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Example 21 with IntervalParameter

use of com.ibm.cohort.cql.evaluation.parameters.IntervalParameter 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);
}
Also used : MeasureContext(com.ibm.cohort.engine.measure.MeasureContext) DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) HashMap(java.util.HashMap) DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) Parameter(com.ibm.cohort.cql.evaluation.parameters.Parameter) FhirServerConfig(com.ibm.cohort.fhir.client.config.FhirServerConfig) MeasureEvidenceOptions(com.ibm.cohort.engine.measure.evidence.MeasureEvidenceOptions) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) ObjectMapper(com.fasterxml.jackson.databind.ObjectMapper) Test(org.junit.Test)

Example 22 with IntervalParameter

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

the class CohortEvaluationTest 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));
    CohortEvaluation evaluation = new CohortEvaluation();
    evaluation.setDataServerConfig(dataServerConfig);
    evaluation.setTerminologyServerConfig(termServerConfig);
    evaluation.setPatientIds("patientId");
    evaluation.setParameters(parameterOverrides);
    evaluation.setLoggingLevel(CqlDebug.TRACE);
    evaluation.setEntrypoint("test-1.0.0.cql");
    evaluation.setDefineToRun("fakeDefine");
    ObjectMapper om = new ObjectMapper();
    String serialized = om.writeValueAsString(evaluation);
    CohortEvaluation deserialized = om.readValue(serialized, CohortEvaluation.class);
    assertEquals(evaluation, deserialized);
}
Also used : DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) HashMap(java.util.HashMap) DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) Parameter(com.ibm.cohort.cql.evaluation.parameters.Parameter) FhirServerConfig(com.ibm.cohort.fhir.client.config.FhirServerConfig) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) ObjectMapper(com.fasterxml.jackson.databind.ObjectMapper) Test(org.junit.Test)

Example 23 with IntervalParameter

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

the class MeasureEvaluatorTest method measure_report_generated___named_parameters_on_measure_report.

@Test
public void measure_report_generated___named_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);
    mockFhirResourceRetrieval(measure);
    Map<String, Parameter> parameterMap = new HashMap<>();
    parameterMap.put("integerParam", new IntegerParameter(1));
    parameterMap.put("decimalParam", new DecimalParameter("1.0"));
    parameterMap.put("stringParam", new StringParameter("1"));
    parameterMap.put("booleanParam", new BooleanParameter(false));
    parameterMap.put("datetimeParam", new DatetimeParameter("2020-01-01"));
    parameterMap.put("dateParam", new DateParameter("2020-01-01"));
    parameterMap.put("timeParam", new TimeParameter("01:00:00"));
    parameterMap.put("quantityParam", new QuantityParameter("1.0", "ml"));
    parameterMap.put("ratioParam", new RatioParameter(new QuantityParameter("1.0", "ml"), new QuantityParameter("2.0", "ml")));
    parameterMap.put("codeParam", new CodeParameter("1", "2", "3", "4"));
    parameterMap.put("conceptParam", new ConceptParameter("1", new CodeParameter("1", "2", "3", "4")));
    parameterMap.put("datetimeIntervalParam", new IntervalParameter(new DatetimeParameter("2020-01-01"), true, new DatetimeParameter("2021-01-01"), true));
    parameterMap.put("quantityIntervalParam", new IntervalParameter(new QuantityParameter("1.0", "ml"), true, new QuantityParameter("2.0", "ml"), true));
    MeasureReport report = evaluator.evaluatePatientMeasure(measure.getId(), patient.getId(), parameterMap);
    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(parameterMap.size() + 2, parameterNames.size());
    assertTrue(parameterNames.containsAll(parameterMap.keySet()));
    assertTrue(parameterNames.contains(CDMConstants.MEASUREMENT_PERIOD));
    assertTrue(parameterNames.contains(CDMConstants.PRODUCT_LINE));
}
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) 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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) 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CodeParameter(com.ibm.cohort.cql.evaluation.parameters.CodeParameter) DecimalParameter(com.ibm.cohort.cql.evaluation.parameters.DecimalParameter) DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) CapabilityStatement(org.hl7.fhir.r4.model.CapabilityStatement) Measure(org.hl7.fhir.r4.model.Measure) ConceptParameter(com.ibm.cohort.cql.evaluation.parameters.ConceptParameter) RatioParameter(com.ibm.cohort.cql.evaluation.parameters.RatioParameter) IntegerParameter(com.ibm.cohort.cql.evaluation.parameters.IntegerParameter) DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) CodeParameter(com.ibm.cohort.cql.evaluation.parameters.CodeParameter) Parameter(com.ibm.cohort.cql.evaluation.parameters.Parameter) DatetimeParameter(com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) DecimalParameter(com.ibm.cohort.cql.evaluation.parameters.DecimalParameter) QuantityParameter(com.ibm.cohort.cql.evaluation.parameters.QuantityParameter) StringParameter(com.ibm.cohort.cql.evaluation.parameters.StringParameter) TimeParameter(com.ibm.cohort.cql.evaluation.parameters.TimeParameter) BooleanParameter(com.ibm.cohort.cql.evaluation.parameters.BooleanParameter) DatetimeParameter(com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter) TimeParameter(com.ibm.cohort.cql.evaluation.parameters.TimeParameter) Library(org.hl7.fhir.r4.model.Library) RatioParameter(com.ibm.cohort.cql.evaluation.parameters.RatioParameter) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) Test(org.junit.Test)

Example 24 with IntervalParameter

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

the class DefaultMeasurementPeriodStrategyTest method parameter_not_null_datetime_with_ampersand___value_used.

@Test
public void parameter_not_null_datetime_with_ampersand___value_used() {
    Measure measure = new Measure();
    Map<String, Parameter> parameterOverrides = Collections.singletonMap(DefaultMeasurementPeriodStrategy.DEFAULT_MEASUREMENT_PERIOD_PARAMETER, new IntervalParameter(new DatetimeParameter("@2020-01-01T00:00:00.0"), true, new DatetimeParameter("@2021-01-01T00:00:00.0"), true));
    Pair<String, String> result = new DefaultMeasurementPeriodStrategy().getMeasurementPeriod(measure, parameterOverrides);
    assertEquals("Unexpected start", "2020-01-01", result.getLeft());
    assertEquals("Unexpected end", "2021-01-01", result.getRight());
}
Also used : Measure(org.hl7.fhir.r4.model.Measure) DateParameter(com.ibm.cohort.cql.evaluation.parameters.DateParameter) DatetimeParameter(com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) Parameter(com.ibm.cohort.cql.evaluation.parameters.Parameter) DatetimeParameter(com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) Test(org.junit.Test)

Example 25 with IntervalParameter

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

the class R4ParameterDefinitionWithDefaultToCohortParameterConverterTest method testPeriod__shouldReturnIntervalParameterOfDateTimeParameter.

@Test
public void testPeriod__shouldReturnIntervalParameterOfDateTimeParameter() {
    ParameterDefinition parameterDefinition = getBaseParameterDefinition("Period");
    Period fhirValue = new Period();
    fhirValue.setStartElement(new DateTimeType("2020-01-01T12:00:00.0"));
    fhirValue.setEndElement(new DateTimeType("2020-02-04T11:00:00.0-05:00"));
    parameterDefinition.addExtension(CDMConstants.PARAMETER_DEFAULT_URL, fhirValue);
    IntervalParameter expectedParameter = new IntervalParameter(new DatetimeParameter("2020-01-01T12:00:00.0"), true, new DatetimeParameter("2020-02-04T11:00:00.0-05:00"), true);
    assertEquals(expectedParameter, R4ParameterDefinitionWithDefaultToCohortParameterConverter.toCohortParameter(parameterDefinition));
}
Also used : DateTimeType(org.hl7.fhir.r4.model.DateTimeType) Period(org.hl7.fhir.r4.model.Period) DatetimeParameter(com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter) IntervalParameter(com.ibm.cohort.cql.evaluation.parameters.IntervalParameter) ParameterDefinition(org.hl7.fhir.r4.model.ParameterDefinition) Test(org.junit.Test)

Aggregations

IntervalParameter (com.ibm.cohort.cql.evaluation.parameters.IntervalParameter)26 Test (org.junit.Test)24 Parameter (com.ibm.cohort.cql.evaluation.parameters.Parameter)23 DateParameter (com.ibm.cohort.cql.evaluation.parameters.DateParameter)17 HashMap (java.util.HashMap)14 DatetimeParameter (com.ibm.cohort.cql.evaluation.parameters.DatetimeParameter)12 Measure (org.hl7.fhir.r4.model.Measure)12 ObjectMapper (com.fasterxml.jackson.databind.ObjectMapper)11 MeasureContext (com.ibm.cohort.engine.measure.MeasureContext)10 IntegerParameter (com.ibm.cohort.cql.evaluation.parameters.IntegerParameter)9 FhirServerConfig (com.ibm.cohort.fhir.client.config.FhirServerConfig)9 Library (org.hl7.fhir.r4.model.Library)9 FhirContext (ca.uhn.fhir.context.FhirContext)8 IParser (ca.uhn.fhir.parser.IParser)8 QuantityParameter (com.ibm.cohort.cql.evaluation.parameters.QuantityParameter)8 PatientListMeasureEvaluation (com.ibm.cohort.engine.api.service.model.PatientListMeasureEvaluation)8 ByteArrayInputStream (java.io.ByteArrayInputStream)8 ByteArrayOutputStream (java.io.ByteArrayOutputStream)8 BooleanParameter (com.ibm.cohort.cql.evaluation.parameters.BooleanParameter)7 CodeParameter (com.ibm.cohort.cql.evaluation.parameters.CodeParameter)7