def test_assign_functional_element_none_sufficient_all_not_present(self):
"""Test assignment of a functional element when no sufficient identifiers and none present."""
test_cache = AssignmentCache(interpro_member_database_identifiers=[
'TIGR03115', 'TIGR03118', 'TIGR03121'
])
functional_element = [
('--', ''),
('SN', '1'),
('ID', 'Aferr subtype specific proteins'),
('RQ', '0'),
('EV', 'IPR017545; TIGR03114;'), # NO
('EV', 'IPR017547; TIGR03117;'), # NO
('TG', 'GO:0043571;'),
('EV', 'IPR017552; TIGR03120;'), # NO
('TG', 'GO:0043573;')
]
parsed_functional_element = parse_functional_elements(
functional_element)[0]
assignment = assign_functional_element(test_cache,
parsed_functional_element)
self.assertEqual(assignment, 'NO')
def test_assign_functional_element_all_identifiers(self):
"""Test assignment of a functional element when all evidence markers are present."""
test_cache = AssignmentCache(interpro_member_database_identifiers=[
'TIGR03114', 'TIGR03117', 'TIGR03120'
])
functional_element = [
('--', ''),
('SN', '1'),
('ID', 'Aferr subtype specific proteins'),
('RQ', '0'),
('EV', 'IPR017545; TIGR03114; sufficient;'), # Yes
('EV', 'IPR017547; TIGR03117;'), # Yes
('TG', 'GO:0043571;'),
('EV', 'IPR017552; TIGR03120;'), # Yes
('TG', 'GO:0043573;')
]
parsed_functional_element = parse_functional_elements(
functional_element)[0]
assignment = assign_functional_element(test_cache,
parsed_functional_element)
self.assertEqual(assignment, 'YES')