def test_kr_stereo(self, mocked_get):
for char in string.ascii_uppercase:
mocked_get.return_value = [DummyAlignment("match", {102: char})]
pairings = analysis.pksi_kr_stereo(self.record)
if char == "D":
assert pairings == [("match", "KR domain putatively catalyzing D-configuration product formation")]
else:
assert pairings == [("match", "KR domain putatively catalyzing L-configuration product formation")]
def test_kr_stereo(self):
for char in string.ascii_uppercase:
mock("active_site_finder.common.ActiveSiteAnalysis.get_alignments",
returns=[DummyAlignment("match", {102: char})])
pairings = analysis.pksi_kr_stereo(self.record)
if char == "D":
assert pairings == [("match", "KR domain putatively catalyzing D-configuration product formation")]
else:
assert pairings == [("match", "KR domain putatively catalyzing L-configuration product formation")]
def test_KR_stereo(self):
mock("subprocessing.run_hmmpfam2",
returns=parse_hmmpfam_results("KR.output"))
results = analysis.pksi_kr_stereo(self.record)
expected = {
'PKS_KR1':
'KR domain putatively catalyzing D-configuration product formation',
'PKS_KR2':
'KR domain putatively catalyzing D-configuration product formation'
}
assert {dom.domain_id: message for dom, message in results} == expected