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

Example 6 with Device

use of org.hl7.fhir.dstu3.model.Device in project integration-adaptor-111 by nhsconnect.

the class DeviceMapper method mapDevice.

public Device mapDevice() {
    Device device = new Device();
    device.setIdElement(resourceUtil.newRandomUuid());
    device.setVersion(oneOneOneProperties.getVersion()).setModel(DEVICE_MODEL_NAME);
    return device;
}

Example 7 with Device

use of org.hl7.fhir.dstu3.model.Device in project org.hl7.fhir.core by hapifhir.

the class IEEE11073Convertor method generateLoincMdcMap.

private static ConceptMap generateLoincMdcMap(CodeSystem mdc, String dst, String src) throws IOException, FHIRException {
    ConceptMap cm = new ConceptMap();
    cm.setId("loinc-mdc");
    cm.setUrl("http:/???/fhir/ConceptMap/loinc-mdc");
    cm.setVersion("[todo]");
    cm.setName("LoincMdcCrossMap");
    cm.setTitle("Cross Map between LOINC and MDC");
    cm.setStatus(PublicationStatus.DRAFT);
    cm.setExperimental(true);
    cm.setDateElement(new DateTimeType());
    cm.setPublisher("HL7, Inc");
    ContactDetail cd = cm.addContact();
    cd.setName("LOINC + IEEE");
    ContactPoint cp = cd.addTelecom();
    cp.setSystem(ContactPointSystem.URL);
    cp.setValue("http://loinc.org");
    cm.setDescription("A Cross Map between the LOINC and MDC Code systems");
    cm.setPurpose("To implementers map between medical device codes and LOINC codes");
    cm.setCopyright("This content LOINC \u00ae is copyright \u00a9 1995 Regenstrief Institute, Inc. and the LOINC Committee, and available at no cost under the license at http://loinc.org/terms-of-use");
    cm.setSource(new UriType("http://loinc.org/vs"));
    cm.setTarget(new UriType(MDC_ALL_VALUES));
    ConceptMapGroupComponent g = cm.addGroup();
    g.setSource("urn:iso:std:iso:11073:10101");
    g.setTarget("http://loinc.org");
    CSVReader csv = new CSVReader(new FileInputStream(src));
    csv.readHeaders();
    while (csv.line()) {
        SourceElementComponent e = g.addElement();
        e.setCode(csv.cell("IEEE_CF_CODE10"));
        e.setDisplay(csv.cell("IEEE_DESCRIPTION"));
        TargetElementComponent t = e.addTarget();
        t.setEquivalence(ConceptMapEquivalence.EQUIVALENT);
        t.setCode(csv.cell("LOINC_NUM"));
        t.setDisplay(csv.cell("LOINC_LONG_COMMON_NAME"));
    }
    new XmlParser().setOutputStyle(OutputStyle.PRETTY).compose(new FileOutputStream(Utilities.path(dst, "conceptmap-" + cm.getId() + ".xml")), cm);
    System.out.println("Done");
    return cm;
}

Example 8 with Device

use of org.hl7.fhir.dstu3.model.Device in project org.hl7.fhir.core by hapifhir.

the class CCDAConverter method processProcedure.

protected void processProcedure(ListResource list, Element procedure, ProcedureType type) throws Exception {
    switch(type) {
        case Procedure:
            cda.checkTemplateId(procedure, "2.16.840.1.113883.10.20.22.4.14");
            break;
        case Observation:
            cda.checkTemplateId(procedure, "2.16.840.1.113883.10.20.22.4.13");
            break;
        case Act:
            cda.checkTemplateId(procedure, "2.16.840.1.113883.10.20.22.4.12");
    }
    checkNoNegationOrNullFlavor(procedure, "Procedure (" + type + ")");
    checkNoSubject(procedure, "Procedure (" + type + ")");
    Procedure p = new Procedure();
    addItemToList(list, p);
    // moodCode is either INT or EVN. INT is not handled yet. INT is deprecated anyway
    if (procedure.getAttribute("moodCode").equals("INT"))
        p.getModifierExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/procedure-planned", Factory.newBoolean(true), false));
    // SHALL contain at least one [1..*] id (CONF:7655).
    for (Element e : cda.getChildren(procedure, "id")) p.getIdentifier().add(convert.makeIdentifierFromII(e));
    // SHALL contain exactly one [1..1] code (CONF:7656).
    // This code @code in a procedure activity SHOULD be selected from LOINC or SNOMED CT and MAY be selected from CPT-4, ICD9 Procedures, ICD10 Procedures
    p.setCode(convert.makeCodeableConceptFromCD(cda.getChild(procedure, "code")));
    // SHALL contain exactly one [1..1] statusCode/@code, which SHALL be selected from ValueSet 2.16.840.1.113883.11.20.9.22 ProcedureAct
    // completed | active | aborted | cancelled - not in FHIR
    p.getModifierExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/procedure-status", Factory.newCode(cda.getStatus(procedure)), false));
    // SHOULD contain zero or one [0..1] effectiveTime (CONF:7662).
    p.setPerformed(convert.makePeriodFromIVL(cda.getChild(procedure, "effectiveTime")));
    // MAY contain zero or one [0..1] priorityCode/@code, which SHALL be selected from ValueSet 2.16.840.1.113883.1.11.16866 ActPriority DYNAMIC (CONF:7668)
    p.getExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/procedure-priority", convert.makeCodeableConceptFromCD(cda.getChild(procedure, "priorityCode")), false));
    // MAY contain zero or one [0..1] methodCode (CONF:7670).
    p.getExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/procedure-method", convert.makeCodeableConceptFromCD(cda.getChild(procedure, "methodCode")), false));
    if (type == ProcedureType.Observation) {
    // for Procedure-Observation:
    // 9.	SHALL contain exactly one [1..1] value (CONF:16846).
    // don't know what this is. It's not the actual result of the procedure (that goes in results "This section records ... procedure observations"), and there seems to be no value. The example as <value xsi:type="CD"/> which is not valid
    // so we ignore this for now
    }
    // SHOULD contain zero or more [0..*] targetSiteCode/@code, which SHALL be selected from ValueSet 2.16.840.1.113883.3.88.12.3221.8.9 Body site DYNAMIC (CONF:7683).
    for (Element e : cda.getChildren(procedure, "targetSiteCode")) p.addBodySite(convert.makeCodeableConceptFromCD(e));
    // SHOULD contain zero or more [0..*] performer (CONF:7718) such that it
    for (Element e : cda.getChildren(procedure, "performer")) {
        ProcedurePerformerComponent pp = new ProcedurePerformerComponent();
        p.getPerformer().add(pp);
        pp.setActor(makeReferenceToPractitionerForAssignedEntity(e, p));
    }
    for (Element participant : cda.getChildren(procedure, "participant")) {
        Element participantRole = cda.getlastChild(participant);
        if (type == ProcedureType.Procedure && cda.hasTemplateId(participantRole, "2.16.840.1.113883.10.20.22.4.37")) {
            // MAY contain zero or more [0..*] participant (CONF:7751) such that it  SHALL contain exactly one [1..1] @typeCode="DEV" Device
            // implanted devices
            p.getExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/implanted-devices", Factory.makeReference(processDevice(participantRole, p)), false));
        } else if (cda.hasTemplateId(participantRole, "2.16.840.1.113883.10.20.22.4.32")) {
            // MAY contain zero or more [0..*] participant (CONF:7765) such that it SHALL contain exactly one [1..1] Service Delivery Location (templateId:2.16.840.1.113883.10.20.22.4.32) (CONF:7767)
            p.getExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/location", Factory.makeReference(processSDLocation(participantRole, p)), false));
        }
    }
    for (Element e : cda.getChildren(procedure, "entryRelationship")) {
        Element a = /* act*/
        cda.getlastChild(e);
        if (a.getLocalName().equals("encounter")) {
        // MAY contain zero or more [0..*] entryRelationship (CONF:7768) such that it SHALL contain exactly one encounter which SHALL contain exactly one [1..1] id (CONF:7773).
        // todo - and process as a full encounter while we're at it
        } else if (cda.hasTemplateId(a, "2.16.840.1.113883.10.20.22.4.20")) {
            // MAY contain zero or one [0..1] entryRelationship (CONF:7775) such that it SHALL contain exactly one [1..1] Instructions (templateId:2.16.840.1.113883.10.20.22.4.20) (CONF:7778).
            // had code for type, plus text for instructions
            Extension n = Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/procedure-instructions", null, true);
            n.getExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/procedure-instructions-type", convert.makeCodeableConceptFromCD(cda.getChild(a, "code")), false));
            n.getExtension().add(Factory.newExtension("http://www.healthintersections.com.au/fhir/extensions/procedure-instructions-text", convert.makeStringFromED(cda.getChild(a, "text")), false));
            p.getExtension().add(n);
        } else if (cda.hasTemplateId(a, "2.16.840.1.113883.10.20.22.4.19")) {
            // MAY contain zero or more [0..*] entryRelationship (CONF:7779) such that it SHALL contain exactly one [1..1] Indication (templateId:2.16.840.1.113883.10.20.22.4.19) (CONF:7781).
            p.addReasonCode(processIndication(a));
        } else if (cda.hasTemplateId(cda.getlastChild(e), "2.16.840.1.113883.10.20.22.4.16")) {
        // MAY contain zero or one [0..1] entryRelationship (CONF:7886) such that it SHALL contain exactly one [1..1] Medication Activity (templateId:2.16.840.1.113883.10.20.22.4.16) (CONF:7888).
        // todo
        }
    }
}

Example 9 with Device

use of org.hl7.fhir.dstu3.model.Device in project org.hl7.fhir.core by hapifhir.

the class RdfParser method composeDevice.

protected void composeDevice(Complex parent, String parentType, String name, Device element, int index) {
    if (element == null)
        return;
    Complex t;
    if (Utilities.noString(parentType))
        t = parent;
    else {
        t = parent.predicate("fhir:" + parentType + '.' + name);
    }
    composeDomainResource(t, "Device", name, element, index);
    for (int i = 0; i < element.getIdentifier().size(); i++) composeIdentifier(t, "Device", "identifier", element.getIdentifier().get(i), i);
    if (element.hasUdiCarrier())
        composeIdentifier(t, "Device", "udiCarrier", element.getUdiCarrier(), -1);
    if (element.hasStatusElement())
        composeEnum(t, "Device", "status", element.getStatusElement(), -1);
    if (element.hasType())
        composeCodeableConcept(t, "Device", "type", element.getType(), -1);
    if (element.hasLotNumberElement())
        composeString(t, "Device", "lotNumber", element.getLotNumberElement(), -1);
    if (element.hasManufacturerElement())
        composeString(t, "Device", "manufacturer", element.getManufacturerElement(), -1);
    if (element.hasManufactureDateElement())
        composeDateTime(t, "Device", "manufactureDate", element.getManufactureDateElement(), -1);
    if (element.hasExpirationDateElement())
        composeDateTime(t, "Device", "expirationDate", element.getExpirationDateElement(), -1);
    if (element.hasModelElement())
        composeString(t, "Device", "model", element.getModelElement(), -1);
    if (element.hasVersionElement())
        composeString(t, "Device", "version", element.getVersionElement(), -1);
    if (element.hasPatient())
        composeReference(t, "Device", "patient", element.getPatient(), -1);
    if (element.hasOwner())
        composeReference(t, "Device", "owner", element.getOwner(), -1);
    for (int i = 0; i < element.getContact().size(); i++) composeContactPoint(t, "Device", "contact", element.getContact().get(i), i);
    if (element.hasLocation())
        composeReference(t, "Device", "location", element.getLocation(), -1);
    if (element.hasUrlElement())
        composeUri(t, "Device", "url", element.getUrlElement(), -1);
    for (int i = 0; i < element.getNote().size(); i++) composeAnnotation(t, "Device", "note", element.getNote().get(i), i);
}

Example 10 with Device

use of org.hl7.fhir.dstu3.model.Device 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);
    for (int i = 0; i < element.getBasedOn().size(); i++) composeReference(t, "Observation", "basedOn", element.getBasedOn().get(i), i);
    if (element.hasStatusElement())
        composeEnum(t, "Observation", "status", element.getStatusElement(), -1);
    for (int i = 0; i < element.getCategory().size(); i++) composeCodeableConcept(t, "Observation", "category", element.getCategory().get(i), i);
    if (element.hasCode())
        composeCodeableConcept(t, "Observation", "code", element.getCode(), -1);
    if (element.hasSubject())
        composeReference(t, "Observation", "subject", element.getSubject(), -1);
    if (element.hasContext())
        composeReference(t, "Observation", "context", element.getContext(), -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);
}