def initialize_event(self, params: Dict[str, str]) -> None:
super().initialize_event(params=params)
self._event_type = params["event_type"]
self.properties["plate_barcode"] = PlateBarcode(params)
self.properties["failure_type"] = FailureType(params)
self.properties["user_id"] = UserID(params)
for property_name in ["plate_barcode", "failure_type", "user_id"]:
self.properties[property_name].is_valid()
self.properties["destination_plate"] = self.properties["plate_barcode"]
self.properties["wells"] = WellsFromDestination(
self.properties["plate_barcode"])
self.properties["source_plates"] = SourcePlatesFromDestination(
self.properties["wells"])
self.properties["samples"] = SamplesFromDestination(
self.properties["wells"])
self.properties["samples_with_cog_uk_id"] = SamplesWithCogUkId(
self.properties["samples"])
self.properties["controls"] = ControlsFromDestination(
self.properties["wells"])
self.properties["run_id"] = RunIDFromWells(self.properties["wells"])
self.properties["run_info"] = RunInfo(self.properties["run_id"])
self.properties["automation_system_name"] = AutomationSystemName(
self.properties["run_info"])
self.properties["robot_uuid"] = RobotUUID(
self.properties["automation_system_name"])
def test_all_controls_from_destination_value_fails_with_missing_controls(
app,
destination_barcode,
mocked_responses,
cherrytrack_mock_destination_plate,
):
with app.app_context():
instance = ControlsFromDestination(
WellsFromDestination(PlateBarcode({FIELD_EVENT_BARCODE: destination_barcode}))
)
assert instance.is_valid() is True
assert instance.errors == []
with pytest.raises(Exception):
instance.value
assert instance.is_valid() is False
assert instance.errors == [
("Exception during retrieval: We were expecting one positive and one negative control to be present.")
]
def test_all_controls_from_destination_value_gets_value(
app,
run_id,
destination_barcode,
samples_from_cherrytrack_into_mongo,
mocked_responses,
cherrytrack_mock_destination_plate,
cherrytrack_destination_plate_response,
):
with app.app_context():
wells = cherrytrack_destination_plate_response["data"]["wells"]
val = ControlsFromDestination(
WellsFromDestination(PlateBarcode({FIELD_EVENT_BARCODE: destination_barcode}))
).value
assert val == {"E10": wells[2], "E11": wells[3]}