# of this test
data = [[0, 4, 2],
[4, 0, 38],
[2, 38, 0]]
ids = ['a', 'b', 'c']
dm = DistanceMatrix(data, ids)
self.assertEqual(_pair_members_to_new_node(dm, 'a', 'b', True), (0, 4))
# this makes it clear why negative branch lengths don't make sense...
self.assertEqual(
_pair_members_to_new_node(dm, 'a', 'b', False), (-16, 20))
