def test_distance_matrix_one(self):
counts = utils.counts(utils.SEQUENCES, 8)
profiles = [klib.Profile(utils.as_array(counts, 8), 'a')]
k_dist = kdistlib.ProfileDistance()
out = StringIO()
kdistlib.distance_matrix(profiles, out, 2, k_dist)
assert out.getvalue().strip().split('\n') == ['1', 'a']
def test_distance_matrix_one(self):
counts = utils.counts(utils.SEQUENCES, 8)
profiles = [klib.Profile(utils.as_array(counts, 8), 'a')]
k_dist = kdistlib.ProfileDistance()
out = StringIO()
kdistlib.distance_matrix(profiles, out, 2, k_dist)
assert out.getvalue().strip().split('\n') == ['1', 'a']
def test_distance_matrix_two(self):
counts_left = utils.counts(utils.SEQUENCES_LEFT, 8)
counts_right = utils.counts(utils.SEQUENCES_RIGHT, 8)
profiles = [klib.Profile(utils.as_array(counts_left, 8), 'a'),
klib.Profile(utils.as_array(counts_right, 8), 'b')]
k_dist = kdistlib.ProfileDistance()
out = StringIO()
kdistlib.distance_matrix(profiles, out, 2, k_dist)
assert out.getvalue().strip().split('\n') == ['2', 'a', 'b', '0.46']
def test_distance_matrix_two(self):
counts_left = utils.counts(utils.SEQUENCES_LEFT, 8)
counts_right = utils.counts(utils.SEQUENCES_RIGHT, 8)
profiles = [
klib.Profile(utils.as_array(counts_left, 8), 'a'),
klib.Profile(utils.as_array(counts_right, 8), 'b')
]
k_dist = kdistlib.ProfileDistance()
out = StringIO()
kdistlib.distance_matrix(profiles, out, 2, k_dist)
assert out.getvalue().strip().split('\n') == ['2', 'a', 'b', '0.46']
