Examples with Specimen org.hl7.fhir.r4.model.Specimen used on opensource projects

Example 11 with Specimen

use of org.hl7.fhir.r4.model.Specimen in project org.hl7.fhir.core by hapifhir.

the class RdfParser method composeSequence.

protected void composeSequence(Complex parent, String parentType, String name, Sequence element, int index) {
    if (element == null)
        return;
    Complex t;
    if (Utilities.noString(parentType))
        t = parent;
    else {
        t = parent.predicate("fhir:" + parentType + '.' + name);
    }
    composeDomainResource(t, "Sequence", name, element, index);
    for (int i = 0; i < element.getIdentifier().size(); i++) composeIdentifier(t, "Sequence", "identifier", element.getIdentifier().get(i), i);
    if (element.hasTypeElement())
        composeEnum(t, "Sequence", "type", element.getTypeElement(), -1);
    if (element.hasCoordinateSystemElement())
        composeInteger(t, "Sequence", "coordinateSystem", element.getCoordinateSystemElement(), -1);
    if (element.hasPatient())
        composeReference(t, "Sequence", "patient", element.getPatient(), -1);
    if (element.hasSpecimen())
        composeReference(t, "Sequence", "specimen", element.getSpecimen(), -1);
    if (element.hasDevice())
        composeReference(t, "Sequence", "device", element.getDevice(), -1);
    if (element.hasPerformer())
        composeReference(t, "Sequence", "performer", element.getPerformer(), -1);
    if (element.hasQuantity())
        composeQuantity(t, "Sequence", "quantity", element.getQuantity(), -1);
    if (element.hasReferenceSeq())
        composeSequenceSequenceReferenceSeqComponent(t, "Sequence", "referenceSeq", element.getReferenceSeq(), -1);
    for (int i = 0; i < element.getVariant().size(); i++) composeSequenceSequenceVariantComponent(t, "Sequence", "variant", element.getVariant().get(i), i);
    if (element.hasObservedSeqElement())
        composeString(t, "Sequence", "observedSeq", element.getObservedSeqElement(), -1);
    for (int i = 0; i < element.getQuality().size(); i++) composeSequenceSequenceQualityComponent(t, "Sequence", "quality", element.getQuality().get(i), i);
    if (element.hasReadCoverageElement())
        composeInteger(t, "Sequence", "readCoverage", element.getReadCoverageElement(), -1);
    for (int i = 0; i < element.getRepository().size(); i++) composeSequenceSequenceRepositoryComponent(t, "Sequence", "repository", element.getRepository().get(i), i);
    for (int i = 0; i < element.getPointer().size(); i++) composeReference(t, "Sequence", "pointer", element.getPointer().get(i), i);
}

Example 12 with Specimen

use of org.hl7.fhir.r4.model.Specimen in project org.hl7.fhir.core by hapifhir.

the class RdfParser method composeObservation.

protected void composeObservation(Complex parent, String parentType, String name, Observation element, int index) {
    if (element == null)
        return;
    Complex t;
    if (Utilities.noString(parentType))
        t = parent;
    else {
        t = parent.predicate("fhir:" + parentType + '.' + name);
    }
    composeDomainResource(t, "Observation", name, element, index);
    for (int i = 0; i < element.getIdentifier().size(); i++) composeIdentifier(t, "Observation", "identifier", element.getIdentifier().get(i), i);
    if (element.hasStatusElement())
        composeEnum(t, "Observation", "status", element.getStatusElement(), -1);
    if (element.hasCategory())
        composeCodeableConcept(t, "Observation", "category", element.getCategory(), -1);
    if (element.hasCode())
        composeCodeableConcept(t, "Observation", "code", element.getCode(), -1);
    if (element.hasSubject())
        composeReference(t, "Observation", "subject", element.getSubject(), -1);
    if (element.hasEncounter())
        composeReference(t, "Observation", "encounter", element.getEncounter(), -1);
    if (element.hasEffective())
        composeType(t, "Observation", "effective", element.getEffective(), -1);
    if (element.hasIssuedElement())
        composeInstant(t, "Observation", "issued", element.getIssuedElement(), -1);
    for (int i = 0; i < element.getPerformer().size(); i++) composeReference(t, "Observation", "performer", element.getPerformer().get(i), i);
    if (element.hasValue())
        composeType(t, "Observation", "value", element.getValue(), -1);
    if (element.hasDataAbsentReason())
        composeCodeableConcept(t, "Observation", "dataAbsentReason", element.getDataAbsentReason(), -1);
    if (element.hasInterpretation())
        composeCodeableConcept(t, "Observation", "interpretation", element.getInterpretation(), -1);
    if (element.hasCommentElement())
        composeString(t, "Observation", "comment", element.getCommentElement(), -1);
    if (element.hasBodySite())
        composeCodeableConcept(t, "Observation", "bodySite", element.getBodySite(), -1);
    if (element.hasMethod())
        composeCodeableConcept(t, "Observation", "method", element.getMethod(), -1);
    if (element.hasSpecimen())
        composeReference(t, "Observation", "specimen", element.getSpecimen(), -1);
    if (element.hasDevice())
        composeReference(t, "Observation", "device", element.getDevice(), -1);
    for (int i = 0; i < element.getReferenceRange().size(); i++) composeObservationObservationReferenceRangeComponent(t, "Observation", "referenceRange", element.getReferenceRange().get(i), i);
    for (int i = 0; i < element.getRelated().size(); i++) composeObservationObservationRelatedComponent(t, "Observation", "related", element.getRelated().get(i), i);
    for (int i = 0; i < element.getComponent().size(); i++) composeObservationObservationComponentComponent(t, "Observation", "component", element.getComponent().get(i), i);
}

Example 13 with Specimen

use of org.hl7.fhir.r4.model.Specimen in project org.hl7.fhir.core by hapifhir.

the class RdfParser method composeSpecimenSpecimenContainerComponent.

protected void composeSpecimenSpecimenContainerComponent(Complex parent, String parentType, String name, Specimen.SpecimenContainerComponent element, int index) {
    if (element == null)
        return;
    Complex t;
    if (Utilities.noString(parentType))
        t = parent;
    else {
        t = parent.predicate("fhir:" + parentType + '.' + name);
    }
    composeBackboneElement(t, "container", name, element, index);
    for (int i = 0; i < element.getIdentifier().size(); i++) composeIdentifier(t, "Specimen", "identifier", element.getIdentifier().get(i), i);
    if (element.hasDescriptionElement())
        composeString(t, "Specimen", "description", element.getDescriptionElement(), -1);
    if (element.hasType())
        composeCodeableConcept(t, "Specimen", "type", element.getType(), -1);
    if (element.hasCapacity())
        composeQuantity(t, "Specimen", "capacity", element.getCapacity(), -1);
    if (element.hasSpecimenQuantity())
        composeQuantity(t, "Specimen", "specimenQuantity", element.getSpecimenQuantity(), -1);
    if (element.hasAdditive())
        composeType(t, "Specimen", "additive", element.getAdditive(), -1);
}

Example 14 with Specimen

use of org.hl7.fhir.r4.model.Specimen in project org.hl7.fhir.core by hapifhir.

the class RdfParser method composeSpecimen.

protected void composeSpecimen(Complex parent, String parentType, String name, Specimen element, int index) {
    if (element == null)
        return;
    Complex t;
    if (Utilities.noString(parentType))
        t = parent;
    else {
        t = parent.predicate("fhir:" + parentType + '.' + name);
    }
    composeDomainResource(t, "Specimen", name, element, index);
    for (int i = 0; i < element.getIdentifier().size(); i++) composeIdentifier(t, "Specimen", "identifier", element.getIdentifier().get(i), i);
    if (element.hasAccessionIdentifier())
        composeIdentifier(t, "Specimen", "accessionIdentifier", element.getAccessionIdentifier(), -1);
    if (element.hasStatusElement())
        composeEnum(t, "Specimen", "status", element.getStatusElement(), -1);
    if (element.hasType())
        composeCodeableConcept(t, "Specimen", "type", element.getType(), -1);
    if (element.hasSubject())
        composeReference(t, "Specimen", "subject", element.getSubject(), -1);
    if (element.hasReceivedTimeElement())
        composeDateTime(t, "Specimen", "receivedTime", element.getReceivedTimeElement(), -1);
    for (int i = 0; i < element.getParent().size(); i++) composeReference(t, "Specimen", "parent", element.getParent().get(i), i);
    if (element.hasCollection())
        composeSpecimenSpecimenCollectionComponent(t, "Specimen", "collection", element.getCollection(), -1);
    for (int i = 0; i < element.getTreatment().size(); i++) composeSpecimenSpecimenTreatmentComponent(t, "Specimen", "treatment", element.getTreatment().get(i), i);
    for (int i = 0; i < element.getContainer().size(); i++) composeSpecimenSpecimenContainerComponent(t, "Specimen", "container", element.getContainer().get(i), i);
}

Example 15 with Specimen

use of org.hl7.fhir.r4.model.Specimen in project org.hl7.fhir.core by hapifhir.

the class RdfParser method composeDiagnosticOrder.

protected void composeDiagnosticOrder(Complex parent, String parentType, String name, DiagnosticOrder element, int index) {
    if (element == null)
        return;
    Complex t;
    if (Utilities.noString(parentType))
        t = parent;
    else {
        t = parent.predicate("fhir:" + parentType + '.' + name);
    }
    composeDomainResource(t, "DiagnosticOrder", name, element, index);
    for (int i = 0; i < element.getIdentifier().size(); i++) composeIdentifier(t, "DiagnosticOrder", "identifier", element.getIdentifier().get(i), i);
    if (element.hasStatusElement())
        composeEnum(t, "DiagnosticOrder", "status", element.getStatusElement(), -1);
    if (element.hasPriorityElement())
        composeEnum(t, "DiagnosticOrder", "priority", element.getPriorityElement(), -1);
    if (element.hasSubject())
        composeReference(t, "DiagnosticOrder", "subject", element.getSubject(), -1);
    if (element.hasEncounter())
        composeReference(t, "DiagnosticOrder", "encounter", element.getEncounter(), -1);
    if (element.hasOrderer())
        composeReference(t, "DiagnosticOrder", "orderer", element.getOrderer(), -1);
    for (int i = 0; i < element.getReason().size(); i++) composeCodeableConcept(t, "DiagnosticOrder", "reason", element.getReason().get(i), i);
    for (int i = 0; i < element.getSupportingInformation().size(); i++) composeReference(t, "DiagnosticOrder", "supportingInformation", element.getSupportingInformation().get(i), i);
    for (int i = 0; i < element.getSpecimen().size(); i++) composeReference(t, "DiagnosticOrder", "specimen", element.getSpecimen().get(i), i);
    for (int i = 0; i < element.getEvent().size(); i++) composeDiagnosticOrderDiagnosticOrderEventComponent(t, "DiagnosticOrder", "event", element.getEvent().get(i), i);
    for (int i = 0; i < element.getItem().size(); i++) composeDiagnosticOrderDiagnosticOrderItemComponent(t, "DiagnosticOrder", "item", element.getItem().get(i), i);
    for (int i = 0; i < element.getNote().size(); i++) composeAnnotation(t, "DiagnosticOrder", "note", element.getNote().get(i), i);
}