def matchmaker_delete(request, institute_id, case_name):
"""Delete all affected samples for a case from MatchMaker
Args:
request(werkzeug.local.LocalProxy)
institute_id(str): _id of an institute
case_name(str): display name of a case
"""
# Check that general MME request requirements are fulfilled
matchmaker_check_requirements(request)
_, case_obj = institute_and_case(store, institute_id, case_name)
# Delete each patient submitted for this case
for patient in case_obj.get("mme_submission", {}).get("patients", []):
# Send delete request to server and capture server's response
patient_id = patient["id"]
resp = matchmaker.patient_delete(patient_id)
category = "warning"
if resp["status_code"] == 200:
category = "success"
# update case by removing mme submission
# and create events for patients deletion from MME
user_obj = store.user(current_user.email)
store.case_mme_delete(case_obj=case_obj, user_obj=user_obj)
flash(
f"Deleted patient '{patient_id}', case '{case_name}' from MatchMaker",
"success",
)
continue
flash(f"An error occurred while deleting patient from MatchMaker", "danger")
def matchmaker_delete(institute_id, case_name):
"""Remove a case from MatchMaker"""
# check that only authorized users can delete patients from MME
user_obj = store.user(current_user.email)
if 'mme_submitter' not in user_obj['roles']:
flash('unauthorized request', 'warning')
return redirect(request.referrer)
institute_obj, case_obj = institute_and_case(store, institute_id, case_name)
# Required params for sending a delete request to MME:
mme_base_url = current_app.config.get('MME_URL')
mme_token = current_app.config.get('MME_TOKEN')
if not mme_base_url or not mme_token:
flash('An error occurred reading matchmaker connection parameters. Please check config file!', 'danger')
return redirect(request.referrer)
delete_result = controllers.mme_delete(case_obj, mme_base_url, mme_token)
n_deleted = 0
category = 'warning'
for resp in delete_result:
if resp['status_code'] == 200:
n_deleted += 1
else:
flash(resp['message'], category)
if n_deleted:
category = 'success'
# update case by removing mme submission
# and create events for patients deletion from MME
user_obj = store.user(current_user.email)
store.case_mme_delete(case_obj=case_obj, user_obj=user_obj)
flash('Number of patients deleted from Matchmaker: {} out of {}'.format(n_deleted, len(delete_result)), category)
return redirect(request.referrer)
def matchmaker_delete(institute_id, case_name):
"""Remove a case from MatchMaker"""
# check that only authorized users can delete patients from MME
user_obj = store.user(current_user.email)
if "mme_submitter" not in user_obj["roles"]:
flash("unauthorized request", "warning")
return redirect(request.referrer)
institute_obj, case_obj = institute_and_case(store, institute_id,
case_name)
# Required params for sending a delete request to MME:
mme_base_url = current_app.config.get("MME_URL")
mme_token = current_app.config.get("MME_TOKEN")
if not mme_base_url or not mme_token:
flash(
"An error occurred reading matchmaker connection parameters. Please check config file!",
"danger",
)
return redirect(request.referrer)
delete_result = controllers.mme_delete(case_obj, mme_base_url, mme_token)
n_deleted = 0
category = "warning"
for resp in delete_result:
if resp["status_code"] == 200:
n_deleted += 1
else:
flash(resp["message"], category)
if n_deleted:
category = "success"
# update case by removing mme submission
# and create events for patients deletion from MME
user_obj = store.user(current_user.email)
store.case_mme_delete(case_obj=case_obj, user_obj=user_obj)
flash(
"Number of patients deleted from Matchmaker: {} out of {}".format(
n_deleted, len(delete_result)),
category,
)
return redirect(request.referrer)