Examples with HL7Exception ca.uhn.hl7v2.HL7Exception used on opensource projects

Example 6 with HL7Exception

use of ca.uhn.hl7v2.HL7Exception in project nifi by apache.

the class HapiMessage method populateSegments.

private void populateSegments(final Group group, final List<HL7Segment> segments) throws HL7Exception {
    for (final String structureName : group.getNames()) {
        final Structure[] structures = group.getAll(structureName);
        if (group.isGroup(structureName)) {
            for (final Structure structure : structures) {
                populateSegments((Group) structure, segments);
            }
        } else {
            for (final Structure structure : structures) {
                final Segment segment = (Segment) structure;
                final HapiSegment hapiSegment = new HapiSegment(segment);
                segments.add(hapiSegment);
            }
        }
    }
}

Example 7 with HL7Exception

use of ca.uhn.hl7v2.HL7Exception in project nifi by apache.

the class TestHL7Query method createMessage.

private HL7Message createMessage(final String msgText) throws HL7Exception, IOException {
    final HapiContext hapiContext = new DefaultHapiContext();
    hapiContext.setValidationContext(ValidationContextFactory.noValidation());
    final PipeParser parser = hapiContext.getPipeParser();
    final Message message = parser.parse(msgText);
    return new HapiMessage(message);
}

Example 8 with HL7Exception

use of ca.uhn.hl7v2.HL7Exception in project nifi by apache.

the class ExtractHL7Attributes method getAllFields.

private static Map<String, Type> getAllFields(final String segmentKey, final Segment segment, final boolean useNames) throws HL7Exception {
    final Map<String, Type> fields = new TreeMap<>();
    final String[] segmentNames = segment.getNames();
    for (int i = 1; i <= segment.numFields(); i++) {
        final Type field = segment.getField(i, 0);
        if (!isEmpty(field)) {
            final String fieldName;
            if (useNames) {
                fieldName = WordUtils.capitalize(segmentNames[i - 1]).replaceAll("\\W+", "");
            } else {
                fieldName = String.valueOf(i);
            }
            final String fieldKey = new StringBuilder().append(segmentKey).append(".").append(fieldName).toString();
            fields.put(fieldKey, field);
        }
    }
    return fields;
}

Example 9 with HL7Exception

use of ca.uhn.hl7v2.HL7Exception in project streamsx.health by IBMStreams.

the class AdtToModelMapper method messageToModel.

@SuppressWarnings("unchecked")
public <T> Iterable<T> messageToModel(Message message) {
    ArrayList<ADTEvent> adtEvents = new ArrayList<ADTEvent>();
    if (message instanceof ADT_AXX) {
        ADT_AXX superMsg = (ADT_AXX) message;
        MessageInfo msg = new MessageInfo();
        Patient patient = new Patient();
        try {
            MSH header = superMsg.getMSH();
            msg.setSendingApp(header.getSendingApplication().encode());
            msg.setSendingFacility(header.getSendingFacility().encode());
            msg.setReceivingApp(header.getReceivingApplication().encode());
            msg.setReceivingFacility(header.getReceivingFacility().encode());
            msg.setMessageTs(header.getDateTimeOfMessage().encode());
            msg.setMessageType(header.getMessageType().encode());
            PID pid = superMsg.getPID();
            patient.setId(pid.getPatientID().encode());
            XPN[] patientNames = pid.getPatientName();
            for (XPN name : patientNames) {
                if (patient.getName().equals(IInjestServicesConstants.EMPTYSTR)) {
                    patient.setName(getPatientFullName(name));
                } else {
                    patient.addAlternateName(getPatientFullName(name));
                }
            }
            patient.setGender(pid.getAdministrativeSex().encode());
            patient.setDateOfBirth(pid.getDateTimeOfBirth().encode());
            CX[] ids = pid.getAlternatePatientIDPID();
            if (ids.length > 0) {
                for (CX cx : ids) {
                    patient.addAlternativeId(cx.encode());
                }
            }
            EventDetails evt = new EventDetails();
            EVN evn = superMsg.getEVN();
            evt.setEventType(evn.getEventTypeCode().encode());
            evt.setEventTs(evn.getEvn6_EventOccurred().encode());
            evt.setRecordTs(evn.getEvn2_RecordedDateTime().encode());
            PV1 pv1 = superMsg.getPV1();
            PatientVisit patientVisit = new PatientVisit();
            patientVisit.setPatientClass(pv1.getPatientClass().encode());
            patientVisit.setLocation(pv1.getAssignedPatientLocation().encode());
            patientVisit.setPriorLocation(pv1.getPriorPatientLocation().encode());
            patientVisit.setVisitNumber(pv1.getVisitNumber().encode());
            patient.setStatus(pv1.getBedStatus().encode());
            XCN[] doctors = pv1.getAttendingDoctor();
            for (XCN xcn : doctors) {
                String id = xcn.getIDNumber().encode();
                String name = xcn.getFamilyName().encode() + " " + xcn.getGivenName().encode();
                Clinician clinician = new Clinician();
                clinician.setId(id);
                clinician.setName(name);
                patientVisit.addAttendingDoctor(clinician);
            }
            doctors = pv1.getConsultingDoctor();
            for (XCN xcn : doctors) {
                String id = xcn.getIDNumber().encode();
                String name = xcn.getFamilyName().encode() + " " + xcn.getGivenName().encode();
                Clinician clinician = new Clinician();
                clinician.setId(id);
                clinician.setName(name);
                patientVisit.addConsultingDoctor(clinician);
            }
            ADTEvent adtEvent = new ADTEvent();
            adtEvent.setEvt(evt);
            adtEvent.setPatient(patient);
            adtEvent.setMsg(msg);
            adtEvent.setPv(patientVisit);
            adtEvents.add(adtEvent);
        } catch (HL7Exception e) {
            TRACE.error("Unable to parse HL7 message", e);
        }
    }
    return (Iterable<T>) adtEvents;
}

Example 10 with HL7Exception

use of ca.uhn.hl7v2.HL7Exception in project streamsx.health by IBMStreams.

the class ObxToSplMapper method messageToModel.

@SuppressWarnings("unchecked")
public <T> Iterable<T> messageToModel(Message message) {
    ArrayList<Observation> observations = new ArrayList<Observation>();
    if (message instanceof ORU_R01) {
        ORU_R01 oruMsg = (ORU_R01) message;
        String obxTs = "";
        String obxLocation = "";
        String sendingApp = "";
        String sendingFacility = "";
        try {
            MSH msh = oruMsg.getMSH();
            sendingApp = msh.getSendingApplication().encode();
            sendingFacility = msh.getSendingFacility().encode();
            List<ORU_R01_PATIENT_RESULT> patient_RESULTAll = ((ORU_R01) message).getPATIENT_RESULTAll();
            for (ORU_R01_PATIENT_RESULT result : patient_RESULTAll) {
                ORU_R01_ORDER_OBSERVATION order_OBSERVATION = result.getORDER_OBSERVATION();
                OBR obr = order_OBSERVATION.getOBR();
                DTM ts = obr.getObservationDateTime();
                obxTs = ts.getValue();
                ORU_R01_PATIENT patient = result.getPATIENT();
                ORU_R01_VISIT visit = patient.getVISIT();
                PL location = visit.getPV1().getAssignedPatientLocation();
                obxLocation = location.encode();
                List<ORU_R01_OBSERVATION> observationAll = order_OBSERVATION.getOBSERVATIONAll();
                for (ORU_R01_OBSERVATION oru_R01_OBSERVATION : observationAll) {
                    parseOBX(observations, obxTs, obxLocation, oru_R01_OBSERVATION.getOBX(), sendingApp, sendingFacility);
                }
            }
        } catch (HL7Exception e) {
            if (TRACE.isDebugEnabled())
                TRACE.log(TraceLevel.WARN, e);
        }
        try {
            OBR obr = (OBR) oruMsg.get("OBR");
            DTM ts = obr.getObservationDateTime();
            obxTs = ts.getValue();
            Structure tmp = oruMsg.get("PV1");
            if (tmp != null) {
                PV1 pv1 = (PV1) tmp;
                PL location = pv1.getAssignedPatientLocation();
                obxLocation = location.encode();
            }
            Structure[] structures = oruMsg.getAll("OBX");
            for (Structure structure : structures) {
                parseOBX(observations, obxTs, obxLocation, (OBX) structure, sendingApp, sendingFacility);
            }
        } catch (HL7Exception e) {
            if (TRACE.isDebugEnabled())
                TRACE.log(TraceLevel.WARN, e);
        }
    }
    return (Iterable<T>) observations;
}