Examples with RCMRMT030101UK04EhrExtract org.hl7.v3.RCMRMT030101UK04EhrExtract used on opensource projects

Example 21 with RCMRMT030101UK04EhrExtract

use of org.hl7.v3.RCMRMT030101UK04EhrExtract in project nia-patient-switching-standard-adaptor by NHSDigital.

the class ObservationCommentMapper method mapObservation.

private Observation mapObservation(RCMRMT030101UK04EhrExtract ehrExtract, RCMRMT030101UK04EhrComposition ehrComposition, RCMRMT030101UK04NarrativeStatement narrativeStatement, Patient patient, List<Encounter> encounters, String practiseCode) {
    var narrativeStatementId = narrativeStatement.getId();
    var observation = new Observation();
    observation.setId(narrativeStatement.getId().getRoot());
    observation.setMeta(generateMeta(META_URL));
    observation.setStatus(FINAL);
    observation.setSubject(new Reference(patient));
    observation.setIssuedElement(createIssued(ehrExtract, ehrComposition));
    observation.setCode(createCodeableConcept());
    observation.addPerformer(createPerformer(ehrComposition, narrativeStatement));
    observation.addIdentifier(buildIdentifier(narrativeStatementId.getRoot(), practiseCode));
    setObservationEffective(observation, narrativeStatement.getAvailabilityTime());
    setObservationComment(observation, narrativeStatement.getText());
    addContextToObservation(observation, encounters, ehrComposition);
    return observation;
}

Example 22 with RCMRMT030101UK04EhrExtract

use of org.hl7.v3.RCMRMT030101UK04EhrExtract in project nia-patient-switching-standard-adaptor by NHSDigital.

the class BundleMapperService method mapToBundle.

public Bundle mapToBundle(RCMRIN030000UK06Message xmlMessage, String losingPracticeOdsCode) throws BundleMappingException {
    try {
        Bundle bundle = generator.generateBundle();
        final RCMRMT030101UK04EhrExtract ehrExtract = getEhrExtract(xmlMessage);
        final RCMRMT030101UK04EhrFolder ehrFolder = getEhrFolder(xmlMessage);
        var agents = mapAgentDirectories(ehrFolder);
        var patient = mapPatient(getEhrExtract(xmlMessage), getPatientOrganization(agents));
        addEntry(bundle, patient);
        Organization authorOrg = organizationMapper.mapAuthorOrganization(losingPracticeOdsCode);
        addEntry(bundle, authorOrg);
        addEntries(bundle, agents);
        var mappedEncounterEhrCompositions = mapEncounters(ehrExtract, patient, losingPracticeOdsCode);
        var encounters = handleMappedEncounterResources(mappedEncounterEhrCompositions, bundle);
        var locations = mapLocations(ehrFolder, losingPracticeOdsCode);
        addEntries(bundle, locations);
        var procedureRequests = procedureRequestMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, procedureRequests);
        var referralRequests = referralRequestMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, referralRequests);
        var medicationResources = medicationRequestMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, medicationResources);
        var bloodPressures = bloodPressureMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, bloodPressures);
        var observations = observationMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, observations);
        var immunizations = immunizationMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, immunizations);
        var conditions = conditionMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, conditions);
        var observationComments = observationCommentMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, observationComments);
        var documentReferences = documentReferenceMapper.mapResources(ehrExtract, patient, encounters, authorOrg);
        addEntries(bundle, documentReferences);
        var templates = templateMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, templates);
        var allergyIntolerances = allergyIntoleranceMapper.mapResources(ehrExtract, patient, encounters, losingPracticeOdsCode);
        addEntries(bundle, allergyIntolerances);
        mapDiagnosticReports(bundle, ehrExtract, patient, encounters, observations, observationComments, losingPracticeOdsCode);
        conditionMapper.addReferences(bundle, conditions, ehrExtract);
        unknownPractitionerHandler.updateUnknownPractitionersRefs(bundle);
        LOGGER.debug("Mapped Bundle with [{}] entries", bundle.getEntry().size());
        return bundle;
    } catch (Exception e) {
        throw new BundleMappingException(e.getMessage());
    }
}

Example 23 with RCMRMT030101UK04EhrExtract

use of org.hl7.v3.RCMRMT030101UK04EhrExtract in project nia-patient-switching-standard-adaptor by NHSDigital.

the class ConditionMapperTest method testConditionIsMappedCorrectlyNoReferences.

@Test
public void testConditionIsMappedCorrectlyNoReferences() {
    when(dateTimeMapper.mapDateTime(any())).thenReturn(EHR_EXTRACT_AVAILABILITY_DATETIME);
    final List<Encounter> emptyEncounterList = List.of();
    final RCMRMT030101UK04EhrExtract ehrExtract = unmarshallEhrExtract("linkset_valid.xml");
    final List<Condition> conditions = conditionMapper.mapResources(ehrExtract, patient, emptyEncounterList, PRACTISE_CODE);
    assertThat(conditions).isNotEmpty();
    final Condition condition = conditions.get(0);
    assertGeneratedComponentsAreCorrect(condition);
    assertThat(condition.getId()).isEqualTo(LINKSET_ID);
    assertThat(condition.getExtensionsByUrl(ACTUAL_PROBLEM_URL).size()).isEqualTo(0);
    assertThat(condition.getExtensionsByUrl(PROBLEM_SIGNIFICANCE_URL).size()).isEqualTo(1);
    assertThat(condition.getExtensionsByUrl(RELATED_CLINICAL_CONTENT_URL).size()).isEqualTo(0);
    assertThat(condition.getClinicalStatus().getDisplay()).isEqualTo("Active");
    assertThat(condition.getCode().getCodingFirstRep().hasDisplay()).isFalse();
    assertThat(condition.getSubject().getResource().getIdElement().getIdPart()).isEqualTo(PATIENT_ID);
    assertThat(condition.getAsserter().getReference()).isEqualTo(ASSERTER_ID_REFERENCE);
    assertThat(condition.getContext().hasReference()).isFalse();
    assertThat(condition.getOnsetDateTimeType()).isEqualTo(EHR_EXTRACT_AVAILABILITY_DATETIME);
    assertThat(condition.getAbatementDateTimeType()).isEqualTo(EHR_EXTRACT_AVAILABILITY_DATETIME);
    assertThat(condition.getAssertedDateElement().getValue()).isEqualTo(EHR_EXTRACT_AVAILABILITY_DATETIME.getValue());
    assertThat(condition.getNote().size()).isEqualTo(0);
}

Example 24 with RCMRMT030101UK04EhrExtract

use of org.hl7.v3.RCMRMT030101UK04EhrExtract in project nia-patient-switching-standard-adaptor by NHSDigital.

the class EncounterMapperTest method testInvalidEhrCompositions.

@ParameterizedTest
@MethodSource("invalidEhrCompositionTestFiles")
public void testInvalidEhrCompositions(String inputXML) {
    final RCMRMT030101UK04EhrExtract ehrExtract = unmarshallEhrExtractElement(inputXML);
    Map<String, List<? extends DomainResource>> mappedResources = encounterMapper.mapEncounters(ehrExtract, patient, PRACTISE_CODE);
    assertThat(mappedResources.get(ENCOUNTER_KEY).size()).isZero();
    assertThat(mappedResources.get(CONSULTATION_KEY).size()).isZero();
    assertThat(mappedResources.get(TOPIC_KEY).size()).isZero();
    assertThat(mappedResources.get(CATEGORY_KEY).size()).isZero();
}

Example 25 with RCMRMT030101UK04EhrExtract

use of org.hl7.v3.RCMRMT030101UK04EhrExtract in project nia-patient-switching-standard-adaptor by NHSDigital.

the class EncounterMapperTest method testEncounterPeriod.

@ParameterizedTest
@MethodSource("encounterPeriodTestFiles")
public void testEncounterPeriod(String inputXML, String startDate, String endDate) {
    when(consultationListMapper.mapToConsultation(any(RCMRMT030101UK04EhrExtract.class), any(Encounter.class))).thenReturn(getList());
    when(consultationListMapper.mapToTopic(any(ListResource.class), isNull())).thenReturn(getList());
    final RCMRMT030101UK04EhrExtract ehrExtract = unmarshallEhrExtractElement(inputXML);
    Map<String, List<? extends DomainResource>> mappedResources = encounterMapper.mapEncounters(ehrExtract, patient, PRACTISE_CODE);
    var encounterList = mappedResources.get(ENCOUNTER_KEY);
    assertThat(encounterList.size()).isOne();
    var encounter = (Encounter) mappedResources.get(ENCOUNTER_KEY).get(0);
    assertEncounter(encounter, "5EB5D070-8FE1-11EC-B1E5-0800200C9A66", false, startDate, endDate);
}