def test_gpa_iterator(self):
"""Test GOA GPA file iterator."""
recs = []
with open("UniProt/goa_yeast.gpa.59.gpa") as handle:
for rec in GOA.gpa_iterator(handle):
recs.append(rec)
self.assertEqual(len(recs), 300)
self.assertEqual(sorted(recs[0].keys()), sorted(GOA.GPA11FIELDS))
# Check values of first record
self.assertEqual(recs[0]["DB"], "UniProtKB")
self.assertEqual(recs[0]["DB_Object_ID"], "A0A023PXA5")
self.assertEqual(recs[0]["Qualifier"], ["enables"])
self.assertEqual(recs[0]["GO_ID"], "GO:0003674")
self.assertEqual(recs[0]["DB:Reference"], ["GO_REF:0000015"])
self.assertEqual(recs[0]["ECO_Evidence_code"], "ECO:0000307")
self.assertEqual(recs[0]["With"], [""])
self.assertEqual(recs[0]["Interacting_taxon_ID"], "")
self.assertEqual(recs[0]["Date"], "20030730")
self.assertEqual(recs[0]["Assigned_by"], "SGD")
self.assertEqual(recs[0]["Annotation Extension"], [""])
self.assertEqual(recs[0]["Annotation_Properties"], "go_evidence=ND")
def test_gpa_iterator(self):
"""Test GOA GPA file iterator."""
recs = []
with open('UniProt/goa_yeast.gpa.59.gpa', 'r') as handle:
for rec in GOA.gpa_iterator(handle):
recs.append(rec)
self.assertEqual(len(recs), 300)
self.assertEqual(sorted(recs[0].keys()), sorted(GOA.GPA11FIELDS))
# Check values of first record
self.assertEqual(recs[0]['DB'], 'UniProtKB')
self.assertEqual(recs[0]['DB_Object_ID'], 'A0A023PXA5')
self.assertEqual(recs[0]['Qualifier'], ['enables'])
self.assertEqual(recs[0]['GO_ID'], 'GO:0003674')
self.assertEqual(recs[0]['DB:Reference'], ['GO_REF:0000015'])
self.assertEqual(recs[0]['ECO_Evidence_code'], 'ECO:0000307')
self.assertEqual(recs[0]['With'], [''])
self.assertEqual(recs[0]['Interacting_taxon_ID'], '')
self.assertEqual(recs[0]['Date'], '20030730')
self.assertEqual(recs[0]['Assigned_by'], 'SGD')
self.assertEqual(recs[0]['Annotation Extension'], [''])
self.assertEqual(recs[0]['Annotation_Properties'], 'go_evidence=ND')