def test_complex_file_validation_invalid(self):
schema_path = os.path.join(
os.path.dirname(os.path.abspath(__file__)),
'../data/validator_tests/bids_schema.mediawiki')
events_path = os.path.join(os.path.dirname(os.path.abspath(__file__)),
'../data/validator_tests/bids_events.tsv')
hed_schema = schema.load_schema(schema_path)
json_path = os.path.join(
os.path.dirname(os.path.abspath(__file__)),
"../data/validator_tests/bids_events_bad_defs.json")
validator = HedValidator(hed_schema=hed_schema)
sidecar = Sidecar(json_path)
issues = sidecar.validate_entries(validators=validator,
check_for_warnings=True)
self.assertEqual(len(issues), 4)
input_file = EventsInput(events_path, sidecars=sidecar)
validation_issues = input_file.validate_file_sidecars(
validator, check_for_warnings=True)
self.assertEqual(len(validation_issues), 4)
validation_issues = input_file.validate_file(validator,
check_for_warnings=True)
self.assertEqual(len(validation_issues), 42)
def test_loading_and_reset_mapper(self):
events_path = os.path.join(os.path.dirname(os.path.abspath(__file__)),
'../data/validator_tests/bids_events.tsv')
json_path = os.path.join(os.path.dirname(os.path.abspath(__file__)),
"../data/validator_tests/bids_events.json")
sidecar = Sidecar(json_path)
self.assertEqual(len(sidecar.validate_entries()), 0)
input_file_1 = EventsInput(events_path, sidecars=sidecar)
input_file_2 = EventsInput(events_path, sidecars=sidecar)
input_file_2.reset_column_mapper()
for (row_number, column_dict), (row_number2, column_dict2) in zip(
input_file_1.iter_dataframe(), input_file_2.iter_dataframe()):
self.assertEqual(
row_number, row_number2,
f"EventsInput should have row {row_number} equal to {row_number2} after reset"
)
self.assertTrue(
len(column_dict) == 5,
f"The column dictionary for row {row_number} should have the right length"
)
self.assertTrue(
len(column_dict2) == 11,
f"The reset column dictionary for row {row_number2} should have the right length"
)
def test_file_as_string(self):
events_path = os.path.join(os.path.dirname(os.path.abspath(__file__)),
'../data/validator_tests/bids_events.tsv')
json_path = os.path.join(os.path.dirname(os.path.abspath(__file__)),
"../data/validator_tests/bids_events.json")
sidecar = Sidecar(json_path)
self.assertEqual(len(sidecar.validate_entries(expand_defs=True)), 0)
input_file = EventsInput(events_path, sidecars=sidecar)
with open(events_path) as file:
events_file_as_string = io.StringIO(file.read())
input_file_from_string = EventsInput(file=events_file_as_string,
sidecars=sidecar)
for (row_number, column_dict), (row_number2, column_dict) in zip(
input_file, input_file_from_string):
self.assertEqual(row_number, row_number2)
self.assertEqual(column_dict, column_dict)
def test_complex_file_validation_invalid_definitions_removed(self):
# This verifies definitions are being removed from sidecar strings before being added, or it will produce
# extra errors.
schema_path = os.path.join(
os.path.dirname(os.path.abspath(__file__)),
'../data/validator_tests/bids_schema.mediawiki')
events_path = os.path.join(os.path.dirname(os.path.abspath(__file__)),
'../data/validator_tests/bids_events.tsv')
hed_schema = schema.load_schema(schema_path)
json_path = os.path.join(
os.path.dirname(os.path.abspath(__file__)),
"../data/validator_tests/bids_events_bad_defs2.json")
sidecar = Sidecar(json_path)
input_file = EventsInput(events_path, sidecars=sidecar)
validator = HedValidator(hed_schema=hed_schema)
validation_issues1 = input_file.validate_file_sidecars(validator)
self.assertEqual(len(validation_issues1), 4)
validation_issues = input_file.validate_file(validator)
self.assertEqual(len(validation_issues), 42)