def validate(self):
"""Validate command input.
Raises:
ValidationError - if something is wrong with command parameters.
"""
if is_valid_uuid(self.project_id) is False:
raise ValidationError("Project ID is not valid. Exiting.")
if self.sample_ids:
if not all(is_valid_uuid(s_id) for s_id in self.sample_ids):
raise ValidationError("Not all sample IDs are valid. Exiting.")
def validate(self):
"""Validate command input.
Raises:
ValidationError - if something is wrong with command parameters.
"""
if is_valid_uuid(self.project_id) is False:
raise ValidationError("Project ID is not valid. Exiting.")
def validate(self):
"""Validate command setup before execution.
Raises:
ValidationError - if something is wrong with command parameters.
"""
# fmt: off
if self.destination and not self.destination.startswith(UPLOAD_PREFIX):
self.echo_error(
"Invalid destination path. Must start with '{}'".format(
UPLOAD_PREFIX))
raise ValidationError("Bad configuration. Exiting.")
# fmt: on
if os.path.isfile(
self.source) and not self.source.endswith(FASTQ_MAP_EXTENSION):
raise ValidationError(f"Source input ('{self.source}') is a file, "
f"but must be a directory or a map file "
f"('*{FASTQ_MAP_EXTENSION}'). Exiting.")
if not self.fastqs and not self.fastqs_map:
self.echo_error("No FASTQ files found in the path. "
"Only following files are accepted: {}".format(
FASTQ_EXTENSIONS))
raise ValidationError("Bad configuration. Exiting.")
if self.output and not self.project_id:
raise ValidationError(
"--output cannot be used without --run-project-id")
if self.metadata and not self.project_id:
raise ValidationError(
"--metadata cannot be used without --run-project-id")
if self.project_id and is_valid_uuid(self.project_id) is False:
raise ValidationError("--run-project-id is not valid. Exiting.")
# validate metadata json
if self.metadata and is_valid_json(self.metadata) is False:
raise ValidationError("--metadata is not valid JSON. Exiting.")
def test_is_valid_uuid__is_not_valid__text():
"""Test that random word is not a valid UUID"""
assert is_valid_uuid("foo") is False
def test_is_valid_uuid__is_not_valid__too_short():
"""Test that UUID with missing chars is not a valid UUID"""
assert is_valid_uuid("11111111-1111-1111-1111-1") is False
def test_is_valid_uuid__is_not_valid__too_long():
"""Test that UUID with extra chars is not a valid UUID"""
assert is_valid_uuid("11111111-1111-1111-1111-11111111111122") is False
def test_is_valid_uuid__is_valid():
"""Test that a UUID is a valid UUID"""
assert is_valid_uuid("11111111-1111-1111-1111-111111111111")