def test_bad_positions(self):
with self.assertRaisesRegex(ValueError,
"Hit start position is negative"):
Alignment(self.domain, "A", "B", -1, 10)
with self.assertRaisesRegex(
ValueError, "Hit end position is not greater than the start"):
Alignment(self.domain, "A", "B", 10, 1)
def setUp(self):
self.domain = PFAMDomain(FeatureLocation(1, 6),
"description",
protein_start=3,
protein_end=5,
domain="p450",
identifier="PF00001",
tool="test")
self.alignment = Alignment(self.domain, "WLAD-QGAR", "WLaer.rGA", 10,
19)
class TestAlignment(unittest.TestCase):
def setUp(self):
self.domain = DummyPFAMDomain(domain="p450")
self.alignment = Alignment(self.domain, "WLAD-QGAR", "WLaer.rGA", 10,
19)
def test_get_signature(self):
assert self.alignment.get_signature([11, 13, 15]) == "WA-"
def test_bad_positions(self):
with self.assertRaisesRegex(ValueError,
"Hit start position is negative"):
Alignment(self.domain, "A", "B", -1, 10)
with self.assertRaisesRegex(
ValueError, "Hit end position is not greater than the start"):
Alignment(self.domain, "A", "B", 10, 1)
class TestAlignment(unittest.TestCase):
def setUp(self):
self.domain = PFAMDomain(FeatureLocation(1, 6),
"description",
protein_start=3,
protein_end=5,
domain="p450",
identifier="PF00001",
tool="test")
self.alignment = Alignment(self.domain, "WLAD-QGAR", "WLaer.rGA", 10,
19)
def test_get_signature(self):
assert self.alignment.get_signature([11, 13, 15]) == "WA-"
def test_bad_positions(self):
with self.assertRaisesRegex(ValueError,
"Hit start position is negative"):
Alignment(self.domain, "A", "B", -1, 10)
with self.assertRaisesRegex(
ValueError, "Hit end position is not greater than the start"):
Alignment(self.domain, "A", "B", 10, 1)
def setUp(self):
self.domain = DummyPFAMDomain(domain="p450")
self.alignment = Alignment(self.domain, "WLAD-QGAR", "WLaer.rGA", 10,
19)