Examples with DvCodedText com.nedap.archie.rm.datavalues.DvCodedText used on opensource projects

Example 71 with DvCodedText

use of com.nedap.archie.rm.datavalues.DvCodedText in project ehrbase by ehrbase.

the class EhrServiceImp method getEhrStatusAtVersion.

@Override
public Optional<OriginalVersion<EhrStatus>> getEhrStatusAtVersion(UUID ehrUuid, UUID versionedObjectUid, int version) {
    // pre-step: check for valid ehrId
    if (!hasEhr(ehrUuid)) {
        throw new ObjectNotFoundException("ehr", "No EHR found with given ID: " + ehrUuid.toString());
    }
    if ((version == 0) || (I_StatusAccess.getLatestVersionNumber(getDataAccess(), versionedObjectUid) < version)) {
        throw new ObjectNotFoundException("versioned_ehr_status", "No VERSIONED_EHR_STATUS with given version: " + version);
    }
    I_StatusAccess statusAccess = I_StatusAccess.getVersionMapOfStatus(getDataAccess(), versionedObjectUid).get(version);
    ObjectVersionId versionId = new ObjectVersionId(versionedObjectUid + "::" + getServerConfig().getNodename() + "::" + version);
    // TODO: once lifecycle state is supported, get it here dynamically
    DvCodedText lifecycleState = new DvCodedText("complete", new CodePhrase("532"));
    AuditDetails commitAudit = statusAccess.getAuditDetailsAccess().getAsAuditDetails();
    ObjectRef<HierObjectId> contribution = new ObjectRef<>(new HierObjectId(statusAccess.getStatusRecord().getInContribution().toString()), "openehr", "contribution");
    List<UUID> attestationIdList = I_AttestationAccess.retrieveListOfAttestationsByRef(getDataAccess(), statusAccess.getStatusRecord().getAttestationRef());
    // as default, gets content if available in the following lines
    List<Attestation> attestations = null;
    if (!attestationIdList.isEmpty()) {
        attestations = new ArrayList<>();
        for (UUID id : attestationIdList) {
            I_AttestationAccess a = new AttestationAccess(getDataAccess()).retrieveInstance(id);
            attestations.add(a.getAsAttestation());
        }
    }
    ObjectVersionId precedingVersionId = null;
    // check if there is a preceding version and set it, if available
    if (version > 1) {
        // in the current scope version is an int and therefore: preceding = current - 1
        precedingVersionId = new ObjectVersionId(versionedObjectUid + "::" + getServerConfig().getNodename() + "::" + (version - 1));
    }
    OriginalVersion<EhrStatus> versionStatus = new OriginalVersion<>(versionId, precedingVersionId, statusAccess.getStatus(), lifecycleState, commitAudit, contribution, null, null, attestations);
    return Optional.of(versionStatus);
}

Example 72 with DvCodedText

use of com.nedap.archie.rm.datavalues.DvCodedText in project ehrbase by ehrbase.

the class RecordedDvCodedText method fromDB.

public Object fromDB(Record record, Field<DvCodedTextRecord> fromField) {
    Object retObject;
    DvCodedTextRecord dvCodedTextRecord = record.get(fromField);
    CodePhraseRecord codePhraseDefiningCode = dvCodedTextRecord.getDefiningCode();
    CodePhraseRecord codePhraseLanguage = dvCodedTextRecord.getLanguage();
    CodePhraseRecord codePhraseEncoding = dvCodedTextRecord.getEncoding();
    if (codePhraseDefiningCode != null)
        retObject = new DvCodedText(dvCodedTextRecord.getValue(), codePhraseLanguage == null ? null : new CodePhrase(new TerminologyId(codePhraseLanguage.getTerminologyIdValue()), codePhraseLanguage.getCodeString()), codePhraseEncoding == null ? null : new CodePhrase(new TerminologyId(codePhraseEncoding.getTerminologyIdValue()), codePhraseEncoding.getCodeString()), new CodePhrase(new TerminologyId(codePhraseDefiningCode.getTerminologyIdValue()), codePhraseDefiningCode.getCodeString()));
    else
        // assume DvText
        retObject = new DvText(dvCodedTextRecord.getValue(), codePhraseLanguage == null ? null : new CodePhrase(new TerminologyId(codePhraseLanguage.getTerminologyIdValue()), codePhraseLanguage.getCodeString()), codePhraseEncoding == null ? null : new CodePhrase(new TerminologyId(codePhraseEncoding.getTerminologyIdValue()), codePhraseEncoding.getCodeString()));
    if (dvCodedTextRecord.getTermMapping() != null && dvCodedTextRecord.getTermMapping().length > 0) {
        for (String dvCodedTextTermMappingRecord : dvCodedTextRecord.getTermMapping()) {
            ((DvText) retObject).addMapping(new PersistentTermMapping().decode(dvCodedTextTermMappingRecord));
        }
    }
    return retObject;
}

Example 73 with DvCodedText

use of com.nedap.archie.rm.datavalues.DvCodedText in project ehrbase by ehrbase.

the class InvokeVisitorTest method shouldVisitInvokeExpressionExpandOperation.

@Test
public void shouldVisitInvokeExpressionExpandOperation() {
    // postman request for expansion is: GET https://r4.ontoserver.csiro.au/fhir/ValueSet/$expand?url=http://hl7.org/fhir/ValueSet/surface
    FhirTerminologyServerR4AdaptorImpl mock = mock(FhirTerminologyServerR4AdaptorImpl.class);
    when(mock.expandWithParameters(any(), any())).thenReturn(List.of(new DvCodedText("Occlusal", new CodePhrase("O")), new DvCodedText("Mesial", new CodePhrase("M")), new DvCodedText("Distoclusal", new CodePhrase("DO")), new DvCodedText("Lingual", new CodePhrase("L")), new DvCodedText("Incisal", new CodePhrase("I")), new DvCodedText("Ventral", new CodePhrase("V")), new DvCodedText("Mesioclusodistal", new CodePhrase("MOD")), new DvCodedText("Mesioclusal", new CodePhrase("MO")), new DvCodedText("Distal", new CodePhrase("D")), new DvCodedText("Distoincisal", new CodePhrase("DI")), new DvCodedText("Buccal", new CodePhrase("B"))));
    WhereVisitor cut = new WhereVisitor(mock);
    String aql = "SELECT o/data[at0002]/events[at0003] AS systolic " + "FROM EHR [ehr_id/value='1234'] " + "CONTAINS COMPOSITION c " + "CONTAINS OBSERVATION o [openEHR-EHR-OBSERVATION.blood_pressure.v1] " + "WHERE c/archetype_details/template_id/value matches {'Flormidal', TERMINOLOGY('expand','http://hl7.org/fhir/4.0','url=http://hl7.org/fhir/ValueSet/surface'), 'Kloralhidrat'}";
    ParseTree tree = QueryHelper.setupParseTree(aql);
    cut.visit(tree);
    List<Object> whereExpression = cut.getWhereExpression();
    assertThat(whereExpression).size().isEqualTo(29);
    I_VariableDefinition where1 = (I_VariableDefinition) whereExpression.get(0);
    I_VariableDefinition expected1 = I_VariableDefinitionHelper.build("archetype_details/template_id/value", null, "c", false, false, false);
    I_VariableDefinitionHelper.checkEqualWithoutFuncParameters(where1, expected1);
    assertThat(whereExpression.get(1)).isEqualTo(" IN ");
    assertThat(whereExpression.get(2)).isEqualTo("(");
    assertThat(whereExpression.get(3)).isEqualTo("'Flormidal'");
    assertThat(whereExpression.get(4)).isEqualTo(",");
    assertThat(whereExpression.get(5)).isEqualTo("'O'");
    assertThat(whereExpression.get(6)).isEqualTo(",");
    assertThat(whereExpression.get(7)).isEqualTo("'M'");
    assertThat(whereExpression.get(8)).isEqualTo(",");
    assertThat(whereExpression.get(9)).isEqualTo("'DO'");
    assertThat(whereExpression.get(10)).isEqualTo(",");
    assertThat(whereExpression.get(11)).isEqualTo("'L'");
    assertThat(whereExpression.get(12)).isEqualTo(",");
    assertThat(whereExpression.get(13)).isEqualTo("'I'");
    assertThat(whereExpression.get(14)).isEqualTo(",");
    assertThat(whereExpression.get(15)).isEqualTo("'V'");
    assertThat(whereExpression.get(16)).isEqualTo(",");
    assertThat(whereExpression.get(17)).isEqualTo("'MOD'");
    assertThat(whereExpression.get(18)).isEqualTo(",");
    assertThat(whereExpression.get(19)).isEqualTo("'MO'");
    assertThat(whereExpression.get(20)).isEqualTo(",");
    assertThat(whereExpression.get(21)).isEqualTo("'D'");
    assertThat(whereExpression.get(22)).isEqualTo(",");
    assertThat(whereExpression.get(23)).isEqualTo("'DI'");
    assertThat(whereExpression.get(24)).isEqualTo(",");
    assertThat(whereExpression.get(25)).isEqualTo("'B'");
    assertThat(whereExpression.get(26)).isEqualTo(",");
    assertThat(whereExpression.get(27)).isEqualTo("'Kloralhidrat'");
    assertThat(whereExpression.get(28)).isEqualTo(")");
}

Example 74 with DvCodedText

use of com.nedap.archie.rm.datavalues.DvCodedText in project ehrbase by ehrbase.

the class ContextAccess method retrieveHistoricalEventContext.

/**
 * @throws InternalServerException on failure of decoding DvText or DvDateTime
 */
public static EventContext retrieveHistoricalEventContext(I_DomainAccess domainAccess, UUID compositionId, Timestamp transactionTime) {
    // use fetch any since duplicates are possible during tests...
    EventContextHistoryRecord eventContextHistoryRecord = domainAccess.getContext().fetchAny(EVENT_CONTEXT_HISTORY, EVENT_CONTEXT_HISTORY.COMPOSITION_ID.eq(compositionId).and(EVENT_CONTEXT_HISTORY.SYS_TRANSACTION.eq(transactionTime)));
    // no matching version for this composition
    if (eventContextHistoryRecord == null)
        return null;
    // get the facility entry
    PartyIdentified healthCareFacility = null;
    if (eventContextHistoryRecord.getFacility() != null) {
        PartyIdentifiedRecord partyIdentifiedRecord = domainAccess.getContext().fetchOne(PARTY_IDENTIFIED, PARTY_IDENTIFIED.ID.eq(eventContextHistoryRecord.getFacility()));
        if (partyIdentifiedRecord != null) {
            List<DvIdentifier> identifiers = new ArrayList<>();
            domainAccess.getContext().fetch(IDENTIFIER, IDENTIFIER.PARTY.eq(partyIdentifiedRecord.getId())).forEach(record -> {
                DvIdentifier dvIdentifier = new DvIdentifier();
                dvIdentifier.setIssuer(record.getIssuer());
                dvIdentifier.setAssigner(record.getAssigner());
                dvIdentifier.setId(record.getIdValue());
                dvIdentifier.setType(record.getTypeName());
                identifiers.add(dvIdentifier);
            });
            // get PartyRef values from record
            healthCareFacility = getPartyIdentifiedFromRecord(partyIdentifiedRecord, identifiers);
        }
    }
    List<Participation> participationList = new ArrayList<>();
    // get the participations
    domainAccess.getContext().fetch(PARTICIPATION_HISTORY, PARTICIPATION_HISTORY.EVENT_CONTEXT.eq(eventContextHistoryRecord.getId()).and(PARTICIPATION_HISTORY.SYS_TRANSACTION.eq(transactionTime))).forEach(record -> {
        // retrieve performer
        PartyProxy performer = new PersistedPartyProxy(domainAccess).retrieve(record.getPerformer());
        DvInterval<DvDateTime> startTime = convertDvIntervalDvDateTimeFromRecord(eventContextHistoryRecord);
        DvCodedText mode = convertModeFromRecord(eventContextHistoryRecord);
        Participation participation = new Participation(performer, (DvText) new RecordedDvCodedText().fromDB(record, PARTICIPATION.FUNCTION), mode, startTime);
        participationList.add(participation);
    });
    DvCodedText setting = (DvCodedText) new RecordedDvCodedText().fromDB(eventContextHistoryRecord, EVENT_CONTEXT_HISTORY.SETTING);
    return new EventContext(healthCareFacility, new RecordedDvDateTime().decodeDvDateTime(eventContextHistoryRecord.getStartTime(), eventContextHistoryRecord.getStartTimeTzid()), new RecordedDvDateTime().decodeDvDateTime(eventContextHistoryRecord.getEndTime(), eventContextHistoryRecord.getEndTimeTzid()), participationList.isEmpty() ? null : participationList, eventContextHistoryRecord.getLocation(), setting, null);
}