def _get_study_or_abort_404(study_object_id, study_pk):
if study_object_id:
# If the ID is incorrectly sized, we return a 400
if not is_object_id(study_object_id):
print("Received invalid length objectid as study_id in the data access API.")
return abort(400)
# If no Study with the given ID exists, we return a 404
try:
study = Study.objects.get(object_id=study_object_id)
except Study.DoesNotExist:
print("study '%s' does not exist." % study_object_id)
return abort(404)
else:
return study
elif study_pk:
# If no Study with the given ID exists, we return a 404
try:
study = Study.objects.get(pk=study_pk)
except Study.DoesNotExist:
print("study '%s' does not exist." % study_pk)
return abort(404)
else:
return study
else:
return abort(400)
def get_users_in_study():
study_object_id = request.values.get("study_id", "")
# if not is_object_id(study_object_id):
if not is_object_id(study_object_id):
return abort(404)
try:
study = Study.objects.get(object_id=study_object_id)
except Study.DoesNotExist:
return abort(404)
get_and_validate_researcher(study)
return json.dumps(list(study.participants.values_list('patient_id', flat=True)))
def create_from_file(cls, json_file):
with open(json_file, 'r') as json_fd:
study_configuration = json.load(json_fd)
if 'STUDY_OBJECT_ID' not in study_configuration:
raise ValueError(
'Configuration file {0} does not contain a STUDY_OBJECT_ID key or value'
.format(json_file))
# check to see if the config alread exists, if it does, delete it and then re-add
study_configs = cls.objects.exclude(deleted=True).filter(
study__object_id=study_configuration['STUDY_OBJECT_ID'])
for study_config in study_configs.all():
print(
'Found an existing study configuration for {0}, replacing with contents of file {1}'
.format(study_configuration['STUDY_OBJECT_ID'], json_file))
study_config.mark_deleted()
# connect to the database to get a list of data
if not is_object_id(study_configuration['STUDY_OBJECT_ID']):
raise ValueError('{0} is not a correct study object id'.format(
study_configuration['STUDY_OBJECT_ID']))
try:
print('Looking for study {0}'.format(
study_configuration['STUDY_OBJECT_ID']))
study = Study.objects.get(
object_id=study_configuration['STUDY_OBJECT_ID'])
except Study.DoesNotExist:
print('Study {0} does not exist.'.format(
study_configuration['STUDY_OBJECT_ID']))
raise
return cls.objects.create(**{
'study': study,
'study_configuration': study_configuration
})
def _get_study_or_abort_404(study_object_id, study_pk):
if study_object_id:
# If the ID is incorrectly sized, we return a 400
if not is_object_id(study_object_id):
return abort(400)
# If no Study with the given ID exists, we return a 404
try:
study = Study.objects.get(object_id=study_object_id)
except Study.DoesNotExist:
return abort(404)
else:
return study
elif study_pk:
# If no Study with the given ID exists, we return a 404
try:
study = Study.objects.get(pk=study_pk)
except Study.DoesNotExist:
return abort(404)
else:
return study
else:
return abort(400)
