def _patch_client_for_direct_access(client: DSSClient):
old_get_file = client.get_file
old_get_bundle = client.get_bundle
mini_dss = MiniDSS(config.dss_endpoint)
def new_get_file(self, uuid, replica, version=None):
assert client is self
try:
blob = mini_dss.get_file(uuid, version, replica)
except Exception:
logger.warning(
'Failed getting file %s, version %s directly. '
'Falling back to official method', uuid, version)
return old_get_file(uuid=uuid, version=version, replica=replica)
else:
return blob
class NewGetBundle:
def paginate(self, *args, **kwargs):
uuid, version, replica = kwargs['uuid'], kwargs['version'], kwargs[
'replica']
try:
bundle = mini_dss.get_bundle(uuid, version, replica)
except Exception:
logger.warning(
'Failed getting bundle file %s, version %s directly. '
'Falling back to official method', uuid, version)
return old_get_bundle.paginate(*args, **kwargs)
else:
page = {'bundle': bundle, 'version': version, 'uuid': uuid}
return [page]
new_get_bundle = NewGetBundle()
client.get_file = types.MethodType(new_get_file, client)
client.get_bundle = new_get_bundle
from hca.dss import DSSClient
import json
dss = DSSClient()
json_response = dss.get_file(replica="aws",
uuid="666ff3f0-67a1-4ead-82e9-3f96a8c0a9b1")
for content in json_response:
print(f"{content}: {json.dumps(json_response[content], indent=4)}")
)
# Retrieves a bundle given a UUID and optionally a version.
files_uuid = []
for file in dss.get_bundle:
file_version = bundle["version"]
file_uuid = bundle["uuid"]
file_name = bundle["name"]
file_sha256 = bundle["sha256"]
files_uuid.append(file_uuid)
s += f" File: {file_name} \n"
s += f" Sha_256:{file_sha256} \n"
s += f" UUID/Version:{file_uuid}.{file_version} \n"
print(s[:-1])
break
except ValueError:
pass
for file_uuid in files_uuid:
# Given a file UUID, return latest version of the file.
try:
fh = dss.get_file(replica="aws", uuid=file_uuid)
print(dss.head_file(uuid=file_uuid, replica="aws"))
print(fh["describedBy"] + " \n type:" + fh["schema_type"])
except TypeError:
pass
# Clear sphinx-build dss authentication credentials previously
# configured with sphinx-build dss login
dss.logout()
