def __init__(self, tokens=None):
"""Create a CfdeClient.
Keyword Arguments:
service_instance (str): The instance of the Globus Automate Flow
and/or the DERIVA ingest Action Provider to use. Unless directed otherwise,
this should be left to the default. **Default**: ``prod``.
tokens (dict): A dict keyed by scope, of active Globus Tokens. token keys MUST be a
subset of self.scopes. Each token value must contain an additional dict, and
have an active "access_token". setting tokens=None will require .login() to
be called instead.
**Default**: ``None``.
"""
self.__service_instance = os.getenv("CFDE_SUBMIT_SERVICE_INSTANCE", "prod")
self.__remote_config = {} # managed by property
self.__tokens = {}
self.__flow_client = None
self.local_config = fair_research_login.ConfigParserTokenStorage(
filename=self.config_filename
)
cli_message = ('Starting login with Globus Auth, '
'press ^C twice to cancel or once to manually authenticate')
code_handlers = [
fair_research_login.LocalServerCodeHandler(cli_message=cli_message),
fair_research_login.InputCodeHandler(),
]
self.__native_client = fair_research_login.NativeClient(client_id=self.client_id,
app_name=self.app_name,
token_storage=self.local_config,
code_handlers=code_handlers,)
self.last_flow_run = {}
# Fetch dynamic config info
self.tokens = tokens or {}
# Set to true when self.check() passes
self.ready = False
def __init__(self, *args, **kwargs):
self.SCOPES = [self.CONCIERGE_SCOPE]
env = os.getenv('CONCIERGE_ENV', 'production')
kwargs['base_url'] = kwargs.get('base_url', self.ENVIRONMENTS[env])
kwargs.update(dict(client_id=self.CLIENT_ID, app_name=self.APP_NAME))
super().__init__('Concierge Client App', *args, **kwargs)
self.native_client = fair_research_login.NativeClient(
app_name=self.app_name,
client_id=self.CLIENT_ID,
default_scopes=self.SCOPES,
)
def get_native_client(self):
"""
:returns an instance of fair_research_login.NativeClient
"""
if getattr(self, 'client_id', None) is None:
raise gladier.exc.AuthException(
'Gladier client must be instantiated with a '
'"client_id" to use "login()!')
secrets_cfg = fair_research_login.ConfigParserTokenStorage(
filename=self.secret_config_filename)
return fair_research_login.NativeClient(client_id=self.client_id,
app_name=self.app_name,
token_storage=secrets_cfg)
def deploy_client_config():
cli = fair_research_login.NativeClient(client_id=native_app_id)
scope = "https://auth.globus.org/scopes/d1e360d2-3b83-4039-bd82-f38f5bf2c394/https"
cli.login(requested_scopes=scope)
headers = {
"Authorization":
f"Bearer {cli.load_tokens_by_scope()[scope]['access_token']}"
}
url = (
"https://g-5cf005.aa98d.08cc.data.globus.org/submission_dynamic_config/"
"cfde_client_config.json")
put_res = requests.put(url, json=load_client_config(), headers=headers)
put_res.raise_for_status()
click.secho(f"Client Config Deployed: '{url}'", fg="green")
def get_remote_config():
cli = fair_research_login.NativeClient(client_id=native_app_id)
scope = "https://auth.globus.org/scopes/d1e360d2-3b83-4039-bd82-f38f5bf2c394/https"
cli.login(requested_scopes=scope)
headers = {
"Authorization":
f"Bearer {cli.load_tokens_by_scope()[scope]['access_token']}",
"X-Requested-With": "XMLHttpRequest"
}
url = (
"https://g-5cf005.aa98d.08cc.data.globus.org/submission_dynamic_config/"
"cfde_client_config.json")
resp = requests.get(url, headers=headers)
resp.raise_for_status()
return resp.json()
def get_native_client(self):
"""
fair_research_login.NativeClient is used when ``authorizers`` are not provided to __init__.
This enables local login to the Globus Automate Client, FuncX, and any other Globus
Resource Server.
:return: an instance of fair_research_login.NativeClient
"""
if getattr(self, 'client_id', None) is None:
raise gladier.exc.AuthException(
'Gladier client must be instantiated with a '
'"client_id" to use "login()!')
secrets_cfg = fair_research_login.ConfigParserTokenStorage(
filename=self.secret_config_filename)
return fair_research_login.NativeClient(client_id=self.client_id,
app_name=self.app_name,
token_storage=secrets_cfg)
def __init__(self,
authorizer=None,
app_name=None,
native_client=None,
config=None,
base_url='https://identifiers.fair-research.org/'):
self.app_name = app_name or self.NAME
self.config = config or self.CONFIG
self.base_url = base_url
self._authorizer = authorizer
if native_client is None:
storage = fair_research_login.ConfigParserTokenStorage(
filename=self.config, section='tokens')
self.native_client = fair_research_login.NativeClient(
app_name=self.app_name,
client_id=self.CLIENT_ID,
default_scopes=self.SCOPES,
token_storage=storage)
def __init__(self, tokens=None):
"""Create a CfdeClient.
Keyword Arguments:
tokens (dict): A dict keyed by scope, of active Globus Tokens. token keys MUST be a
subset of self.scopes. Each token value must contain an additional dict, and
have an active "access_token". setting tokens=None will require .login() to
be called instead.
**Default**: ``None``.
"""
try:
with open(self.config_filename) as f:
config_data = f.readlines()
if any(x for x in config_data if x.startswith('flows_automated_tests')):
os.unlink(self.config_filename)
except FileNotFoundError:
pass
self.__service_instance = os.getenv("CFDE_SUBMIT_SERVICE_INSTANCE", "prod")
self.__remote_config = {} # managed by property
self.__tokens = {}
self.__flow_client = None
self.__transfer_client = None
self.transfer_scope = CONFIG["TRANSFER_SCOPE"]
self.local_config = fair_research_login.ConfigParserTokenStorage(
filename=self.config_filename
)
cli_message = ('Starting login with Globus Auth, '
'press ^C twice to cancel or once to manually authenticate')
code_handlers = [
fair_research_login.LocalServerCodeHandler(cli_message=cli_message),
fair_research_login.InputCodeHandler(),
]
self.__native_client = fair_research_login.NativeClient(client_id=self.client_id,
app_name=self.app_name,
token_storage=self.local_config,
code_handlers=code_handlers, )
self.last_flow_run = {}
# Fetch dynamic config info
self.tokens = tokens or {}
# Set to true when self.check() passes
self.ready = False
from flow import full_submission_flow_def
native_app_id = "417301b1-5101-456a-8a27-423e71a2ae26" # Premade native app ID
deriva_aps = {
"dev": "https://ap-dev.nih-cfde.org/",
"staging": "https://ap-staging.nih-cfde.org/",
"prod": "https://ap.nih-cfde.org/"
}
client_config_filename = os.path.join(os.path.dirname(__file__),
"cfde_client_config.json")
old_flows_filename = os.path.join(os.path.dirname(__file__), "old_flows.txt")
DERIVA_SCOPE = 'https://auth.globus.org/scopes/app.nih-cfde.org/deriva_all'
TRANSFER_SCOPE = 'urn:globus:auth:scope:transfer.api.globus.org:all'
CFDE_NATIVE_APP = '417301b1-5101-456a-8a27-423e71a2ae26'
nc = fair_research_login.NativeClient(client_id=CFDE_NATIVE_APP)
nc.login(requested_scopes=[DERIVA_SCOPE, TRANSFER_SCOPE])
transfer_token = get_app_token(CFDE_CONFIG["DEPENDENT_SCOPES"]['transfer'])
auth = globus_sdk.AccessTokenAuthorizer(transfer_token)
transfer_client = globus_sdk.TransferClient(authorizer=auth)
def load_client_config():
with open(client_config_filename) as f:
return json.JSONDecoder(
object_pairs_hook=collections.OrderedDict).decode(f.read())
@click.group()
def cli():
pass
