def from_client_json(self,
resource_json,
id_=None,
expected_version=None,
participant_id=None,
client_id=None):
resource = _FhirBiobankOrder(resource_json)
if not resource.created.date: # FHIR warns but does not error on bad date values.
raise BadRequest('Invalid created date %r.' %
resource.created.origval)
order = BiobankOrder(
participantId=participant_id,
created=resource.created.date.replace(tzinfo=None))
if not resource.created_info:
raise BadRequest(
'Created Info is required, but was missing in request.')
order.sourceUsername, order.sourceSiteId = self._parse_handling_info(
resource.created_info)
order.collectedUsername, order.collectedSiteId = self._parse_handling_info(
resource.collected_info)
if order.collectedSiteId is None:
raise BadRequest('Collected site is required in request.')
order.processedUsername, order.processedSiteId = self._parse_handling_info(
resource.processed_info)
order.finalizedUsername, order.finalizedSiteId = self._parse_handling_info(
resource.finalized_info)
# order.finalizedTime uses the time from biobank_ordered_sample.finalized
try:
order.finalizedTime = self.get_random_sample_finalized_time(
resource).date.replace(tzinfo=None)
except AttributeError:
order.finalizedTime = None
if resource.notes:
order.collectedNote = resource.notes.collected
order.processedNote = resource.notes.processed
order.finalizedNote = resource.notes.finalized
if resource.subject != self._participant_id_to_subject(participant_id):
raise BadRequest(
'Participant ID %d from path and %r in request do not match, should be %r.'
% (participant_id, resource.subject,
self._participant_id_to_subject(participant_id)))
self._add_identifiers_and_main_id(order, resource)
self._add_samples(order, resource)
if resource.amendedReason:
order.amendedReason = resource.amendedReason
if resource.amendedInfo:
order.amendedUsername, order.amendedSiteId = self._parse_handling_info(
resource.amendedInfo)
order.version = expected_version
return order
def from_client_json(self,
resource_json,
participant_id=None,
client_id=None):
resource = _FhirBiobankOrder(resource_json)
if not resource.created.date: # FHIR warns but does not error on bad date values.
raise BadRequest('Invalid created date %r.' %
resource.created.origval)
order = BiobankOrder(participantId=participant_id,
created=resource.created.date)
if not resource.created_info:
raise BadRequest(
'Created Info is required, but was missing in request.')
order.sourceUsername, order.sourceSiteId = self._parse_handling_info(
resource.created_info)
order.collectedUsername, order.collectedSiteId = self._parse_handling_info(
resource.collected_info)
order.processedUsername, order.processedSiteId = self._parse_handling_info(
resource.processed_info)
order.finalizedUsername, order.finalizedSiteId = self._parse_handling_info(
resource.finalized_info)
if resource.notes:
order.collectedNote = resource.notes.collected
order.processedNote = resource.notes.processed
order.finalizedNote = resource.notes.finalized
if resource.subject != self._participant_id_to_subject(participant_id):
raise BadRequest(
'Participant ID %d from path and %r in request do not match, should be %r.'
% (participant_id, resource.subject,
self._participant_id_to_subject(participant_id)))
self._add_identifiers_and_main_id(order, resource)
self._add_samples(order, resource)
return order