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Example 41 with Measure

use of org.hl7.fhir.r5.model.Measure in project quality-measure-and-cohort-service by Alvearie.

the class MeasureEvaluatorTest method in_populations_evaluated_boolean_define_only_returned.

@Test
public void in_populations_evaluated_boolean_define_only_returned() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    Library library = setupDefineReturnLibrary();
    expressionsByPopulationType.clear();
    expressionsByPopulationType.put(MeasurePopulationType.INITIALPOPULATION, INITIAL_POPULATION);
    expressionsByPopulationType.put(MeasurePopulationType.DENOMINATOR, DENOMINATOR);
    expressionsByPopulationType.put(MeasurePopulationType.NUMERATOR, NUMERATOR);
    Measure measure = getProportionMeasure("ProportionMeasureName", library, expressionsByPopulationType);
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null, new MeasureEvidenceOptions(false, DefineReturnOptions.BOOLEAN));
    assertNotNull(report);
    assertTrue(report.getEvaluatedResource().isEmpty());
    assertFalse(report.getExtensionsByUrl(CDMConstants.EVIDENCE_URL).isEmpty());
}
Also used : CapabilityStatement(org.hl7.fhir.r4.model.CapabilityStatement) Measure(org.hl7.fhir.r4.model.Measure) Patient(org.hl7.fhir.r4.model.Patient) MeasureReport(org.hl7.fhir.r4.model.MeasureReport) Library(org.hl7.fhir.r4.model.Library) MeasureEvidenceOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions) Test(org.junit.Test)

Example 42 with Measure

use of org.hl7.fhir.r5.model.Measure in project quality-measure-and-cohort-service by Alvearie.

the class MeasureEvaluatorTest method in_initial_population_when_engine_run_in_utc__engine_defaults_to_utc.

@Test
public void in_initial_population_when_engine_run_in_utc__engine_defaults_to_utc() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    // Test CQL written to pass when engine run with a timezone of UTC
    // and should fail otherwise
    Library library = mockLibraryRetrieval("TestDatetimeDefaultTimezones", DEFAULT_VERSION, "cql/fhir-measure/test-datetime-default-timezones.cql", "text/cql");
    Measure measure = getCohortMeasure("CohortMeasureName", library, INITIAL_POPULATION);
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null, new MeasureEvidenceOptions(false, DefineReturnOptions.BOOLEAN));
    assertNotNull(report);
    report.getExtension().stream().filter(x -> x.getUrl().equals(CDMConstants.EVIDENCE_URL)).forEach(x -> validateBooleanEvidence(x, true));
}
Also used : Arrays(java.util.Arrays) Date(java.util.Date) PARAMETER_VALUE_URL(com.ibm.cohort.engine.cdm.CDMConstants.PARAMETER_VALUE_URL) Range(org.hl7.fhir.r4.model.Range) StringUtils(org.apache.commons.lang3.StringUtils) ConceptParameter(com.ibm.cohort.cql.evaluation.parameters.ConceptParameter) InvalidOperatorArgument(org.opencds.cqf.cql.engine.exception.InvalidOperatorArgument) CapabilityStatement(org.hl7.fhir.r4.model.CapabilityStatement) HumanName(org.hl7.fhir.r4.model.HumanName) RatioParameter(com.ibm.cohort.cql.evaluation.parameters.RatioParameter) Map(java.util.Map) StringType(org.hl7.fhir.r4.model.StringType) Assert.fail(org.junit.Assert.fail) ParseException(java.text.ParseException) IntegerType(org.hl7.fhir.r4.model.IntegerType) Patient(org.hl7.fhir.r4.model.Patient) DefineReturnOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions.DefineReturnOptions) IntegerParameter(com.ibm.cohort.cql.evaluation.parameters.IntegerParameter) DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) DateType(org.hl7.fhir.r4.model.DateType) TimeZone(java.util.TimeZone) CodeParameter(com.ibm.cohort.cql.evaluation.parameters.CodeParameter) Period(org.hl7.fhir.r4.model.Period) MEASURE_PARAMETER_URL(com.ibm.cohort.engine.cdm.CDMConstants.MEASURE_PARAMETER_URL) ParameterDefinition(org.hl7.fhir.r4.model.ParameterDefinition) Collectors(java.util.stream.Collectors) PARAMETER_DEFAULT_URL(com.ibm.cohort.engine.cdm.CDMConstants.PARAMETER_DEFAULT_URL) TimeType(org.hl7.fhir.r4.model.TimeType) List(java.util.List) BooleanType(org.hl7.fhir.r4.model.BooleanType) Assert.assertFalse(org.junit.Assert.assertFalse) Coding(org.hl7.fhir.r4.model.Coding) WireMock.getRequestedFor(com.github.tomakehurst.wiremock.client.WireMock.getRequestedFor) Extension(org.hl7.fhir.r4.model.Extension) UriType(org.hl7.fhir.r4.model.UriType) Parameter(com.ibm.cohort.cql.evaluation.parameters.Parameter) UnsupportedFhirTypeException(com.ibm.cohort.engine.measure.parameter.UnsupportedFhirTypeException) DatetimeParameter(com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter) Type(org.hl7.fhir.r4.model.Type) DateTimeType(org.hl7.fhir.r4.model.DateTimeType) CodeableConcept(org.hl7.fhir.r4.model.CodeableConcept) HashMap(java.util.HashMap) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) DecimalParameter(com.ibm.cohort.cql.evaluation.parameters.DecimalParameter) Measure(org.hl7.fhir.r4.model.Measure) ArrayList(java.util.ArrayList) Address(org.hl7.fhir.r4.model.Address) Base64BinaryType(org.hl7.fhir.r4.model.Base64BinaryType) QuantityParameter(com.ibm.cohort.cql.evaluation.parameters.QuantityParameter) MEASURE_PARAMETER_VALUE_URL(com.ibm.cohort.engine.cdm.CDMConstants.MEASURE_PARAMETER_VALUE_URL) MatcherAssert.assertThat(org.hamcrest.MatcherAssert.assertThat) Quantity(org.hl7.fhir.r4.model.Quantity) Ratio(org.hl7.fhir.r4.model.Ratio) MeasureSupplementalDataEvaluation(com.ibm.cohort.engine.cqfruler.MeasureSupplementalDataEvaluation) DecimalType(org.hl7.fhir.r4.model.DecimalType) Before(org.junit.Before) MeasureEvidenceOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions) StringParameter(com.ibm.cohort.cql.evaluation.parameters.StringParameter) Assert.assertNotNull(org.junit.Assert.assertNotNull) ListResource(org.hl7.fhir.r4.model.ListResource) Library(org.hl7.fhir.r4.model.Library) Assert.assertTrue(org.junit.Assert.assertTrue) Matchers(org.hamcrest.Matchers) CanonicalType(org.hl7.fhir.r4.model.CanonicalType) Test(org.junit.Test) TimeParameter(com.ibm.cohort.cql.evaluation.parameters.TimeParameter) WireMock.verify(com.github.tomakehurst.wiremock.client.WireMock.verify) WireMock.urlMatching(com.github.tomakehurst.wiremock.client.WireMock.urlMatching) Assert.assertNotEquals(org.junit.Assert.assertNotEquals) CDMConstants(com.ibm.cohort.engine.cdm.CDMConstants) MeasurePopulationType(org.opencds.cqf.common.evaluation.MeasurePopulationType) InstantType(org.hl7.fhir.r4.model.InstantType) AdministrativeGender(org.hl7.fhir.r4.model.Enumerations.AdministrativeGender) BooleanParameter(com.ibm.cohort.cql.evaluation.parameters.BooleanParameter) MeasureReport(org.hl7.fhir.r4.model.MeasureReport) WireMock.urlEqualTo(com.github.tomakehurst.wiremock.client.WireMock.urlEqualTo) Assert.assertEquals(org.junit.Assert.assertEquals) CapabilityStatement(org.hl7.fhir.r4.model.CapabilityStatement) Measure(org.hl7.fhir.r4.model.Measure) Patient(org.hl7.fhir.r4.model.Patient) MeasureReport(org.hl7.fhir.r4.model.MeasureReport) Library(org.hl7.fhir.r4.model.Library) MeasureEvidenceOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions) Test(org.junit.Test)

Example 43 with Measure

use of org.hl7.fhir.r5.model.Measure in project quality-measure-and-cohort-service by Alvearie.

the class MeasureEvaluatorTest method in_populations_evaluated_define_only_returned.

@Test
public void in_populations_evaluated_define_only_returned() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    Library library = setupDefineReturnLibrary();
    expressionsByPopulationType.clear();
    expressionsByPopulationType.put(MeasurePopulationType.INITIALPOPULATION, INITIAL_POPULATION);
    expressionsByPopulationType.put(MeasurePopulationType.DENOMINATOR, DENOMINATOR);
    expressionsByPopulationType.put(MeasurePopulationType.NUMERATOR, NUMERATOR);
    Measure measure = getProportionMeasure("ProportionMeasureName", library, expressionsByPopulationType);
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null, new MeasureEvidenceOptions(false, DefineReturnOptions.ALL));
    assertNotNull(report);
    assertTrue(report.getEvaluatedResource().isEmpty());
    assertFalse(report.getExtensionsByUrl(CDMConstants.EVIDENCE_URL).isEmpty());
}
Also used : CapabilityStatement(org.hl7.fhir.r4.model.CapabilityStatement) Measure(org.hl7.fhir.r4.model.Measure) Patient(org.hl7.fhir.r4.model.Patient) MeasureReport(org.hl7.fhir.r4.model.MeasureReport) Library(org.hl7.fhir.r4.model.Library) MeasureEvidenceOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions) Test(org.junit.Test)

Example 44 with Measure

use of org.hl7.fhir.r5.model.Measure in project quality-measure-and-cohort-service by Alvearie.

the class MeasureEvaluatorTest method measure_default_valid.

@Test
public void measure_default_valid() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    Library library = mockLibraryRetrieval("TestAdultMales", DEFAULT_VERSION, "cql/fhir-measure/test-parameter-defaults.cql");
    expressionsByPopulationType.clear();
    expressionsByPopulationType.put(MeasurePopulationType.INITIALPOPULATION, INITIAL_POPULATION);
    expressionsByPopulationType.put(MeasurePopulationType.DENOMINATOR, DENOMINATOR);
    expressionsByPopulationType.put(MeasurePopulationType.NUMERATOR, NUMERATOR);
    Measure measure = getProportionMeasure("ProportionMeasureName", library, expressionsByPopulationType);
    measure.addExtension(createMeasureParameter("SomeAge", new IntegerType(20)));
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null, new MeasureEvidenceOptions());
    assertNotNull(report);
}
Also used : IntegerType(org.hl7.fhir.r4.model.IntegerType) CapabilityStatement(org.hl7.fhir.r4.model.CapabilityStatement) Measure(org.hl7.fhir.r4.model.Measure) Patient(org.hl7.fhir.r4.model.Patient) MeasureReport(org.hl7.fhir.r4.model.MeasureReport) Library(org.hl7.fhir.r4.model.Library) MeasureEvidenceOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions) Test(org.junit.Test)

Example 45 with Measure

use of org.hl7.fhir.r5.model.Measure in project quality-measure-and-cohort-service by Alvearie.

the class MeasureEvaluatorTest method in_populations_supplemental_data.

@Test
public void in_populations_supplemental_data() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    Library library = setupDefineReturnLibrary();
    expressionsByPopulationType.clear();
    expressionsByPopulationType.put(MeasurePopulationType.INITIALPOPULATION, INITIAL_POPULATION);
    expressionsByPopulationType.put(MeasurePopulationType.DENOMINATOR, DENOMINATOR);
    expressionsByPopulationType.put(MeasurePopulationType.NUMERATOR, NUMERATOR);
    Measure measure = getProportionMeasure("ProportionMeasureName", library, expressionsByPopulationType);
    measure.setSupplementalData(Arrays.asList(createSupplementalDataComponent("SDE Sex", MeasureSupplementalDataEvaluation.SDE_SEX)));
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null, new MeasureEvidenceOptions());
    assertNotNull(report);
    // EvaluatedResource should contain a reference to an observation record created for supplemental data, despite the evidence options indicating returning no evaluatedResources
    assertEquals(1, report.getEvaluatedResource().size());
// See MeasureSupplementalDataEvaluationTest for more details on what is returned here
}
Also used : CapabilityStatement(org.hl7.fhir.r4.model.CapabilityStatement) Measure(org.hl7.fhir.r4.model.Measure) Patient(org.hl7.fhir.r4.model.Patient) MeasureReport(org.hl7.fhir.r4.model.MeasureReport) Library(org.hl7.fhir.r4.model.Library) MeasureEvidenceOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions) Test(org.junit.Test)

Aggregations

Measure (org.hl7.fhir.r4.model.Measure)119 Test (org.junit.Test)97 Library (org.hl7.fhir.r4.model.Library)61 Patient (org.hl7.fhir.r4.model.Patient)45 MeasureReport (org.hl7.fhir.r4.model.MeasureReport)44 HashMap (java.util.HashMap)24 ArrayList (java.util.ArrayList)23 DateParameter (com.ibm.cohort.cql.evaluation.parameters.DateParameter)22 IntervalParameter (com.ibm.cohort.cql.evaluation.parameters.IntervalParameter)22 Parameter (com.ibm.cohort.cql.evaluation.parameters.Parameter)22 ObjectMapper (com.fasterxml.jackson.databind.ObjectMapper)21 ByteArrayOutputStream (java.io.ByteArrayOutputStream)21 MeasureEvidenceOptions (com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions)20 CapabilityStatement (org.hl7.fhir.r4.model.CapabilityStatement)20 Test (org.junit.jupiter.api.Test)18 Extension (org.hl7.fhir.r4.model.Extension)15 StringType (org.hl7.fhir.r4.model.StringType)15 DatetimeParameter (com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter)14 CanonicalType (org.hl7.fhir.r4.model.CanonicalType)14 CodeableConcept (org.hl7.fhir.r4.model.CodeableConcept)14