Examples with IntervalParameter com.ibm.cohort.cql.evaluation.parameters.IntervalParameter used on opensource projects

Example 16 with IntervalParameter

use of com.ibm.cohort.cql.evaluation.parameters.IntervalParameter 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);
}

Example 17 with IntervalParameter

use of com.ibm.cohort.cql.evaluation.parameters.IntervalParameter in project quality-measure-and-cohort-service by Alvearie.

the class CqlEvaluatorIntegrationTest method testConditionDateRangeCriteriaMatched.

@Test
public void testConditionDateRangeCriteriaMatched() throws Exception {
    Patient patient = getPatient("123", Enumerations.AdministrativeGender.FEMALE, null);
    DateFormat sdf = new SimpleDateFormat("yyyy-MM-dd");
    Date date = sdf.parse("2000-01-01");
    Condition condition = new Condition();
    condition.setId("condition");
    condition.setSubject(new Reference("Patient/123"));
    condition.setRecordedDate(date);
    // Wiremock does not support request matching withQueryParam() function does not support
    // the same parameter multiple times, so we do some regex work and try to make it
    // somewhat order independent while still readable.
    // @see https://github.com/tomakehurst/wiremock/issues/398
    MappingBuilder builder = get(urlMatching("/Condition\\?(recorded-date=[lg]e.*&){2}subject=Patient%2F123&_format=json"));
    mockFhirResourceRetrieval(builder, condition);
    FhirServerConfig fhirConfig = getFhirServerConfig();
    CqlEvaluator evaluator = setupTestFor(patient, fhirConfig, "cql.condition", ClasspathCqlLibraryProvider.FHIR_HELPERS_CLASSPATH);
    Map<String, Parameter> parameters = new HashMap<>();
    parameters.put("MeasurementPeriod", new IntervalParameter(new DatetimeParameter("1999-01-01T00:00:00-05:00"), true, new DatetimeParameter("2000-01-01T00:00:00-05:00"), false));
    String expression = "ConditionInInterval";
    CqlEvaluationResult actual = evaluator.evaluate(new CqlVersionedIdentifier("TestDateQuery", "1.0.0"), parameters, newPatientContext("123"), Collections.singleton(expression));
    Assert.assertEquals(1, actual.getExpressionResults().size());
    List<Object> value = (List) actual.getExpressionResults().get(expression);
    Assert.assertEquals(1, value.size());
    assertFhirEquals(condition, (IBaseResource) value.get(0));
}

Example 18 with IntervalParameter

use of com.ibm.cohort.cql.evaluation.parameters.IntervalParameter 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;
}

Example 19 with IntervalParameter

use of com.ibm.cohort.cql.evaluation.parameters.IntervalParameter in project quality-measure-and-cohort-service by Alvearie.

the class ParameterHelperTest method testResolveIntervalDecimalParameter.

@Test
public void testResolveIntervalDecimalParameter() {
    Map<String, Parameter> params = ParameterHelper.parseParameterArguments(Arrays.asList("test:interval:decimal,10,20"));
    assertEquals(1, params.size());
    IntervalParameter p = (IntervalParameter) params.get("test");
    assertEquals("10", ((DecimalParameter) p.getStart()).getValue());
    assertEquals("20", ((DecimalParameter) p.getEnd()).getValue());
}

Example 20 with IntervalParameter

use of com.ibm.cohort.cql.evaluation.parameters.IntervalParameter in project quality-measure-and-cohort-service by Alvearie.

the class ParameterHelperTest method testResolveIntervalQuantityParameter.

@Test
public void testResolveIntervalQuantityParameter() {
    Map<String, Parameter> params = ParameterHelper.parseParameterArguments(Arrays.asList("test:interval:quantity,10:mg/mL,20:mg/mL"));
    assertEquals(1, params.size());
    IntervalParameter p = (IntervalParameter) params.get("test");
    assertEquals("10", ((QuantityParameter) p.getStart()).getAmount());
    assertEquals("mg/mL", ((QuantityParameter) p.getStart()).getUnit());
    assertEquals("20", ((QuantityParameter) p.getEnd()).getAmount());
    assertEquals("mg/mL", ((QuantityParameter) p.getEnd()).getUnit());
}