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Merge pull request #19 from MeasureAuthoringTool/MAT-7897_OrderingDep…
…endencies MAT-7897: Adding line number to definition so they can be ordered whe…
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src/test/java/gov/cms/madie/cql_elm_translator/utils/cql/CQLToolsTest.java
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| package gov.cms.madie.cql_elm_translator.utils.cql; | ||
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| import static org.junit.jupiter.api.Assertions.*; | ||
| import static org.mockito.ArgumentMatchers.any; | ||
| import static org.mockito.Mockito.doReturn; | ||
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| import java.io.IOException; | ||
| import java.util.ArrayList; | ||
| import java.util.HashSet; | ||
| import java.util.List; | ||
| import java.util.Set; | ||
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| import org.cqframework.cql.cql2elm.CqlTranslator; | ||
| import org.cqframework.cql.cql2elm.model.CompiledLibrary; | ||
| import org.hl7.elm.r1.Element; | ||
| import org.junit.jupiter.api.Test; | ||
| import org.junit.jupiter.api.extension.ExtendWith; | ||
| import org.mockito.Mock; | ||
| import org.mockito.junit.jupiter.MockitoExtension; | ||
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| import gov.cms.madie.cql_elm_translator.utils.ResourceUtils; | ||
| import gov.cms.madie.cql_elm_translator.utils.cql.parsing.model.DefinitionContent; | ||
| import org.hl7.elm.r1.Library.Statements; | ||
| import org.hl7.elm.r1.VersionedIdentifier; | ||
| import org.hl7.elm.r1.Library; | ||
| import org.hl7.elm.r1.ExpressionDef; | ||
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| @ExtendWith(MockitoExtension.class) | ||
| class CQLToolsTest { | ||
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| @Mock private CqlTranslator cqlTranslator; | ||
| @Mock private CompiledLibrary compiledLibrary; | ||
| @Mock private Library library; | ||
| @Mock private Element element; | ||
| @Mock private Statements statements; | ||
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| VersionedIdentifier versionedIdentifier = new VersionedIdentifier(); | ||
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| List<ExpressionDef> expressionDefinitions = new ArrayList<>(); | ||
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| @Test | ||
| void testGenerate() { | ||
| versionedIdentifier.setId("local"); | ||
| String cqlData = ResourceUtils.getData("/tooling_test.cql"); | ||
| doReturn(statements).when(library).getStatements(); | ||
| doReturn(expressionDefinitions).when(statements).getDef(); | ||
| doReturn(compiledLibrary).when(cqlTranslator).getTranslatedLibrary(); | ||
| doReturn(library).when(compiledLibrary).getLibrary(); | ||
| doReturn(versionedIdentifier).when(compiledLibrary).getIdentifier(); | ||
| doReturn(element).when(compiledLibrary).resolve(any(String.class)); | ||
| Set<String> parentExpressions = new HashSet<>(); | ||
| CQLTools cqlTools = new CQLTools(cqlData, null, parentExpressions, cqlTranslator, null); | ||
| assertNotNull(cqlTools); | ||
| try { | ||
| cqlTools.generate(); | ||
| Set<DefinitionContent> contents = cqlTools.getDefinitionContents(); | ||
| assertNotNull(contents); | ||
| } catch (IOException e) { | ||
| fail(); | ||
| } | ||
| } | ||
| } |
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| library CMS986v4 version '1.0.000' | ||
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| using QDM version '5.6' | ||
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| include MATGlobalCommonFunctionsQDM version '8.0.000' called Global | ||
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| codesystem "ICD10CM": 'urn:oid:2.16.840.1.113883.6.90' | ||
| codesystem "SNOMEDCT": 'urn:oid:2.16.840.1.113883.6.96' | ||
| codesystem "LOINC": 'urn:oid:2.16.840.1.113883.6.1' | ||
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| valueset "Encounter Inpatient": 'urn:oid:2.16.840.1.113883.3.666.5.307' | ||
| valueset "Ethnicity": 'urn:oid:2.16.840.1.114222.4.11.837' | ||
| valueset "Hospital Dietitian Referral": 'urn:oid:2.16.840.1.113762.1.4.1095.91' | ||
| valueset "Malnutrition Diagnosis": 'urn:oid:2.16.840.1.113762.1.4.1095.55' | ||
| valueset "Malnutrition Risk Screening": 'urn:oid:2.16.840.1.113762.1.4.1095.92' | ||
| valueset "Malnutrition Screening Finding of At Risk Result": 'urn:oid:2.16.840.1.113762.1.4.1095.89' | ||
| valueset "Malnutrition Screening Finding of Not At Risk Result": 'urn:oid:2.16.840.1.113762.1.4.1095.34' | ||
| valueset "Nutrition Assessment": 'urn:oid:2.16.840.1.113762.1.4.1095.21' | ||
| valueset "Nutrition Assessment Status Finding of Moderately Malnourished": 'urn:oid:2.16.840.1.113762.1.4.1095.47' | ||
| valueset "Nutrition Assessment Status Finding of Severely Malnourished": 'urn:oid:2.16.840.1.113762.1.4.1095.43' | ||
| valueset "Nutrition Assessment Status Finding of Well Nourished or Not Malnourished or Mildly Malnourished": 'urn:oid:2.16.840.1.113762.1.4.1095.96' | ||
| valueset "Nutrition Care Plan": 'urn:oid:2.16.840.1.113762.1.4.1095.93' | ||
| valueset "ONC Administrative Sex": 'urn:oid:2.16.840.1.113762.1.4.1' | ||
| valueset "Payer Type": 'urn:oid:2.16.840.1.114222.4.11.3591' | ||
| valueset "Race": 'urn:oid:2.16.840.1.114222.4.11.836' | ||
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| code "Status post administration of tPA (rtPA) in a different facility within the last 24 hours prior to admission to current facility": 'Z92.82' from "ICD10CM" display 'Status post administration of tPA (rtPA) in a different facility within the last 24 hours prior to admission to current facility' | ||
| code "Angina pectoris with documented spasm": 'I20.1' from "ICD10CM" display 'Angina pectoris with documented spasm' | ||
| code "Takotsubo syndrome": 'I51.81' from "ICD10CM" display 'Takotsubo syndrome' | ||
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| parameter "Measurement Muggle" Interval<DateTime> | ||
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| parameter "Measurement Period" Interval<DateTime> | ||
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| context Patient | ||
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| define "SDE Payer": | ||
| ["Patient Characteristic Payer": "Payer Type"] | ||
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| define "SDE Ethnicity": | ||
| ["Patient Characteristic Ethnicity": "Ethnicity"] | ||
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| define "SDE Race": | ||
| ["Patient Characteristic Race": "Race"] | ||
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| define "SDE Sex": | ||
| ["Patient Characteristic Sex": "ONC Administrative Sex"] | ||
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| define "Measure Population": | ||
| "Initial Population" | ||
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| define "Initial Population": | ||
| ["Encounter, Performed": "Encounter Inpatient"] EncounterInpatient | ||
| where AgeInYearsAt(date from start of EncounterInpatient.relevantPeriod) >= 65 | ||
| and duration in hours of EncounterInpatient.relevantPeriod >= 24 | ||
| and EncounterInpatient.relevantPeriod during day of "Measurement Period" | ||
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| define "Encounter with Hospital Dietitian Referral": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Intervention, Order": "Hospital Dietitian Referral"] HospitalDietitianReferral | ||
| such that HospitalDietitianReferral.authorDatetime during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
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| define "Encounter with Malnutrition Risk Screening and Identified Result or with Hospital Dietitian Referral": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Malnutrition Risk Screening"] MalnutritionRiskScreening | ||
| such that Coalesce(start of Global."NormalizeInterval"(MalnutritionRiskScreening.relevantDatetime, MalnutritionRiskScreening.relevantPeriod), MalnutritionRiskScreening.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
| and ( ( MalnutritionRiskScreening.result in "Malnutrition Screening Finding of At Risk Result" ) | ||
| or ( MalnutritionRiskScreening.result in "Malnutrition Screening Finding of Not At Risk Result" ) | ||
| ) | ||
| or exists ( "Encounter with Hospital Dietitian Referral" ) | ||
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| define "Encounter with Malnutrition Screening Not At Risk Result": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Malnutrition Risk Screening"] MalnutritionRiskScreening | ||
| such that Coalesce(start of Global."NormalizeInterval"(MalnutritionRiskScreening.relevantDatetime, MalnutritionRiskScreening.relevantPeriod), MalnutritionRiskScreening.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
| and MalnutritionRiskScreening.result in "Malnutrition Screening Finding of Not At Risk Result" | ||
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| define "Encounter with Malnutrition Not at Risk Result and without Hospital Dietitian Referral": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Malnutrition Risk Screening"] MalnutritionRiskScreening | ||
| such that exists ( "Encounter with Malnutrition Screening Not At Risk Result" ) | ||
| and not exists ( "Encounter with Hospital Dietitian Referral" ) | ||
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| define "Encounter with Malnutrition Screening At Risk Result": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Malnutrition Risk Screening"] MalnutritionRiskScreening | ||
| such that Coalesce(start of Global."NormalizeInterval"(MalnutritionRiskScreening.relevantDatetime, MalnutritionRiskScreening.relevantPeriod), MalnutritionRiskScreening.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
| and MalnutritionRiskScreening.result in "Malnutrition Screening Finding of At Risk Result" | ||
| and not ( exists "Encounter with Malnutrition Screening Not At Risk Result" ) | ||
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| define "Encounter with Nutrition Assessment and Identified Status": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Nutrition Assessment"] NutritionAssessment | ||
| such that Coalesce(start of Global."NormalizeInterval"(NutritionAssessment.relevantDatetime, NutritionAssessment.relevantPeriod), NutritionAssessment.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
| and ( NutritionAssessment.result in "Nutrition Assessment Status Finding of Well Nourished or Not Malnourished or Mildly Malnourished" | ||
| or ( NutritionAssessment.result in "Nutrition Assessment Status Finding of Moderately Malnourished" ) | ||
| or ( NutritionAssessment.result in "Nutrition Assessment Status Finding of Severely Malnourished" ) | ||
| ) | ||
| and ( exists "Encounter with Malnutrition Screening At Risk Result" | ||
| or exists ( "Encounter with Hospital Dietitian Referral" ) | ||
| ) | ||
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| define "Encounter with Nutrition Assessment Status Not or Mildly Malnourished": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Nutrition Assessment"] NutritionAssessment | ||
| such that Coalesce(start of Global."NormalizeInterval"(NutritionAssessment.relevantDatetime, NutritionAssessment.relevantPeriod), NutritionAssessment.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
| and NutritionAssessment.result in "Nutrition Assessment Status Finding of Well Nourished or Not Malnourished or Mildly Malnourished" | ||
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| define "Encounter with Nutrition Assessment Status Finding of Moderately Malnourished": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Nutrition Assessment"] NutritionAssessment | ||
| such that Coalesce(start of Global."NormalizeInterval"(NutritionAssessment.relevantDatetime, NutritionAssessment.relevantPeriod), NutritionAssessment.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
| and NutritionAssessment.result in "Nutrition Assessment Status Finding of Moderately Malnourished" | ||
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| define "Encounter with Nutrition Assessment Status Finding of Severely Malnourished": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Assessment, Performed": "Nutrition Assessment"] NutritionAssessment | ||
| such that Coalesce(start of Global."NormalizeInterval"(NutritionAssessment.relevantDatetime, NutritionAssessment.relevantPeriod), NutritionAssessment.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
| and NutritionAssessment.result in "Nutrition Assessment Status Finding of Severely Malnourished" | ||
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| define "Encounter with Malnutrition Diagnosis": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Diagnosis": "Malnutrition Diagnosis"] MalnutritionDiagnosis | ||
| such that MalnutritionDiagnosis.prevalencePeriod overlaps Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
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| define "Encounter with Nutrition Care Plan": | ||
| "Initial Population" QualifyingEncounter | ||
| with ["Intervention, Performed": "Nutrition Care Plan"] NutritionCarePlan | ||
| such that Coalesce(start of Global."NormalizeInterval"(NutritionCarePlan.relevantDatetime, NutritionCarePlan.relevantPeriod), NutritionCarePlan.authorDatetime) during Global."HospitalizationWithObservation" ( QualifyingEncounter ) | ||
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| define function "Measure Observation 1"(Encounter "Encounter, Performed"): | ||
| if ( "Encounter with Malnutrition Risk Screening and Identified Result or with Hospital Dietitian Referral" contains Encounter | ||
| and ( "Encounter with Malnutrition Screening Not At Risk Result" contains Encounter | ||
| or ( "Encounter with Malnutrition Screening At Risk Result" contains Encounter ) | ||
| ) | ||
| or exists ( "Encounter with Hospital Dietitian Referral" ) | ||
| ) then 1 | ||
| else 0 | ||
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| define function "Measure Observation 2"(Encounter "Encounter, Performed"): | ||
| if ( "Encounter with Malnutrition Not at Risk Result and without Hospital Dietitian Referral" ) contains Encounter then 0 | ||
| else if ( "Encounter with Nutrition Assessment and Identified Status" contains Encounter | ||
| and ( ( "Encounter with Nutrition Assessment Status Not or Mildly Malnourished" contains Encounter | ||
| or "Encounter with Nutrition Assessment Status Finding of Moderately Malnourished" contains Encounter | ||
| or "Encounter with Nutrition Assessment St... |