def test_json(self):
component = Component(DummyHMMResult(PKS_START), subtype=TRANS_AT_SUBTYPE)
intermediate = component.to_json()
new = Component.from_json(json.loads(json.dumps(intermediate)))
assert new.to_json() == intermediate
assert new.domain == component.domain
assert new.subtype == TRANS_AT_SUBTYPE
assert new.classification == component.classification
def test_construction(self):
domain = DummyHMMResult("ACP")
component = Component(domain)
assert component.domain == domain
assert component.label == domain.hit_id
assert component.subtype == ""
assert component.classification == "CP"
domain._hit_id = PKS_START
component = Component(domain, "some-subtype")
assert component.subtype == "some-subtype"
assert component.classification == "KS"
def test_loader(self):
for cond in [PKS_LOAD, "AMP-binding", "A-OX"]:
assert Component(DummyHMMResult(cond)).is_loader()
assert not Component(DummyHMMResult(NRPS_START)).is_loader()
def test_condensation(self):
for cond in CLASSIFICATIONS["C"]:
assert Component(DummyHMMResult(cond)).is_condensation()
assert not Component(DummyHMMResult(NRPS_LOAD)).is_condensation()
def test_unknown_component_type(self):
component = Component(DummyHMMResult(NRPS_LOAD))
component._domain._hit_id = "unclassifiable"
component.classification = "unclassifiable"
with self.assertRaisesRegex(ValueError, "unhandled"):
Module().add_component(component)
def add_component(module, name, sub="", start=1, end=10):
module.add_component(Component(DummyHMMResult(name, start, end), sub))