def test_valid_alternate_header(self):
# `Distance` instead of `Difference` for second column name
filepath = self.get_data_path('ecam-first-distances.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
format.validate('min')
format.validate('max')
def test_invalid_empty_file(self):
filepath = self.get_data_path('empty')
format = FirstDifferencesFormat(filepath, mode='r')
for level in 'min', 'max':
with self.assertRaisesRegex(ValidationError,
'Header line must be TSV'):
format.validate(level)
def test_invalid_header_only(self):
filepath = self.get_data_path('first-differences-header-only.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
for level in 'min', 'max':
with self.assertRaisesRegex(ValidationError,
"at least one data record"):
format.validate(level)
def test_invalid_non_numeric_column(self):
filepath = self.get_data_path('first-differences-non-numeric.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
for level in 'min', 'max':
with self.assertRaisesRegex(ValidationError,
"non-numeric.*'e'.*line 4"):
format.validate(level)
def test_invalid_not_two_fields(self):
filepath = self.get_data_path('first-differences-not-two-fields.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
for level in 'min', 'max':
with self.assertRaisesRegex(ValidationError,
'two fields.*3.*line 2.*\n\n.*a'):
format.validate(level)
def test_invalid_header(self):
filepath = self.get_data_path('first-differences-invalid-header.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
for level in 'min', 'max':
with self.assertRaisesRegex(ValidationError,
'Header.*\n\n.*#SampleID.*Peanut'):
format.validate(level)
def test_valid_min_invalid_max(self):
filepath = self.get_data_path(
'first-differences-valid-min-invalid-max.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
# Error not raised with min validation.
format.validate('min')
# Error raised with max validation.
with self.assertRaisesRegex(ValidationError,
"non-numeric.*'milo'.*line 7"):
format.validate('max')
def test_valid_real_data(self):
filepath = self.get_data_path('ecam-taxa-first-differences.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
format.validate('min')
format.validate('max')
def test_valid_simple(self):
filepath = self.get_data_path('first-differences-simple.tsv')
format = FirstDifferencesFormat(filepath, mode='r')
format.validate('min')
format.validate('max')