def test_is_valid_manifest_format_with_csv(logfile):
"""
Test that alternative delimiter can be automatically detected
"""
logging.setLevel(default_logging.ERROR)
assert is_valid_manifest_format("tests/test_data/test_manifest.csv") == True
assert logfile.read() == ""
logging.setLevel(default_logging.WARNING)
def set_log_level_to_warning():
"""
By default, only log errors and setup a log output file to read from later
"""
logging.setLevel(default_logging.WARNING)
if os.path.exists("gen3tests.logs"):
os.remove("gen3tests.logs")
logfile_handler = default_logging.FileHandler("gen3tests.logs")
logfile_handler.setFormatter(default_logging.Formatter(LOG_FORMAT))
logging.addHandler(logfile_handler)
yield
def test_is_valid_manifest_format_with_empty_url(logfile):
"""
Test that by default, completely empty url values are allowed
"""
logging.setLevel(default_logging.ERROR)
result = is_valid_manifest_format(
"tests/validate_manifest_format/manifests/manifest_with_empty_url.tsv",
)
assert logfile.read() == ""
assert result == True
logging.setLevel(default_logging.WARNING)
def main(ctx, auth_config, endpoint, verbose_logs, very_verbose_logs,
only_error_logs):
"""Gen3 Command Line Interface"""
ctx.ensure_object(dict)
ctx.obj["auth_config"] = auth_config
ctx.obj["endpoint"] = endpoint
ctx.obj["auth_factory"] = AuthFactory(auth_config)
if very_verbose_logs:
logger = cdislogging.get_logger(__name__,
format=gen3.LOG_FORMAT,
log_level="debug")
sdklogging.setLevel("DEBUG")
elif verbose_logs:
logger = cdislogging.get_logger(__name__,
format=gen3.LOG_FORMAT,
log_level="info")
sdklogging.setLevel("INFO")
elif only_error_logs:
logger = cdislogging.get_logger(__name__,
format=gen3.LOG_FORMAT,
log_level="error")
sdklogging.setLevel("ERROR")
else:
logger = cdislogging.get_logger(__name__,
format=gen3.LOG_FORMAT,
log_level="warning")
sdklogging.setLevel("WARNING")