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39 changes: 39 additions & 0 deletions
39
api/src/main/java/com/lantanagroup/link/api/MeasureDef.java
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,39 @@ | ||
| package com.lantanagroup.link.api; | ||
|
|
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| import com.lantanagroup.link.StreamUtils; | ||
| import lombok.Getter; | ||
| import org.hl7.fhir.instance.model.api.IBaseResource; | ||
| import org.hl7.fhir.r4.model.Bundle; | ||
| import org.hl7.fhir.r4.model.Measure; | ||
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|
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| import java.util.List; | ||
| import java.util.stream.Collectors; | ||
|
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| @Getter | ||
| public class MeasureDef { | ||
| private final Measure measure; | ||
| private final List<IBaseResource> resources; | ||
|
|
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| public MeasureDef(Bundle bundle) { | ||
| measure = bundle.getEntry().stream() | ||
| .map(Bundle.BundleEntryComponent::getResource) | ||
| .filter(resource -> resource instanceof Measure) | ||
| .map(resource -> (Measure) resource) | ||
| .reduce(StreamUtils::toOnlyElement) | ||
| .orElseThrow(); | ||
|
|
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| // Ensure all populations have an ID | ||
| for (Measure.MeasureGroupComponent group : measure.getGroup()) { | ||
| for (Measure.MeasureGroupPopulationComponent population : group.getPopulation()) { | ||
| if (!population.hasId()) { | ||
| population.setId(population.getCode().getCodingFirstRep().getCode()); | ||
| } | ||
| } | ||
| } | ||
|
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| resources = bundle.getEntry().stream() | ||
| .map(Bundle.BundleEntryComponent::getResource) | ||
| .filter(resource -> !(resource instanceof Measure)) | ||
| .collect(Collectors.toList()); | ||
| } | ||
| } |
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79 changes: 79 additions & 0 deletions
79
api/src/main/java/com/lantanagroup/link/api/MeasureService.java
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,79 @@ | ||
| package com.lantanagroup.link.api; | ||
|
|
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| import com.lantanagroup.link.Constants; | ||
| import com.lantanagroup.link.FhirContextProvider; | ||
| import org.apache.commons.lang3.StringUtils; | ||
| import org.hl7.fhir.instance.model.api.IBaseResource; | ||
| import org.hl7.fhir.r4.model.Bundle; | ||
| import org.hl7.fhir.r4.model.Coding; | ||
| import org.hl7.fhir.r4.model.Endpoint; | ||
| import org.hl7.fhir.r4.model.MeasureReport; | ||
| import org.opencds.cqf.fhir.api.Repository; | ||
| import org.opencds.cqf.fhir.cql.EvaluationSettings; | ||
| import org.opencds.cqf.fhir.cql.engine.retrieve.RetrieveSettings; | ||
| import org.opencds.cqf.fhir.cql.engine.terminology.TerminologySettings; | ||
| import org.opencds.cqf.fhir.cr.measure.MeasureEvaluationOptions; | ||
| import org.opencds.cqf.fhir.cr.measure.r4.R4MeasureService; | ||
| import org.opencds.cqf.fhir.utility.monad.Eithers; | ||
| import org.opencds.cqf.fhir.utility.repository.InMemoryFhirRepository; | ||
|
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| public class MeasureService { | ||
| private final MeasureDef measureDef; | ||
| private final R4MeasureService measureService; | ||
| private final Endpoint terminologyEndpoint; | ||
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| public MeasureService(Bundle measureDefBundle, String terminologyService) { | ||
| measureDef = new MeasureDef(measureDefBundle); | ||
| Repository repository = new InMemoryFhirRepository(FhirContextProvider.getFhirContext()); | ||
| for (IBaseResource resource : measureDef.getResources()) { | ||
| repository.update(resource); | ||
| } | ||
| MeasureEvaluationOptions options = MeasureEvaluationOptions.defaultOptions(); | ||
| EvaluationSettings evaluationSettings = options.getEvaluationSettings(); | ||
| evaluationSettings.getTerminologySettings() | ||
| .setValuesetPreExpansionMode(TerminologySettings.VALUESET_PRE_EXPANSION_MODE.USE_IF_PRESENT) | ||
| .setValuesetExpansionMode(TerminologySettings.VALUESET_EXPANSION_MODE.PERFORM_NAIVE_EXPANSION) | ||
| .setValuesetMembershipMode(TerminologySettings.VALUESET_MEMBERSHIP_MODE.USE_EXPANSION) | ||
| .setCodeLookupMode(TerminologySettings.CODE_LOOKUP_MODE.USE_CODESYSTEM_URL); | ||
| evaluationSettings.getRetrieveSettings() | ||
| .setTerminologyParameterMode(RetrieveSettings.TERMINOLOGY_FILTER_MODE.FILTER_IN_MEMORY) | ||
| .setSearchParameterMode(RetrieveSettings.SEARCH_FILTER_MODE.FILTER_IN_MEMORY) | ||
| .setProfileMode(RetrieveSettings.PROFILE_MODE.DECLARED); | ||
| measureService = new R4MeasureService(repository, options); | ||
| terminologyEndpoint = getTerminologyEndpoint(terminologyService); | ||
| } | ||
|
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| private static Endpoint getTerminologyEndpoint(String terminologyService) { | ||
| if (StringUtils.isEmpty(terminologyService)) { | ||
| return null; | ||
| } | ||
| Endpoint endpoint = new Endpoint(); | ||
| endpoint.setStatus(Endpoint.EndpointStatus.ACTIVE); | ||
| endpoint.setConnectionType(new Coding()); | ||
| endpoint.getConnectionType().setSystem(Constants.TerminologyEndpointSystem); | ||
| endpoint.getConnectionType().setCode(Constants.TerminologyEndpointCode); | ||
| endpoint.setAddress(terminologyService); | ||
| return endpoint; | ||
| } | ||
|
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| public void preCompile() { | ||
| evaluate(null, null, null, null); | ||
| } | ||
|
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| public MeasureReport evaluate(String periodStart, String periodEnd, String subject, Bundle additionalData) { | ||
| return measureService.evaluate( | ||
| Eithers.forRight3(measureDef.getMeasure()), | ||
| periodStart, | ||
| periodEnd, | ||
| null, | ||
| subject, | ||
| null, | ||
| null, | ||
| terminologyEndpoint, | ||
| null, | ||
| additionalData, | ||
| null, | ||
| null, | ||
| null); | ||
| } | ||
| } |
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