Examples with Property org.hl7.fhir.r5.elementmodel.Property used on opensource projects

Example 11 with Property

use of org.hl7.fhir.r5.elementmodel.Property 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;
}

Example 12 with Property

use of org.hl7.fhir.r5.elementmodel.Property in project Gravity-SDOH-Exchange-RI by FHIR.

the class GoalBundleToDtoConverter method convert.

@Override
public List<GoalDto> convert(Bundle bundle) {
    List<GoalDto> result = FhirUtil.getFromBundle(bundle, Goal.class).stream().map(goal -> {
        GoalDto goalDto = new GoalDto();
        goalDto.setId(goal.getIdElement().getIdPart());
        if (goal.hasDescription() && goal.getDescription().hasText()) {
            goalDto.setName(goal.getDescription().getText());
        } else {
            goalDto.getErrors().add("Goal description.text not found. Name cannot be set.");
        }
        if (goal.hasAchievementStatus()) {
            goalDto.setAchievementStatus(GoalAchievement.fromCode(goal.getAchievementStatus().getCodingFirstRep().getCode()));
        } else {
            goalDto.getErrors().add("No achievement status available.");
        }
        // TODO reused from HealthConcernBundleToDtoConverter class. Refactor!
        Coding categoryCoding = FhirUtil.findCoding(goal.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(goal.getCategory(), "http://hl7.org/fhir/us/sdoh-clinicalcare/CodeSystem/SDOHCC-CodeSystemTemporaryCodes");
        }
        if (categoryCoding == null) {
            goalDto.getErrors().add("SDOH category is not found.");
        } else {
            goalDto.setCategory(new CodingDto(categoryCoding.getCode(), categoryCoding.getDisplay()));
        }
        Optional<Coding> snomedCodeCodingOptional = findCode(goal.getDescription(), System.SNOMED);
        if (snomedCodeCodingOptional.isPresent()) {
            Coding snomedCodeCoding = snomedCodeCodingOptional.get();
            goalDto.setSnomedCode(new CodingDto(snomedCodeCoding.getCode(), snomedCodeCoding.getDisplay()));
        } else {
            goalDto.getErrors().add("SNOMED-CT code is not found.");
        }
        if (goal.hasExpressedBy()) {
            Reference expressedBy = goal.getExpressedBy();
            goalDto.setAddedBy(new ReferenceDto(expressedBy.getReferenceElement().getIdPart(), expressedBy.getDisplay()));
        } else {
            goalDto.getErrors().add("Goal expressedBy property is missing. addedBy will be null.");
        }
        goalDto.setStartDate(FhirUtil.toLocalDate(goal.getStartDateType()));
        // TODO this is invalid. To clarify!
        if (goal.getLifecycleStatus() == Goal.GoalLifecycleStatus.COMPLETED) {
            if (goal.hasStatusDate()) {
                goalDto.setEndDate(FhirUtil.toLocalDate(goal.getStatusDateElement()));
            } else {
                goalDto.getErrors().add("Goal statusDate must be set when the lifecycleStatus is COMPLETED. endDate will be null.");
            }
        }
        goalDto.setComments(goal.getNote().stream().map(annotationToDtoConverter::convert).collect(Collectors.toList()));
        goalDto.setProblems(goal.getAddresses().stream().filter(ref -> Condition.class.getSimpleName().equals(ref.getReferenceElement().getResourceType())).map(ref -> (Condition) ref.getResource()).map(cond -> new ConditionDto(cond.getIdElement().getIdPart(), codeableConceptToStringConverter.convert(cond.getCode()))).collect(Collectors.toList()));
        return goalDto;
    }).collect(Collectors.toList());
    // TODO refactor. method too long.
    // TODO refactor. Almost the same fragmen exists in a ProblemInfoBundleExtractor
    Map<String, GoalDto> idToDtoMap = result.stream().collect(Collectors.toMap(g -> g.getId(), Function.identity()));
    for (Task task : FhirUtil.getFromBundle(bundle, Task.class)) {
        if (!task.hasFocus() || !(task.getFocus().getResource() instanceof ServiceRequest)) {
            continue;
        }
        ServiceRequest sr = (ServiceRequest) task.getFocus().getResource();
        sr.getSupportingInfo().stream().filter(ref -> Goal.class.getSimpleName().equals(ref.getReferenceElement().getResourceType()) && idToDtoMap.containsKey(ref.getReferenceElement().getIdPart())).forEach(ref -> idToDtoMap.get(ref.getReferenceElement().getIdPart()).getTasks().add(new TaskInfoDto(task.getIdElement().getIdPart(), task.getDescription(), task.getStatus())));
    }
    return result;
}

Example 13 with Property

use of org.hl7.fhir.r5.elementmodel.Property in project Gravity-SDOH-Exchange-RI by FHIR.

the class OrganizationToDtoConverter method convert.

@Override
public OrganizationDto convert(Organization org) {
    String orgId = org.getIdElement().getIdPart();
    OrganizationDto orgDto = new OrganizationDto(orgId);
    orgDto.setName(org.getName());
    // We are interested only in CBO/CP types. Other are ignored.
    Coding coding = FhirUtil.findCoding(org.getType(), OrganizationTypeCode.SYSTEM);
    if (coding == null) {
        orgDto.getErrors().add(String.format("Organization with id '%s' has no coding with system '%s' within a 'type' property. Such organizations " + "are " + "not expected in this context.", orgId, OrganizationTypeCode.SYSTEM));
    } else {
        try {
            orgDto.setType(OrganizationTypeCode.fromCode(coding.getCode()));
        } catch (FHIRException exc) {
            orgDto.getErrors().add(String.format("OrganizationTypeCode code '%s' cannot be resolved for Organization with id '%s'.", coding.getCode(), orgId));
        }
    }
    return orgDto;
}

Example 14 with Property

use of org.hl7.fhir.r5.elementmodel.Property in project Gravity-SDOH-Exchange-RI by FHIR.

the class ProblemBundleToDtoConverter method conditionInfoToDto.

@Override
protected ProblemDto conditionInfoToDto(ConditionInfoBundleExtractor.ConditionInfoHolder conditionInfo) {
    // TODO refactor this. Avoid manual casting. Refactor the design of a base class instead.
    Assert.isInstanceOf(ProblemInfoBundleExtractor.ProblemInfoHolder.class, conditionInfo, "conditionInfo must be a ProblemInfoHolder.");
    ProblemInfoBundleExtractor.ProblemInfoHolder probleminfo = (ProblemInfoBundleExtractor.ProblemInfoHolder) conditionInfo;
    Condition condition = probleminfo.getCondition();
    ProblemDto problemDto = super.conditionInfoToDto(probleminfo);
    // Onset must be available for the problem list items.
    if (condition.getOnset() != null) {
        problemDto.setStartDate(FhirUtil.toLocalDateTime((DateTimeType) condition.getOnset()));
    } else {
        problemDto.getErrors().add("Condition is a problem-list-item but an onset property is missing or not of a DateTimeType " + "type.");
    }
    problemDto.getTasks().addAll(probleminfo.getTasks().stream().map(t -> new TaskInfoDto(t.getId(), t.getName(), t.getStatus())).collect(Collectors.toList()));
    problemDto.getGoals().addAll(probleminfo.getGoals().stream().map(t -> new GoalInfoDto(t.getId(), t.getName(), t.getStatus())).collect(Collectors.toList()));
    return problemDto;
}

Example 15 with Property

use of org.hl7.fhir.r5.elementmodel.Property in project org.hl7.fhir.core by hapifhir.

the class ISO21090Importer method produceProperties.

private void produceProperties(List<ElementDefinition> elements, String name, List<Property> properties, boolean attrMode, boolean snapshot) throws FHIRFormatError {
    for (Property p : properties) {
        if (p.isIsattr() == attrMode) {
            ElementDefinition ed = new ElementDefinition();
            elements.add(ed);
            ed.setPath(name + "." + p.getName());
            if (p.getType().startsWith("xsd:"))
                ToolingExtensions.addStringExtension(ed.addType(), ToolingExtensions.EXT_XML_TYPE, p.getType());
            else
                ed.addType().setCode(p.getType());
            ed.setMin(p.getMin());
            ed.setMax(p.getMax() == Integer.MAX_VALUE ? "*" : Integer.toString(p.getMax()));
            ed.setDefinition(p.getDoco());
            if (p.isIsattr())
                ed.addRepresentation(PropertyRepresentation.XMLATTR);
            if (p.getBinding() != null)
                ed.getBinding().setStrength(BindingStrength.REQUIRED).setValueSet(new UriType("http://hl7.org/fhir/iso21090/ValueSet/" + p.getBinding()));
            if (snapshot)
                ed.getBase().setPath(ed.getPath()).setMin(ed.getMin()).setMax(ed.getMax());
        }
    }
}