Examples with Measure org.hl7.fhir.r5.model.Measure used on opensource projects

Example 46 with Measure

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

the class MeasureEvaluatorTest method measure_report_generated___FHIR_measure_parameters_on_measure_report.

@Test
public void measure_report_generated___FHIR_measure_parameters_on_measure_report() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    Library library = mockLibraryRetrieval("TestDummyPopulations", DEFAULT_VERSION, "cql/fhir-measure/test-dummy-populations.xml", ELM_MIME_TYPE);
    Measure measure = getCohortMeasure("CohortMeasureName", library, INITIAL_POPULATION);
    Map<String, Type> measureParameters = new HashMap<>();
    measureParameters.put("base64Param", new Base64BinaryType("AAA"));
    measureParameters.put("booleanParam", new BooleanType(false));
    measureParameters.put("dateParam", new DateType("2020-01-01"));
    measureParameters.put("dateTimeParam", new DateTimeType("2020-01-01T12:00:00"));
    measureParameters.put("decimalParam", new DecimalType(12.0));
    measureParameters.put("instantParam", new InstantType("2020-01-01T12:00:00-04:00"));
    measureParameters.put("integerParam", new IntegerType(1));
    measureParameters.put("stringParam", new StringType("str"));
    measureParameters.put("timeParam", new TimeType("05:30:00"));
    measureParameters.put("uriParam", new UriType("abcde"));
    measureParameters.put("codeableConceptParam", new CodeableConcept().setText("display").addCoding(new Coding().setCode("val").setSystem("sys").setDisplay("display")));
    measureParameters.put("codingParam", new Coding().setCode("v").setSystem("s").setDisplay("d"));
    measureParameters.put("periodParam", new Period().setStart(new Date(1)).setEnd(new Date(2)));
    measureParameters.put("quantityParam", new Quantity().setValue(1).setUnit("g"));
    measureParameters.put("rangeParam", new Range().setLow(new Quantity().setUnit("g").setValue(1)).setHigh(new Quantity().setUnit("g").setValue(5)));
    measureParameters.put("ratioParam", new Ratio().setNumerator(new Quantity().setUnit("g").setValue(1)).setDenominator(new Quantity().setUnit("g").setValue(5)));
    List<Extension> parameterExtensions = measureParameters.entrySet().stream().map(x -> createMeasureParameter(x.getKey(), x.getValue())).collect(Collectors.toList());
    measure.setExtension(parameterExtensions);
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null);
    assertNotNull(report);
    List<String> parameterNames = report.getExtension().stream().filter(x -> x.getUrl().equals(MEASURE_PARAMETER_VALUE_URL)).map(x -> (ParameterDefinition) x.getValue()).map(ParameterDefinition::getName).collect(Collectors.toList());
    // Expected parameters are the ones listed above, plus the special parameters
    // measurement period and product line
    assertEquals(measureParameters.size() + 2, parameterNames.size());
    assertTrue(parameterNames.containsAll(measureParameters.keySet()));
    assertTrue(parameterNames.contains(CDMConstants.MEASUREMENT_PERIOD));
    assertTrue(parameterNames.contains(CDMConstants.PRODUCT_LINE));
}

Example 47 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_defines_returned.

@Test
public void in_populations_defines_returned() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    // Add 2 names to test list
    HumanName name1 = new HumanName();
    name1.setFamily("Jones");
    HumanName name2 = new HumanName();
    name2.setFamily("Smith");
    patient.setName(Arrays.asList(name1, name2));
    // Add marital status to test codeable concept
    CodeableConcept maritalStatus = new CodeableConcept();
    Coding maritalCoding = new Coding();
    maritalCoding.setCode("M");
    maritalCoding.setSystem("http://terminology.hl7.org/CodeSystem/v3-MaritalStatus");
    maritalCoding.setDisplay("Married");
    maritalStatus.setCoding(Arrays.asList(maritalCoding));
    maritalStatus.setText("Married");
    patient.setMaritalStatus(maritalStatus);
    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(true, DefineReturnOptions.ALL));
    assertNotNull(report);
    assertFalse(report.getEvaluatedResource().isEmpty());
    List<Extension> returnedExtensions = report.getExtensionsByUrl(CDMConstants.EVIDENCE_URL);
    assertFalse(returnedExtensions.isEmpty());
    assertEquals(30, returnedExtensions.size());
}

Example 48 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_unsupported_type.

@Test(expected = UnsupportedFhirTypeException.class)
public void measure_default_unsupported_type() 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);
    Address unsupportedType = new Address();
    unsupportedType.setCity("Cleaveland");
    measure.addExtension(createMeasureParameter("SomeAge", unsupportedType));
    mockFhirResourceRetrieval(measure);
    evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null, new MeasureEvidenceOptions());
}

Example 49 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_denominator_and_nothing_else___proportion_evaluated_correctly.

@Test
public void in_initial_population_denominator_and_nothing_else___proportion_evaluated_correctly() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    Library library = mockLibraryRetrieval("TestDummyPopulations", DEFAULT_VERSION, "cql/fhir-measure/test-dummy-populations.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);
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null);
    assertNotNull(report);
    assertEquals(expressionsByPopulationType.size(), report.getGroupFirstRep().getPopulation().size());
    for (MeasureReport.MeasureReportGroupPopulationComponent pop : report.getGroupFirstRep().getPopulation()) {
        MeasurePopulationType type = MeasurePopulationType.fromCode(pop.getCode().getCodingFirstRep().getCode());
        switch(type) {
            case INITIALPOPULATION:
                assertEquals(1, pop.getCount());
                break;
            case DENOMINATOR:
                assertEquals(1, pop.getCount());
                break;
            case NUMERATOR:
                assertEquals(0, pop.getCount());
                break;
            default:
                fail("Unexpected population type in result");
        }
    }
}

Example 50 with Measure

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

the class MeasureEvaluatorTest method elm_in_initial_population___cohort_evaluated_correctly.

@Test
public void elm_in_initial_population___cohort_evaluated_correctly() throws Exception {
    CapabilityStatement metadata = getCapabilityStatement();
    mockFhirResourceRetrieval("/metadata?_format=json", metadata);
    Patient patient = getPatient("123", AdministrativeGender.MALE, "1970-10-10");
    mockFhirResourceRetrieval(patient);
    Library library = mockLibraryRetrieval("TestDummyPopulations", DEFAULT_VERSION, "cql/fhir-measure/test-dummy-populations.xml", ELM_MIME_TYPE);
    Measure measure = getCohortMeasure("CohortMeasureName", library, INITIAL_POPULATION);
    mockFhirResourceRetrieval(measure);
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), null);
    assertNotNull(report);
    assertEquals(1, report.getGroupFirstRep().getPopulationFirstRep().getCount());
    verify(1, getRequestedFor(urlEqualTo("/Patient/123?_format=json")));
    // These ensure that the cache is working
    verify(1, getRequestedFor(urlMatching("/Library\\?url=http.*&_format=json")));
    verify(1, getRequestedFor(urlEqualTo("/Library?name%3Aexact=" + library.getName() + "&version=1.0.0&_format=json")));
}