Examples with QuestionnaireResponse org.hl7.fhir.dstu3.model.QuestionnaireResponse used on opensource projects

Example 1 with QuestionnaireResponse

use of org.hl7.fhir.dstu3.model.QuestionnaireResponse in project cqf-ruler by DBCG.

the class ExtractProvider method extractObservationFromQuestionnaireResponse.

@Operation(name = "$extract", idempotent = false, type = QuestionnaireResponse.class)
public Bundle extractObservationFromQuestionnaireResponse(@OperationParam(name = "questionnaireResponse") QuestionnaireResponse questionnaireResponse) {
    if (questionnaireResponse == null) {
        throw new IllegalArgumentException("Unable to perform operation $extract.  The QuestionnaireResponse was null");
    }
    Bundle observationsFromQuestionnaireResponse = createObservationBundle(questionnaireResponse);
    sendObservationBundle(observationsFromQuestionnaireResponse);
    return observationsFromQuestionnaireResponse;
}

Example 2 with QuestionnaireResponse

use of org.hl7.fhir.dstu3.model.QuestionnaireResponse in project cqf-ruler by DBCG.

the class ExtractProviderIT method testExtract.

@Test
public void testExtract() throws IOException, URISyntaxException {
    String examplePatient = "example_patient.json";
    String exampleQuestionnaire = "questionnaire_1559.json";
    String exampleQR = "questionnaire_response_1558.json";
    loadResource(examplePatient);
    loadResource(exampleQuestionnaire);
    QuestionnaireResponse questionnaireResponse = (QuestionnaireResponse) loadResource(exampleQR);
    Parameters params = new Parameters();
    params.addParameter().setName("questionnaireResponse").setResource(questionnaireResponse);
    Bundle actual = getClient().operation().onType(QuestionnaireResponse.class).named("$extract").withParameters(params).returnResourceType(Bundle.class).execute();
    assertNotNull(actual);
    // Expecting one observation per item
    assertEquals(5, actual.getEntry().size());
    // Ensure the Observations were saved to the local server
    for (Bundle.BundleEntryComponent bec : actual.getEntry()) {
        assertEquals("201 Created", bec.getResponse().getStatus());
    }
}

Example 3 with QuestionnaireResponse

use of org.hl7.fhir.dstu3.model.QuestionnaireResponse in project Gravity-SDOH-Exchange-RI by FHIR.

the class TaskPollingService method demoRunQRThroughStructureMap.

/*
  A TEST polling service, implemented during January 2022 Connectathon, that automatically runs questionnaireResponse
  resources through a StructureMap. If any exception occurs - just ignore it.
   */
public void demoRunQRThroughStructureMap() {
    log.info("Looking for TOP 3 Patient QuestionnaireResponse resources without derived Observations...");
    // TODO use repository instead
    Bundle tasksBundle = openEhrClient.search().forResource(QuestionnaireResponse.class).where(new StringClientParam(Constants.PARAM_PROFILE).matches().value(SDOHProfiles.QUESTIONNAIRE_RESPONSE)).revInclude(Observation.INCLUDE_DERIVED_FROM.setRecurse(false)).sort().descending(QuestionnaireResponse.AUTHORED).count(3).returnBundle(Bundle.class).execute();
    List<QuestionnaireResponse> responses = FhirUtil.getFromBundle(tasksBundle, QuestionnaireResponse.class, Bundle.SearchEntryMode.MATCH);
    Set<String> derivedFrom = FhirUtil.getFromBundle(tasksBundle, Observation.class, Bundle.SearchEntryMode.INCLUDE).stream().map(o -> o.getDerivedFromFirstRep().getReferenceElement().getIdPart()).collect(Collectors.toSet());
    if (responses.size() != derivedFrom.size()) {
        log.info("Found " + (responses.size() - derivedFrom.size()) + " QuestionnaireResponse resources without observations.");
        List<QuestionnaireResponse> newResponses = responses.stream().filter(qr -> !derivedFrom.contains(qr.getIdElement().getIdPart())).collect(Collectors.toList());
        for (QuestionnaireResponse nr : newResponses) {
            log.info("Converting QuestionnaireResponse with id: " + nr.getIdElement().getIdPart());
            try {
                // TODO move parser logic within the convert service. Use resources instead
                JSONParser parser = new JSONParser(JSONParser.MODE_JSON_SIMPLE);
                Map<String, Object> result = convertService.convert((JSONObject) parser.parse(fhirContext.newJsonParser().encodeResourceToString(nr)));
                Bundle bundle = (Bundle) fhirContext.newJsonParser().parseResource(new JSONObject(result).toJSONString());
                bundle.getEntry().forEach(e -> e.setRequest(new Bundle.BundleEntryRequestComponent().setMethod(Bundle.HTTPVerb.POST).setUrl(e.getResource().getClass().getSimpleName())));
                openEhrClient.transaction().withBundle(bundle).execute();
            } catch (Exception exc) {
                // Just ignore this specific resource and go to the next one
                log.warn(exc.getMessage(), exc);
            }
        }
    }
    log.info("QuestionnaireResponse update process finished.");
}

Example 4 with QuestionnaireResponse

use of org.hl7.fhir.dstu3.model.QuestionnaireResponse in project Gravity-SDOH-Exchange-RI by FHIR.

the class AssessmentInfoToDtoConverter method convert.

@Override
public AssessmentDto convert(AssessmentInfoHolder infoHolder) {
    AssessmentDto assessmentDto = new AssessmentDto();
    QuestionnaireResponse questionnaireResponse = infoHolder.getQuestionnaireResponse();
    assessmentDto.setId(questionnaireResponse.getIdElement().getIdPart());
    if (infoHolder.getQuestionnaire() != null) {
        assessmentDto.setName(infoHolder.getQuestionnaire().getTitle());
    } else {
        assessmentDto.setName(questionnaireResponse.getQuestionnaire());
        assessmentDto.getErrors().add("QuestionnaireResponse references a Questionnaire by the URL which does not exist. Using the URL as a " + "name instead.");
    }
    assessmentDto.setQuestionnaireUrl(questionnaireResponse.getQuestionnaire());
    assessmentDto.setDate(FhirUtil.toLocalDateTime(questionnaireResponse.getAuthoredElement()));
    assessmentDto.setAssessmentResponse(assessmentResponseToDtoConverter.convert(infoHolder));
    assessmentDto.setHealthConcerns(infoHolder.getConditions().stream().map(condition -> new ReferenceDto(condition.getIdElement().getIdPart(), codeableConceptToStringConverter.convert(condition.getCode()))).collect(Collectors.toList()));
    return assessmentDto;
}

Example 5 with QuestionnaireResponse

use of org.hl7.fhir.dstu3.model.QuestionnaireResponse in project Gravity-SDOH-Exchange-RI by FHIR.

the class ConditionBundleToDtoConverterBase method conditionInfoToDto.

protected T conditionInfoToDto(ConditionInfoBundleExtractor.ConditionInfoHolder conditionInfo) {
    T conditionDto = newConditionDtoImpl();
    Condition condition = conditionInfo.getCondition();
    conditionDto.setId(condition.getIdElement().getIdPart());
    conditionDto.setName(codeableConceptToStringConverter.convert(condition.getCode()));
    Coding categoryCoding = FhirUtil.findCoding(condition.getCategory(), SDOHMappings.getInstance().getSystem());
    // TODO remove this in future. Fow now two different categories might be used before discussed.
    if (categoryCoding == null) {
        categoryCoding = FhirUtil.findCoding(condition.getCategory(), "http://hl7.org/fhir/us/sdoh-clinicalcare/CodeSystem/SDOHCC-CodeSystemTemporaryCodes");
    }
    if (categoryCoding == null) {
        conditionDto.getErrors().add("SDOH category is not found.");
    } else {
        conditionDto.setCategory(new CodingDto(categoryCoding.getCode(), categoryCoding.getDisplay()));
    }
    Optional<Coding> icdCodeCodingOptional = findCode(condition.getCode(), System.ICD_10);
    if (icdCodeCodingOptional.isPresent()) {
        Coding icdCodeCoding = icdCodeCodingOptional.get();
        conditionDto.setIcdCode(new CodingDto(icdCodeCoding.getCode(), icdCodeCoding.getDisplay()));
    } else {
        conditionDto.getErrors().add("ICD-10 code is not found.");
    }
    Optional<Coding> snomedCodeCodingOptional = findCode(condition.getCode(), System.SNOMED);
    if (snomedCodeCodingOptional.isPresent()) {
        Coding snomedCodeCoding = snomedCodeCodingOptional.get();
        conditionDto.setSnomedCode(new CodingDto(snomedCodeCoding.getCode(), snomedCodeCoding.getDisplay()));
    } else {
        conditionDto.getErrors().add("SNOMED-CT code is not found.");
    }
    QuestionnaireResponse questionnaireResponse = conditionInfo.getQuestionnaireResponse();
    if (questionnaireResponse != null) {
        conditionDto.setAssessmentDate(FhirUtil.toLocalDateTime(questionnaireResponse.getAuthoredElement()));
        Questionnaire questionnaire = conditionInfo.getQuestionnaire();
        if (questionnaire != null) {
            conditionDto.setBasedOn(new ReferenceDto(questionnaireResponse.getIdElement().getIdPart(), questionnaire.getTitle()));
        } else {
            conditionDto.setBasedOn(new ReferenceDto(questionnaireResponse.getIdElement().getIdPart(), questionnaireResponse.getQuestionnaire()));
            conditionDto.getErrors().add("Based on QuestionnaireResponse doesn't have a matching Questionnaire to get a title from. Using URL " + "instead.");
        }
    } else {
        conditionDto.setBasedOn(new StringTypeDto(condition.getEvidenceFirstRep().getCodeFirstRep().getText()));
        Reference recorder = condition.getRecorder();
        conditionDto.setAuthoredBy(new ReferenceDto(recorder.getReferenceElement().getIdPart(), recorder.getDisplay()));
    }
    // abatement must be available for all resolved condition
    if (ConditionClinicalStatusCodes.RESOLVED.toCode().equals(condition.getClinicalStatus().getCodingFirstRep().getCode())) {
        if (condition.getAbatement() instanceof DateTimeType) {
            conditionDto.setResolutionDate(FhirUtil.toLocalDateTime((DateTimeType) condition.getAbatement()));
        } else {
            conditionDto.getErrors().add("Condition is resolved but an abatement property is missing or not of a DateTimeType type.");
        }
    }
    return conditionDto;
}