def get_unit_agent(prov_bundle: ProvBundle, unit_id: int,
unit_specific_type: str) -> ProvAgent:
unit_agent_id = ns_unit[str(unit_id)]
unit_records = prov_bundle.get_record(unit_agent_id)
attributes = [
(PROV_TYPE, ns_type["Ward"]),
]
if unit_specific_type is not None:
attributes.append((PROV_TYPE, ns_type[unit_specific_type]))
return (unit_records[0] if unit_records else prov_bundle.agent(
unit_agent_id, attributes))
def get_staff_agent(prov_bundle: ProvBundle,
care_giver: db.CareGiver) -> ProvAgent:
staff_id = ns_staff[str(care_giver.cgid)]
staff_records = prov_bundle.get_record(staff_id)
return (staff_records[0] if staff_records else prov_bundle.agent(
staff_id,
{
"prov:type": PROV["Person"],
"prov:label": care_giver.label,
ns_attrs["description"]: care_giver.description,
},
))
def export(trial: Trial, document: provo.ProvBundle):
print_msg(" Exporting file accesses")
for f_access in trial.file_accesses: # type: FileAccess
_create_file_access(document, f_access)
if document.get_record("functionActivation{}".format(
f_access.function_activation_id)):
document.wasInformedBy(
"fileAccess{}".format(f_access.id),
"functionActivation{}".format(f_access.function_activation_id),
"fileAcc{}ByFuncAct{}".format(f_access.id,
f_access.function_activation_id),
[(provo.PROV_TYPE, "fileAccess")])
def get_process_entity(prov_bundle: ProvBundle, item: db.Item) -> ProvEntity:
try:
entity_process = procedure_entities[item.itemid]
if not prov_bundle.get_record(entity_process.identifier):
# the entity was created in another admission
prov_bundle.add_record(entity_process)
return entity_process
except KeyError:
entity_id = ns_process[str(item.itemid)]
entity_process = prov_bundle.entity(
entity_id,
{
"prov:type": ns_type["Process"],
"prov:label": item.label,
ns_attrs["abbreviation"]: item.abbreviation,
ns_attrs["category"]: item.category,
ns_attrs["dbsource"]: item.dbsource,
},
)
procedure_entities[item.itemid] = entity_process
return entity_process
