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87
api/src/main/java/org/openmrs/module/labonfhir/api/fhir/ServiceRequestDaoImpl.java
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| package org.openmrs.module.labonfhir.api.fhir; | ||
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| import static org.hibernate.criterion.Restrictions.and; | ||
| import static org.hibernate.criterion.Restrictions.or; | ||
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| import java.util.Optional; | ||
| import java.util.stream.Stream; | ||
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| import ca.uhn.fhir.rest.param.DateRangeParam; | ||
| import ca.uhn.fhir.rest.param.ReferenceAndListParam; | ||
| import ca.uhn.fhir.rest.param.TokenAndListParam; | ||
| import lombok.AccessLevel; | ||
| import lombok.Setter; | ||
| import org.hibernate.Criteria; | ||
| import org.hibernate.criterion.Criterion; | ||
| import org.openmrs.Obs; | ||
| import org.openmrs.TestOrder; | ||
| import org.openmrs.module.fhir2.FhirConstants; | ||
| import org.openmrs.module.fhir2.api.dao.FhirServiceRequestDao; | ||
| import org.openmrs.module.fhir2.api.dao.impl.BaseFhirDao; | ||
| import org.openmrs.module.fhir2.api.search.param.SearchParameterMap; | ||
| import org.openmrs.module.labonfhir.LabOnFhirConfig; | ||
| import org.springframework.beans.factory.annotation.Autowired; | ||
| import org.springframework.context.annotation.Primary; | ||
| import org.springframework.stereotype.Component; | ||
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| @Primary | ||
| @Component | ||
| @Setter(AccessLevel.PACKAGE) | ||
| public class ServiceRequestDaoImpl extends BaseFhirDao<Obs> implements FhirServiceRequestDao<Obs> { | ||
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| @Autowired | ||
| private LabOnFhirConfig config; | ||
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| @Override | ||
| protected void setupSearchParams(Criteria criteria, SearchParameterMap theParams) { | ||
| theParams.getParameters().forEach(entry -> { | ||
| switch (entry.getKey()) { | ||
| case FhirConstants.ENCOUNTER_REFERENCE_SEARCH_HANDLER: | ||
| entry.getValue().forEach(param -> handleEncounterReference("e", (ReferenceAndListParam) param.getParam()) | ||
| .ifPresent(c -> criteria.createAlias("encounter", "e").add(c))); | ||
| break; | ||
| case FhirConstants.PATIENT_REFERENCE_SEARCH_HANDLER: | ||
| entry.getValue().forEach(patientReference -> handlePatientReference(criteria, | ||
| (ReferenceAndListParam) patientReference.getParam(), "patient")); | ||
| break; | ||
| case FhirConstants.CODED_SEARCH_HANDLER: | ||
| entry.getValue().forEach(code -> handleCodedConcept(criteria, (TokenAndListParam) code.getParam())); | ||
| break; | ||
| case FhirConstants.PARTICIPANT_REFERENCE_SEARCH_HANDLER: | ||
| entry.getValue().forEach(participantReference -> handleProviderReference(criteria, | ||
| (ReferenceAndListParam) participantReference.getParam())); | ||
| break; | ||
| case FhirConstants.DATE_RANGE_SEARCH_HANDLER: | ||
| entry.getValue().forEach(dateRangeParam -> handleDateRange((DateRangeParam) dateRangeParam.getParam()) | ||
| .ifPresent(criteria::add)); | ||
| break; | ||
| case FhirConstants.COMMON_SEARCH_HANDLER: | ||
| handleCommonSearchParameters(entry.getValue()).ifPresent(criteria::add); | ||
| break; | ||
| } | ||
| }); | ||
| } | ||
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| private void handleCodedConcept(Criteria criteria, TokenAndListParam code) { | ||
| if (code != null) { | ||
| if (lacksAlias(criteria, "c")) { | ||
| criteria.createAlias("concept", "c"); | ||
| } | ||
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| handleCodeableConcept(criteria, code, "c", "cm", "crt").ifPresent(criteria::add); | ||
| } | ||
| } | ||
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| private Optional<Criterion> handleDateRange(DateRangeParam dateRangeParam) { | ||
| if (dateRangeParam == null) { | ||
| return Optional.empty(); | ||
| } | ||
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| return Optional.of(and(toCriteriaArray(Stream.of( | ||
| Optional.of(or(toCriteriaArray(Stream.of(handleDate("scheduledDate", dateRangeParam.getLowerBound()), | ||
| handleDate("dateActivated", dateRangeParam.getLowerBound()))))), | ||
| Optional.of(or(toCriteriaArray(Stream.of(handleDate("dateStopped", dateRangeParam.getUpperBound()), | ||
| handleDate("autoExpireDate", dateRangeParam.getUpperBound()))))))))); | ||
| } | ||
|
|
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| } |
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api/src/main/java/org/openmrs/module/labonfhir/api/fhir/ServiceRequestServiceImpl.java
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| package org.openmrs.module.labonfhir.api.fhir; | ||
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| import java.util.HashSet; | ||
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| import ca.uhn.fhir.model.api.Include; | ||
| import ca.uhn.fhir.rest.api.server.IBundleProvider; | ||
| import ca.uhn.fhir.rest.param.DateRangeParam; | ||
| import ca.uhn.fhir.rest.param.ReferenceAndListParam; | ||
| import ca.uhn.fhir.rest.param.TokenAndListParam; | ||
| import lombok.AccessLevel; | ||
| import lombok.Getter; | ||
| import lombok.Setter; | ||
| import org.hl7.fhir.r4.model.ServiceRequest; | ||
| import org.openmrs.Obs; | ||
| import org.openmrs.TestOrder; | ||
| import org.openmrs.module.fhir2.FhirConstants; | ||
| import org.openmrs.module.fhir2.api.FhirServiceRequestService; | ||
| import org.openmrs.module.fhir2.api.dao.FhirServiceRequestDao; | ||
| import org.openmrs.module.fhir2.api.impl.BaseFhirService; | ||
| import org.openmrs.module.fhir2.api.search.SearchQuery; | ||
| import org.openmrs.module.fhir2.api.search.SearchQueryInclude; | ||
| import org.openmrs.module.fhir2.api.search.param.SearchParameterMap; | ||
| import org.openmrs.module.fhir2.api.translators.ServiceRequestTranslator; | ||
| import org.springframework.beans.factory.annotation.Autowired; | ||
| import org.springframework.context.annotation.Primary; | ||
| import org.springframework.stereotype.Component; | ||
| import org.springframework.transaction.annotation.Transactional; | ||
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| @Primary | ||
| @Component | ||
| @Transactional | ||
| @Getter(AccessLevel.PROTECTED) | ||
| @Setter(AccessLevel.PACKAGE) | ||
| public class ServiceRequestServiceImpl extends BaseFhirService<ServiceRequest, Obs> implements FhirServiceRequestService { | ||
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| @Autowired | ||
| private ServiceRequestTranslator<Obs> translator; | ||
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| @Autowired | ||
| private FhirServiceRequestDao<Obs> dao; | ||
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| @Autowired | ||
| private SearchQueryInclude<ServiceRequest> searchQueryInclude; | ||
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| @Autowired | ||
| private SearchQuery<Obs, ServiceRequest, FhirServiceRequestDao<Obs>, ServiceRequestTranslator<Obs>, SearchQueryInclude<ServiceRequest>> searchQuery; | ||
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| @Override | ||
| public IBundleProvider searchForServiceRequests(ReferenceAndListParam patientReference, TokenAndListParam code, | ||
| ReferenceAndListParam encounterReference, ReferenceAndListParam participantReference, DateRangeParam occurrence, | ||
| TokenAndListParam uuid, DateRangeParam lastUpdated, HashSet<Include> includes) { | ||
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| SearchParameterMap theParams = new SearchParameterMap() | ||
| .addParameter(FhirConstants.PATIENT_REFERENCE_SEARCH_HANDLER, patientReference) | ||
| .addParameter(FhirConstants.CODED_SEARCH_HANDLER, code) | ||
| .addParameter(FhirConstants.ENCOUNTER_REFERENCE_SEARCH_HANDLER, encounterReference) | ||
| .addParameter(FhirConstants.PARTICIPANT_REFERENCE_SEARCH_HANDLER, participantReference) | ||
| .addParameter(FhirConstants.DATE_RANGE_SEARCH_HANDLER, occurrence) | ||
| .addParameter(FhirConstants.COMMON_SEARCH_HANDLER, FhirConstants.ID_PROPERTY, uuid) | ||
| .addParameter(FhirConstants.COMMON_SEARCH_HANDLER, FhirConstants.LAST_UPDATED_PROPERTY, lastUpdated) | ||
| .addParameter(FhirConstants.INCLUDE_SEARCH_HANDLER, includes); | ||
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| return searchQuery.getQueryResults(theParams, dao, translator, searchQueryInclude); | ||
| } | ||
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| } |
201 changes: 201 additions & 0 deletions
201
api/src/main/java/org/openmrs/module/labonfhir/api/fhir/ServiceRequestTranslatorImpl.java
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| @@ -0,0 +1,201 @@ | ||
| package org.openmrs.module.labonfhir.api.fhir; | ||
| /* | ||
| * This Source Code Form is subject to the terms of the Mozilla Public License, | ||
| * v. 2.0. If a copy of the MPL was not distributed with this file, You can | ||
| * obtain one at http://mozilla.org/MPL/2.0/. OpenMRS is also distributed under | ||
| * the terms of the Healthcare Disclaimer located at http://openmrs.org/license. | ||
| * | ||
| * Copyright (C) OpenMRS Inc. OpenMRS is a registered trademark and the OpenMRS | ||
| * graphic logo is a trademark of OpenMRS Inc. | ||
| */ | ||
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| import static org.apache.commons.lang3.Validate.notNull; | ||
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| import javax.annotation.Nonnull; | ||
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| import java.util.Collection; | ||
| import java.util.Collections; | ||
| import java.util.Date; | ||
| import java.util.Set; | ||
| import java.util.stream.Collectors; | ||
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| import ca.uhn.fhir.rest.api.server.IBundleProvider; | ||
| import ca.uhn.fhir.rest.param.ReferenceAndListParam; | ||
| import ca.uhn.fhir.rest.param.ReferenceOrListParam; | ||
| import ca.uhn.fhir.rest.param.ReferenceParam; | ||
| import lombok.AccessLevel; | ||
| import lombok.Setter; | ||
| import org.hl7.fhir.r4.model.Period; | ||
| import org.hl7.fhir.r4.model.Reference; | ||
| import org.hl7.fhir.r4.model.ServiceRequest; | ||
| import org.hl7.fhir.r4.model.Task; | ||
| import org.openmrs.Encounter; | ||
| import org.openmrs.EncounterProvider; | ||
| import org.openmrs.Obs; | ||
| import org.openmrs.Order; | ||
| import org.openmrs.Patient; | ||
| import org.openmrs.Provider; | ||
| import org.openmrs.TestOrder; | ||
| import org.openmrs.module.fhir2.api.FhirTaskService; | ||
| import org.openmrs.module.fhir2.api.translators.ConceptTranslator; | ||
| import org.openmrs.module.fhir2.api.translators.EncounterReferenceTranslator; | ||
| import org.openmrs.module.fhir2.api.translators.OrderIdentifierTranslator; | ||
| import org.openmrs.module.fhir2.api.translators.PatientReferenceTranslator; | ||
| import org.openmrs.module.fhir2.api.translators.PractitionerReferenceTranslator; | ||
| import org.openmrs.module.fhir2.api.translators.ServiceRequestTranslator; | ||
| import org.openmrs.module.fhir2.api.translators.impl.BaseReferenceHandlingTranslator; | ||
| import org.openmrs.module.labonfhir.LabOnFhirConfig; | ||
| import org.springframework.beans.factory.annotation.Autowired; | ||
| import org.springframework.context.annotation.Primary; | ||
| import org.springframework.stereotype.Component; | ||
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| @Primary | ||
| @Component | ||
| @Setter(AccessLevel.PACKAGE) | ||
| public class ServiceRequestTranslatorImpl extends BaseReferenceHandlingTranslator implements ServiceRequestTranslator<Obs> { | ||
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| private static final int START_INDEX = 0; | ||
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| private static final int END_INDEX = 10; | ||
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| @Autowired | ||
| private LabOnFhirConfig config; | ||
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| @Autowired | ||
| private FhirTaskService taskService; | ||
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| @Autowired | ||
| private ConceptTranslator conceptTranslator; | ||
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| @Autowired | ||
| private PatientReferenceTranslator patientReferenceTranslator; | ||
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| @Autowired | ||
| private EncounterReferenceTranslator<Encounter> encounterReferenceTranslator; | ||
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| @Autowired | ||
| private PractitionerReferenceTranslator<Provider> providerReferenceTranslator; | ||
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| @Autowired | ||
| private OrderIdentifierTranslator orderIdentifierTranslator; | ||
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| @Override | ||
| public ServiceRequest toFhirResource(@Nonnull Obs order) { | ||
| notNull(order, "The Obs object should not be null"); | ||
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| if (!order.getConcept().getUuid().equals(config.getTestOrderConceptUuid())) { | ||
| return null; | ||
| } | ||
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| ServiceRequest serviceRequest = new ServiceRequest(); | ||
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| serviceRequest.setId(order.getUuid()); | ||
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| serviceRequest.setStatus(determineServiceRequestStatus(order)); | ||
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| serviceRequest.setCode(conceptTranslator.toFhirResource(order.getValueCoded())); | ||
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| serviceRequest.setIntent(ServiceRequest.ServiceRequestIntent.ORDER); | ||
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| serviceRequest.setSubject(patientReferenceTranslator.toFhirResource((Patient) order.getPerson())); | ||
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| serviceRequest.setEncounter(encounterReferenceTranslator.toFhirResource(order.getEncounter())); | ||
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| serviceRequest.setRequester(providerReferenceTranslator.toFhirResource(determineRequester(order))); | ||
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| serviceRequest.setPerformer(Collections.singletonList(determineServiceRequestPerformer(order.getUuid()))); | ||
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| serviceRequest.getMeta().setLastUpdated(order.getDateChanged()); | ||
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| // TODO: Figure out how Obs structure translates to these fields | ||
| /* | ||
| serviceRequest | ||
| .setOccurrence(new Period().setStart(order.getEffectiveStartDate()).setEnd(order.getEffectiveStopDate())); | ||
| if (order.getPreviousOrder() != null | ||
| && (order.getAction() == Order.Action.DISCONTINUE || order.getAction() == Order.Action.REVISE)) { | ||
| serviceRequest.setReplaces((Collections.singletonList(createOrderReference(order.getPreviousOrder()) | ||
| .setIdentifier(orderIdentifierTranslator.toFhirResource(order.getPreviousOrder()))))); | ||
| } else if (order.getPreviousOrder() != null && order.getAction() == Order.Action.RENEW) { | ||
| serviceRequest.setBasedOn(Collections.singletonList(createOrderReference(order.getPreviousOrder()) | ||
| .setIdentifier(orderIdentifierTranslator.toFhirResource(order.getPreviousOrder())))); | ||
| } | ||
| */ | ||
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| return serviceRequest; | ||
| } | ||
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| private Provider determineRequester(Obs obs) { | ||
| if (obs.getEncounter() != null) { | ||
| Encounter encounter = obs.getEncounter(); | ||
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| Set<EncounterProvider> encounterProviders = encounter.getEncounterProviders(); | ||
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| if (encounterProviders != null && !encounterProviders.isEmpty()) { | ||
| try { | ||
| return encounterProviders.iterator().next().getProvider(); | ||
| } catch (Exception ignored) {} | ||
| } | ||
| } | ||
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| return null; | ||
| } | ||
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| @Override | ||
| public Obs toOpenmrsType(@Nonnull ServiceRequest resource) { | ||
| throw new UnsupportedOperationException(); | ||
| } | ||
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| private ServiceRequest.ServiceRequestStatus determineServiceRequestStatus(Obs order) { | ||
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| Date currentDate = new Date(); | ||
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| IBundleProvider results = taskService.searchForTasks( | ||
| new ReferenceAndListParam() | ||
| .addAnd(new ReferenceOrListParam().add(new ReferenceParam("ServiceRequest", null, order.getUuid()))), | ||
| null, null, null, null, null); | ||
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| Collection<Task> serviceRequestTasks = results.getResources(START_INDEX, END_INDEX).stream().map(p -> (Task) p) | ||
| .collect(Collectors.toList()); | ||
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| ServiceRequest.ServiceRequestStatus serviceRequestStatus = ServiceRequest.ServiceRequestStatus.UNKNOWN; | ||
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| if (serviceRequestTasks.size() != 1) { | ||
| return serviceRequestStatus; | ||
| } | ||
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| Task serviceRequestTask = serviceRequestTasks.iterator().next(); | ||
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| if (serviceRequestTask.getStatus() != null) { | ||
| switch (serviceRequestTask.getStatus()) { | ||
| case ACCEPTED: | ||
| case REQUESTED: | ||
| serviceRequestStatus = ServiceRequest.ServiceRequestStatus.ACTIVE; | ||
| break; | ||
| case REJECTED: | ||
| serviceRequestStatus = ServiceRequest.ServiceRequestStatus.REVOKED; | ||
| break; | ||
| case COMPLETED: | ||
| serviceRequestStatus = ServiceRequest.ServiceRequestStatus.COMPLETED; | ||
| break; | ||
| } | ||
| } | ||
| return serviceRequestStatus; | ||
| } | ||
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| private Reference determineServiceRequestPerformer(String orderUuid) { | ||
| IBundleProvider results = taskService.searchForTasks( | ||
| new ReferenceAndListParam() | ||
| .addAnd(new ReferenceOrListParam().add(new ReferenceParam("ServiceRequest", null, orderUuid))), | ||
| null, null, null, null, null); | ||
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| Collection<Task> serviceRequestTasks = results.getResources(START_INDEX, END_INDEX).stream().map(p -> (Task) p) | ||
| .collect(Collectors.toList()); | ||
|
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| if (serviceRequestTasks.size() != 1) { | ||
| return null; | ||
| } | ||
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| return serviceRequestTasks.iterator().next().getOwner(); | ||
| } | ||
| } |