use of com.ibm.cohort.cql.evaluation.parameters.DateParameter in project quality-measure-and-cohort-service by Alvearie.
the class CohortEngineRestHandlerTest method testEvaluateMeasureMoreThanOneFormOfId.
@PrepareForTest({ Response.class, TenantManager.class, ServiceBaseUtility.class })
@Test
public void testEvaluateMeasureMoreThanOneFormOfId() throws Exception {
prepMocks();
PowerMockito.mockStatic(ServiceBaseUtility.class);
PowerMockito.when(ServiceBaseUtility.apiSetup(VERSION, logger, MethodNames.EVALUATE_MEASURE.getName())).thenReturn(null);
mockResponseClasses();
Library library = TestHelper.getTemplateLibrary();
Measure measure = TestHelper.getTemplateMeasure(library);
Patient patient = getPatient("patientId", AdministrativeGender.MALE, 40);
mockFhirResourceRetrieval("/metadata", getCapabilityStatement());
mockFhirResourceRetrieval(patient);
FhirServerConfig clientConfig = getFhirServerConfig();
Map<String, Parameter> parameterOverrides = new HashMap<>();
parameterOverrides.put("Measurement Period", new IntervalParameter(new DateParameter("2019-07-04"), true, new DateParameter("2020-07-04"), true));
MeasureContext measureContext = new MeasureContext(measure.getId(), parameterOverrides, new Identifier().setValue("identifier"));
MeasureEvaluation evaluationRequest = new MeasureEvaluation();
evaluationRequest.setDataServerConfig(clientConfig);
evaluationRequest.setPatientId(patient.getId());
evaluationRequest.setMeasureContext(measureContext);
// evaluationRequest.setEvidenceOptions(evidenceOptions);
FhirContext fhirContext = FhirContext.forR4();
IParser parser = fhirContext.newJsonParser().setPrettyPrint(true);
// Create the metadata part of the request
ObjectMapper om = new ObjectMapper();
String json = om.writeValueAsString(evaluationRequest);
ByteArrayInputStream jsonIs = new ByteArrayInputStream(json.getBytes());
IAttachment rootPart = mockAttachment(jsonIs);
// Create the ZIP part of the request
ByteArrayOutputStream baos = new ByteArrayOutputStream();
TestHelper.createMeasureArtifact(baos, parser, measure, library);
ByteArrayInputStream zipIs = new ByteArrayInputStream(baos.toByteArray());
IAttachment measurePart = mockAttachment(zipIs);
// Assemble them together into a reasonable facsimile of the real request
IMultipartBody body = mock(IMultipartBody.class);
when(body.getAttachment(CohortEngineRestHandler.REQUEST_DATA_PART)).thenReturn(rootPart);
when(body.getAttachment(CohortEngineRestHandler.MEASURE_PART)).thenReturn(measurePart);
Response loadResponse = restHandler.evaluateMeasure(mockRequestContext, VERSION, body);
assertNotNull(loadResponse);
PowerMockito.verifyStatic(Response.class);
Response.status(400);
}
use of com.ibm.cohort.cql.evaluation.parameters.DateParameter in project quality-measure-and-cohort-service by Alvearie.
the class CohortEngineRestHandlerTest method testEvaluatePatientListMeasureSuccess.
@PrepareForTest({ Response.class, TenantManager.class, ServiceBaseUtility.class })
@Test
public void testEvaluatePatientListMeasureSuccess() throws Exception {
prepMocks();
PowerMockito.mockStatic(ServiceBaseUtility.class);
PowerMockito.when(ServiceBaseUtility.apiSetup(VERSION, logger, MethodNames.EVALUATE_PATIENT_LIST_MEASURE.getName())).thenReturn(null);
mockResponseClasses();
Library library = TestHelper.getTemplateLibrary();
Measure measure = TestHelper.getTemplateMeasure(library);
Patient patient1 = getPatient("patientId1", AdministrativeGender.MALE, 40);
Patient patient2 = getPatient("patientId2", AdministrativeGender.FEMALE, 40);
mockFhirResourceRetrieval("/metadata?_format=json", getCapabilityStatement());
mockFhirResourceRetrieval(patient1);
mockFhirResourceRetrieval(patient2);
FhirServerConfig clientConfig = getFhirServerConfig();
Map<String, Parameter> parameterOverrides = new HashMap<>();
parameterOverrides.put("Measurement Period", new IntervalParameter(new DateParameter("2019-07-04"), true, new DateParameter("2020-07-04"), true));
MeasureContext measureContext = new MeasureContext(measure.getId(), parameterOverrides);
PatientListMeasureEvaluation request = new PatientListMeasureEvaluation();
request.setDataServerConfig(clientConfig);
ArrayList<String> patientIds = new ArrayList<>();
patientIds.add(patient1.getId());
patientIds.add(patient2.getId());
request.setPatientIds(patientIds);
request.setMeasureContext(measureContext);
request.setExpandValueSets(true);
request.setSearchPageSize(500);
FhirContext fhirContext = FhirContext.forR4();
IParser parser = fhirContext.newJsonParser().setPrettyPrint(true);
// Create the metadata part of the request
ObjectMapper om = new ObjectMapper();
String json = om.writeValueAsString(request);
ByteArrayInputStream jsonIs = new ByteArrayInputStream(json.getBytes());
IAttachment rootPart = mockAttachment(jsonIs);
// Create the ZIP part of the request
ByteArrayOutputStream baos = new ByteArrayOutputStream();
TestHelper.createMeasureArtifact(baos, parser, measure, library);
ByteArrayInputStream zipIs = new ByteArrayInputStream(baos.toByteArray());
IAttachment measurePart = mockAttachment(zipIs);
// Assemble them together into a reasonable facsimile of the real request
IMultipartBody body = mock(IMultipartBody.class);
when(body.getAttachment(CohortEngineRestHandler.REQUEST_DATA_PART)).thenReturn(rootPart);
when(body.getAttachment(CohortEngineRestHandler.MEASURE_PART)).thenReturn(measurePart);
Response loadResponse = restHandler.evaluatePatientListMeasure(mockRequestContext, VERSION, body);
assertEquals(mockResponse, loadResponse);
PowerMockito.verifyStatic(Response.class);
Response.status(Response.Status.OK);
}
use of com.ibm.cohort.cql.evaluation.parameters.DateParameter in project quality-measure-and-cohort-service by Alvearie.
the class DefaultMeasurementPeriodStrategy method intervalToPair.
protected Pair<String, String> intervalToPair(IntervalParameter interval) {
String start = null;
String end = null;
DateTimeFormatter formatter = DateTimeFormatter.ofPattern(TARGET_DATE_FORMAT);
// weird CQL-language formatting such as the "@" char.
if (interval.getStart() instanceof DatetimeParameter) {
DateTime cqlType = null;
DatetimeParameter dtStart = (DatetimeParameter) interval.getStart();
cqlType = (DateTime) dtStart.toCqlType();
start = formatter.format(cqlType.getDateTime());
DatetimeParameter dtEnd = (DatetimeParameter) interval.getEnd();
cqlType = (DateTime) dtEnd.toCqlType();
end = formatter.format(cqlType.getDateTime());
} else if (interval.getStart() instanceof DateParameter) {
org.opencds.cqf.cql.engine.runtime.Date cqlType = null;
DateParameter dStart = (DateParameter) interval.getStart();
cqlType = (org.opencds.cqf.cql.engine.runtime.Date) dStart.toCqlType();
start = formatter.format(cqlType.getDate());
DateParameter dEnd = (DateParameter) interval.getEnd();
cqlType = (org.opencds.cqf.cql.engine.runtime.Date) dEnd.toCqlType();
end = formatter.format(cqlType.getDate());
} else {
throw new IllegalArgumentException(String.format("Unexpected interval data type '%s'", interval.getStart().getClass()));
}
return new ImmutablePair<String, String>(start, end);
}
use of com.ibm.cohort.cql.evaluation.parameters.DateParameter in project quality-measure-and-cohort-service by Alvearie.
the class R4ParameterDefinitionWithDefaultToCohortParameterConverter method toCohortParameter.
public static Parameter toCohortParameter(Extension extension) {
Parameter parameter;
Type extensionValue = extension.getValue();
if (extensionValue instanceof Base64BinaryType) {
parameter = new StringParameter(((Base64BinaryType) extensionValue).asStringValue());
} else if (extensionValue instanceof BooleanType) {
parameter = new BooleanParameter(((BooleanType) extensionValue).booleanValue());
} else if (extensionValue instanceof DateType) {
parameter = new DateParameter(((DateType) extensionValue).asStringValue());
} else if (extensionValue instanceof DateTimeType) {
parameter = convertDateTimeType((DateTimeType) extensionValue);
} else if (extensionValue instanceof DecimalType) {
parameter = new DecimalParameter(((DecimalType) extensionValue).getValueAsString());
} else if (extensionValue instanceof InstantType) {
parameter = new DatetimeParameter(((InstantType) extensionValue).getValueAsString());
} else if (extensionValue instanceof IntegerType) {
parameter = new IntegerParameter(((IntegerType) extensionValue).getValue());
} else if (extensionValue instanceof StringType) {
parameter = new StringParameter(((StringType) extensionValue).getValue());
} else if (extensionValue instanceof TimeType) {
parameter = new TimeParameter(((TimeType) extensionValue).asStringValue());
} else if (extensionValue instanceof UriType) {
parameter = new StringParameter(((UriType) extensionValue).getValue());
} else if (extensionValue instanceof Coding) {
parameter = convertCoding((Coding) extensionValue);
} else if (extensionValue instanceof CodeableConcept) {
parameter = convertCodeableConcept((CodeableConcept) extensionValue);
} else if (extensionValue instanceof Period) {
Period castValue = (Period) extensionValue;
parameter = new IntervalParameter(convertDateTimeType(castValue.getStartElement()), true, convertDateTimeType(castValue.getEndElement()), true);
} else if (extensionValue instanceof Quantity) {
parameter = convertQuantity((Quantity) extensionValue);
} else if (extensionValue instanceof Range) {
Range castValue = (Range) extensionValue;
parameter = new IntervalParameter(convertQuantity(castValue.getLow()), true, convertQuantity(castValue.getHigh()), true);
} else if (extensionValue instanceof Ratio) {
Ratio castValue = (Ratio) extensionValue;
parameter = new RatioParameter().setDenominator(convertQuantity(castValue.getDenominator())).setNumerator(convertQuantity(castValue.getNumerator()));
} else {
throw new UnsupportedFhirTypeException(extensionValue);
}
return parameter;
}
use of com.ibm.cohort.cql.evaluation.parameters.DateParameter in project quality-measure-and-cohort-service by Alvearie.
the class MeasureEvaluationTest method when_serialize_deserialize___properties_are_unchanged.
@Test
public void when_serialize_deserialize___properties_are_unchanged() throws Exception {
FhirServerConfig dataServerConfig = new FhirServerConfig();
dataServerConfig.setEndpoint("dataserver");
FhirServerConfig termServerConfig = new FhirServerConfig();
termServerConfig.setEndpoint("termserver");
Map<String, Parameter> parameterOverrides = new HashMap<>();
parameterOverrides.put("Measurement Period", new IntervalParameter(new DateParameter("2019-07-04"), true, new DateParameter("2020-07-04"), true));
MeasureContext ctx = new MeasureContext("measureId", parameterOverrides);
MeasureEvaluation evaluation = new MeasureEvaluation();
evaluation.setDataServerConfig(dataServerConfig);
evaluation.setTerminologyServerConfig(termServerConfig);
evaluation.setPatientId("patientId");
evaluation.setMeasureContext(ctx);
evaluation.setEvidenceOptions(new MeasureEvidenceOptions(false, MeasureEvidenceOptions.DefineReturnOptions.ALL));
ObjectMapper om = new ObjectMapper();
String serialized = om.writeValueAsString(evaluation);
MeasureEvaluation deserialized = om.readValue(serialized, MeasureEvaluation.class);
assertEquals(evaluation, deserialized);
}
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