def test_analyze():
config_entry = wh.ConfigurationEntity(id='test', type='test', uid=99)
configs = [config_entry]
allergy_annotator = wh.Annotator(name=wh.Name.ALLERGY)
attr_detect_annotator = wh.Annotator(name=wh.Name.ATTRIBUTE_DETECTION)
bathing_annotator = wh.Annotator(name=wh.Name.BATHING_ASSISTANCE)
cancer_annotator = wh.Annotator(name=wh.Name.CANCER)
concept_detect_annotator = wh.Annotator(name=wh.Name.CONCEPT_DETECTION)
disambig_annotator = wh.Annotator(name=wh.Name.DISAMBIGUATION)
dressing_annotator = wh.Annotator(name=wh.Name.DRESSING_ASSISTANCE)
eating_annotator = wh.Annotator(name=wh.Name.EATING_ASSISTANCE)
ef_annotator = wh.Annotator(name=wh.Name.EJECTION_FRACTION)
hypothetical_annotator = wh.Annotator(name=wh.Name.HYPOTHETICAL)
lab_value_annotator = wh.Annotator(name=wh.Name.LAB_VALUE)
medication_annotator = wh.Annotator(name=wh.Name.MEDICATION)
named_entities_annotator = wh.Annotator(name=wh.Name.NAMED_ENTITIES)
negation_annotator = wh.Annotator(name=wh.Name.NEGATION)
procedure_annotator = wh.Annotator(name=wh.Name.PROCEDURE)
seeing_annotator = wh.Annotator(name=wh.Name.SEEING_ASSISTANCE)
smoking_annotator = wh.Annotator(name=wh.Name.SMOKING)
spelling_annotator = wh.Annotator(name=wh.Name.SPELL_CHECKER)
symptom_disease_annotator = wh.Annotator(name=wh.Name.SYMPTOM_DISEASE)
toileting_annotator = wh.Annotator(name=wh.Name.TOILETING_ASSISTANCE)
walking_annotator = wh.Annotator(name=wh.Name.WALKING_ASSISTANCE)
section = wh.Annotator(name=wh.Name.SECTION)
model_broker = wh.Annotator(name=wh.Name.MODEL_BROKER)
flow_entries = []
flow_entries.append(wh.FlowEntry(allergy_annotator))
flow_entries.append(wh.FlowEntry(attr_detect_annotator))
flow_entries.append(wh.FlowEntry(bathing_annotator))
flow_entries.append(wh.FlowEntry(cancer_annotator))
flow_entries.append(wh.FlowEntry(concept_detect_annotator))
flow_entries.append(wh.FlowEntry(disambig_annotator))
flow_entries.append(wh.FlowEntry(dressing_annotator))
flow_entries.append(wh.FlowEntry(eating_annotator))
flow_entries.append(wh.FlowEntry(ef_annotator))
flow_entries.append(wh.FlowEntry(hypothetical_annotator))
flow_entries.append(wh.FlowEntry(lab_value_annotator))
flow_entries.append(wh.FlowEntry(medication_annotator))
flow_entries.append(wh.FlowEntry(named_entities_annotator))
# flow_entries.append(wh.FlowEntry(negation_annotator))
flow_entries.append(wh.FlowEntry(procedure_annotator))
flow_entries.append(wh.FlowEntry(seeing_annotator))
flow_entries.append(wh.FlowEntry(smoking_annotator))
flow_entries.append(wh.FlowEntry(spelling_annotator))
flow_entries.append(wh.FlowEntry(symptom_disease_annotator))
flow_entries.append(wh.FlowEntry(toileting_annotator))
flow_entries.append(wh.FlowEntry(walking_annotator))
flow_entries.append(wh.FlowEntry(section))
flow_entries.append(wh.FlowEntry(model_broker))
flow = wh.Flow(elements=flow_entries, async_=False)
annotator_flow = wh.AnnotatorFlow(flow)
containers = [wh.UnstructuredContainer(text=TEXT)]
data = ACD.analyze(TEXT, flow)
tuc.TestUnstructuredContainer.test_unstructured_container(data=data)
def test_Annotator_model():
annotator_data = wh.Annotator(name='concept_value')
flow_data = wh.Flow()
parameter_data = []
configurations_data = []
model = wh.Annotator(name='concept_value',
parameters=parameter_data,
configurations=configurations_data)
assert model.__str__() is not None
def test_update_flow():
test_elementList = []
test_anno = wh.Annotator(name = 'concept_detection')
test_flowEntry = wh.FlowEntry(annotator=test_anno)
test_elementList.append(test_flowEntry)
test_flow = wh.Flow(elements = test_elementList, async_ = True)
test_annoFlow = wh.AnnotatorFlow(flow = test_flow)
test_annoFlows = []
test_annoFlows.append(test_annoFlow)
response = ACD.update_flows(id = "unittest_new_flow", new_id = "unittest_new_flow", new_name = 'test flow',
new_description = 'functional test flow', new_annotator_flows = test_annoFlows)
assert response is not None
def test_create_flow():
test_elementList = []
test_anno = wh.Annotator(name = 'concept_detection', parameters = {"include_optional_fields": ["medical_codes", "source_vocabularies"]})
test_flowEntry = wh.FlowEntry(annotator=test_anno)
test_elementList.append(test_flowEntry)
test_flow = wh.Flow(elements = test_elementList, async_ = False)
test_annoFlow = wh.AnnotatorFlow(flow = test_flow)
test_annoFlows = []
test_annoFlows.append(test_annoFlow)
try:
response = ACD.create_flows(new_id = 'unittest_new_flow', new_name = 'test flow',
new_description = 'functional test flow', new_annotator_flows = test_annoFlows)
assert response is not None
except wh.ACDException as acde:
# flow already exists - previous delete must have failed
assert acde.code == 409
def test_analyze_org():
config_entry = wh.ConfigurationEntity(id='test', type='test', uid=99)
configs = [config_entry]
allergy_annotator = wh.Annotator(name=wh.Name.ALLERGY)
attr_detect_annotator = wh.Annotator(name=wh.Name.ATTRIBUTE_DETECTION)
bathing_annotator = wh.Annotator(name=wh.Name.BATHING_ASSISTANCE)
cancer_annotator = wh.Annotator(name=wh.Name.CANCER)
concept_detect_annotator = wh.Annotator(name=wh.Name.CONCEPT_DETECTION)
disambig_annotator = wh.Annotator(name=wh.Name.DISAMBIGUATION)
dressing_annotator = wh.Annotator(name=wh.Name.DRESSING_ASSISTANCE)
eating_annotator = wh.Annotator(name=wh.Name.EATING_ASSISTANCE)
ef_annotator = wh.Annotator(name=wh.Name.EJECTION_FRACTION)
hypothetical_annotator = wh.Annotator(name=wh.Name.HYPOTHETICAL)
lab_value_annotator = wh.Annotator(name=wh.Name.LAB_VALUE)
medication_annotator = wh.Annotator(name=wh.Name.MEDICATION)
named_entities_annotator = wh.Annotator(name=wh.Name.NAMED_ENTITIES)
negation_annotator = wh.Annotator(name=wh.Name.NEGATION)
procedure_annotator = wh.Annotator(name=wh.Name.PROCEDURE)
seeing_annotator = wh.Annotator(name=wh.Name.SEEING_ASSISTANCE)
smoking_annotator = wh.Annotator(name=wh.Name.SMOKING)
spelling_annotator = wh.Annotator(name=wh.Name.SPELL_CHECKER)
symptom_disease_annotator = wh.Annotator(name=wh.Name.SYMPTOM_DISEASE)
toileting_annotator = wh.Annotator(name=wh.Name.TOILETING_ASSISTANCE)
walking_annotator = wh.Annotator(name=wh.Name.WALKING_ASSISTANCE)
section = wh.Annotator(name=wh.Name.SECTION)
flow_entries = []
flow_entries.append(wh.FlowEntry(allergy_annotator))
flow_entries.append(wh.FlowEntry(attr_detect_annotator))
flow_entries.append(wh.FlowEntry(bathing_annotator))
flow_entries.append(wh.FlowEntry(cancer_annotator))
flow_entries.append(wh.FlowEntry(concept_detect_annotator))
flow_entries.append(wh.FlowEntry(disambig_annotator))
flow_entries.append(wh.FlowEntry(dressing_annotator))
flow_entries.append(wh.FlowEntry(eating_annotator))
flow_entries.append(wh.FlowEntry(ef_annotator))
flow_entries.append(wh.FlowEntry(hypothetical_annotator))
flow_entries.append(wh.FlowEntry(lab_value_annotator))
flow_entries.append(wh.FlowEntry(medication_annotator))
flow_entries.append(wh.FlowEntry(named_entities_annotator))
flow_entries.append(wh.FlowEntry(negation_annotator))
flow_entries.append(wh.FlowEntry(procedure_annotator))
flow_entries.append(wh.FlowEntry(seeing_annotator))
flow_entries.append(wh.FlowEntry(smoking_annotator))
flow_entries.append(wh.FlowEntry(spelling_annotator))
flow_entries.append(wh.FlowEntry(symptom_disease_annotator))
flow_entries.append(wh.FlowEntry(toileting_annotator))
flow_entries.append(wh.FlowEntry(walking_annotator))
flow_entries.append(wh.FlowEntry(section))
flow = wh.Flow(elements=flow_entries, async_=False)
annotator_flow = wh.AnnotatorFlow(flow=flow)
containers = [wh.UnstructuredContainer(text=TEXT)]
flows = [annotator_flow]
response = ACD.analyze_org(containers, flows)
container_group = wh.ContainerGroup._from_dict(response.get_result())
for unstructured_container in container_group.unstructured:
if unstructured_container.text is not None:
assert unstructured_container.text == TEXT
if unstructured_container.id is not None:
assert unstructured_container.id != '0'
if unstructured_container.type is not None:
assert unstructured_container.type != 'bogus'
assert unstructured_container.data is not None
tuc.TestUnstructuredContainer.test_unstructured_container(
data=unstructured_container.data)
def test_Flow_model():
flowentry_data = wh.FlowEntry()
model = wh.Flow(elements=[flowentry_data])
assert model.__str__() is not None
def test_AcdFlow_model():
annotator_flows_list = wh.AnnotatorFlow(wh.Flow())
model = wh.AcdFlow(id="id", name="name", description="describe", annotator_flows=[annotator_flows_list])
assert model.__str__() is not None
def test_AnnotatorFlow_model():
flow_data = wh.Flow()
model = wh.AnnotatorFlow(profile="mine", flow=flow_data)
assert model.__str__() is not None
