def test_no_disease_match(self, graphkb_conn) -> None:
statement = base_graphkb_statement('other')
result = convert_statements_to_alterations(graphkb_conn, [statement],
'disease', {'variant_rid'})
assert len(result) == 1
row = result[0]
assert not row['matchedCancer']
def test_diagnostic_statement(self, graphkb_conn) -> None:
statement = base_graphkb_statement()
statement['relevance']['@rid'] = 'diag1'
result = convert_statements_to_alterations(graphkb_conn, [statement],
'disease', {'variant_rid'})
assert len(result) == 1
row = result[0]
assert row['category'] == 'diagnostic'
def test_disease_match(self, graphkb_conn) -> None:
statement = base_graphkb_statement('disease')
result = convert_statements_to_alterations(graphkb_conn, [statement],
'disease', {'variant_rid'})
assert len(result) == 1
row = result[0]
assert row['kbVariantId'] == 'variant_rid'
assert row['kbStatementId'] == 'statement_rid'
assert row['matchedCancer']
assert row['kbVariant'] == 'KRAS increased expression'
assert row['relevance'] == 'relevance_display_name'
def test_approved_therapeutic_statement(self, graphkb_conn) -> None:
statement = base_graphkb_statement()
statement['relevance']['@rid'] = 'ther1'
statement['evidenceLevel'] = [{
'@rid': 'approved1',
'displayName': 'level'
}]
result = convert_statements_to_alterations(graphkb_conn, [statement],
'disease', {'variant_rid'})
assert len(result) == 1
row = result[0]
assert row['category'] == 'therapeutic'
def test_multiple_disease_not_match(self, graphkb_conn) -> None:
statement = base_graphkb_statement('disease')
statement['conditions'].append({
'@class': 'Disease',
'@rid': 'other',
'displayName': 'disease_display_name'
})
result = convert_statements_to_alterations(graphkb_conn, [statement],
'disease', {'variant_rid'})
assert len(result) == 1
row = result[0]
assert not row['matchedCancer']