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

Example 16 with MedicationAdministration

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

the class RdfParser method composeMedicationAdministration.

protected void composeMedicationAdministration(Complex parent, String parentType, String name, MedicationAdministration element, int index) {
    if (element == null)
        return;
    Complex t;
    if (Utilities.noString(parentType))
        t = parent;
    else {
        t = parent.predicate("fhir:" + parentType + '.' + name);
    }
    composeDomainResource(t, "MedicationAdministration", name, element, index);
    for (int i = 0; i < element.getIdentifier().size(); i++) composeIdentifier(t, "MedicationAdministration", "identifier", element.getIdentifier().get(i), i);
    for (int i = 0; i < element.getInstantiates().size(); i++) composeUri(t, "MedicationAdministration", "instantiates", element.getInstantiates().get(i), i);
    for (int i = 0; i < element.getPartOf().size(); i++) composeReference(t, "MedicationAdministration", "partOf", element.getPartOf().get(i), i);
    if (element.hasStatusElement())
        composeEnum(t, "MedicationAdministration", "status", element.getStatusElement(), -1);
    for (int i = 0; i < element.getStatusReason().size(); i++) composeCodeableConcept(t, "MedicationAdministration", "statusReason", element.getStatusReason().get(i), i);
    if (element.hasCategory())
        composeCodeableConcept(t, "MedicationAdministration", "category", element.getCategory(), -1);
    if (element.hasMedication())
        composeType(t, "MedicationAdministration", "medication", element.getMedication(), -1);
    if (element.hasSubject())
        composeReference(t, "MedicationAdministration", "subject", element.getSubject(), -1);
    if (element.hasContext())
        composeReference(t, "MedicationAdministration", "context", element.getContext(), -1);
    for (int i = 0; i < element.getSupportingInformation().size(); i++) composeReference(t, "MedicationAdministration", "supportingInformation", element.getSupportingInformation().get(i), i);
    if (element.hasEffective())
        composeType(t, "MedicationAdministration", "effective", element.getEffective(), -1);
    for (int i = 0; i < element.getPerformer().size(); i++) composeMedicationAdministrationMedicationAdministrationPerformerComponent(t, "MedicationAdministration", "performer", element.getPerformer().get(i), i);
    for (int i = 0; i < element.getReasonCode().size(); i++) composeCodeableConcept(t, "MedicationAdministration", "reasonCode", element.getReasonCode().get(i), i);
    for (int i = 0; i < element.getReasonReference().size(); i++) composeReference(t, "MedicationAdministration", "reasonReference", element.getReasonReference().get(i), i);
    if (element.hasRequest())
        composeReference(t, "MedicationAdministration", "request", element.getRequest(), -1);
    for (int i = 0; i < element.getDevice().size(); i++) composeReference(t, "MedicationAdministration", "device", element.getDevice().get(i), i);
    for (int i = 0; i < element.getNote().size(); i++) composeAnnotation(t, "MedicationAdministration", "note", element.getNote().get(i), i);
    if (element.hasDosage())
        composeMedicationAdministrationMedicationAdministrationDosageComponent(t, "MedicationAdministration", "dosage", element.getDosage(), -1);
    for (int i = 0; i < element.getEventHistory().size(); i++) composeReference(t, "MedicationAdministration", "eventHistory", element.getEventHistory().get(i), i);
}

Example 17 with MedicationAdministration

use of org.hl7.fhir.r4.model.MedicationAdministration in project eCRNow by drajer-health.

the class R4ResourcesData method getMedicationAdministrationData.

public List<MedicationAdministration> getMedicationAdministrationData(FhirContext context, IGenericClient client, LaunchDetails launchDetails, R4FhirData r4FhirData, Encounter encounter, Date start, Date end) {
    logger.trace("Get MedicationAdministration Data");
    Bundle bundle = (Bundle) resourceData.getResourceByPatientId(launchDetails, client, context, "MedicationAdministration");
    List<MedicationAdministration> medAdministrations = new ArrayList<>();
    List<CodeableConcept> medicationCodes = new ArrayList<>();
    if (bundle != null && bundle.getEntry() != null) {
        // Filter MedicationAdministrations based on Encounter Reference
        if (encounter != null && !encounter.getIdElement().getValue().isEmpty()) {
            for (BundleEntryComponent entry : bundle.getEntry()) {
                MedicationAdministration medAdministration = (MedicationAdministration) entry.getResource();
                if (!medAdministration.getContext().isEmpty() && medAdministration.getContext().getReferenceElement().getIdPart().equals(encounter.getIdElement().getIdPart())) {
                    medAdministrations.add(medAdministration);
                    medicationCodes.addAll(findMedicationCodes(medAdministration));
                }
            }
        // If Encounter Id is not present using start and end dates to filter
        // MedicationAdministrations
        } else {
            for (BundleEntryComponent entry : bundle.getEntry()) {
                MedicationAdministration medAdministration = (MedicationAdministration) entry.getResource();
                // Checking If Effective Date is present in MedicationAdministration resource
                if (medAdministration.getEffective() != null) {
                    Pair<Date, TimeZone> effDate = CdaFhirUtilities.getActualDate(medAdministration.getEffective());
                    if (isResourceWithinDateTime(start, end, effDate.getValue0())) {
                        medAdministrations.add(medAdministration);
                        medicationCodes.addAll(findMedicationCodes(medAdministration));
                    }
                } else // If Effective Date is not present looking for LastUpdatedDate
                {
                    Date lastUpdatedDateTime = medAdministration.getMeta().getLastUpdated();
                    if (isResourceWithinDateTime(start, end, lastUpdatedDateTime)) {
                        medAdministrations.add(medAdministration);
                        medicationCodes.addAll(findMedicationCodes(medAdministration));
                    }
                }
            }
        }
        r4FhirData.setR4MedicationCodes(medicationCodes);
    }
    logger.info("Filtered MedicationAdministration -----------> {}", medAdministrations.size());
    return medAdministrations;
}

Example 18 with MedicationAdministration

use of org.hl7.fhir.r4.model.MedicationAdministration in project eCRNow by drajer-health.

the class R4ResourcesData method loadMedicationsData.

public void loadMedicationsData(FhirContext context, IGenericClient client, LaunchDetails launchDetails, R4FhirData r4FhirData, Encounter encounter, Bundle bundle, Date start, Date end) {
    // also to the list of medicationCodes.
    try {
        List<MedicationAdministration> medAdministrationsList = getMedicationAdministrationData(context, client, launchDetails, r4FhirData, encounter, start, end);
        if (medAdministrationsList != null && !medAdministrationsList.isEmpty()) {
            List<Medication> medicationList = r4FhirData.getMedicationList();
            r4FhirData.setMedicationAdministrations(medAdministrationsList);
            for (MedicationAdministration medAdministration : medAdministrationsList) {
                if (medAdministration.getMedication() != null && !medAdministration.getMedication().isEmpty() && medAdministration.getMedication() instanceof Reference) {
                    Reference medRef = (Reference) medAdministration.getMedication();
                    String medReference = medRef.getReferenceElement().getValue();
                    if (medReference.startsWith("#")) {
                        List<Resource> medAdministrationContained = medAdministration.getContained();
                        if (medAdministrationContained.stream().anyMatch(resource -> resource.getIdElement().getValue().equals(medReference))) {
                            logger.debug("Medication Resource {} exists in MedicationAdministration.contained, So no need to add again in Bundle.", medReference);
                        }
                    } else {
                        logger.debug("Medication Reference Found=============> {}", medReference);
                        Medication medication = getMedicationData(context, client, launchDetails, r4FhirData, medReference);
                        if (medication != null) {
                            BundleEntryComponent medicationEntry = new BundleEntryComponent().setResource(medication);
                            bundle.addEntry(medicationEntry);
                            medicationList.add(medication);
                        }
                    }
                }
                BundleEntryComponent medAdministrationEntry = new BundleEntryComponent().setResource(medAdministration);
                bundle.addEntry(medAdministrationEntry);
            }
            r4FhirData.setMedicationList(medicationList);
        }
    } catch (Exception e) {
        logger.error("Error in getting the MedicationAdministration Data", e);
    }
    try {
        List<MedicationRequest> medRequestsList = getMedicationRequestData(context, client, launchDetails, r4FhirData, encounter, start, end);
        if (medRequestsList != null && !medRequestsList.isEmpty()) {
            List<Medication> medicationList = r4FhirData.getMedicationList();
            r4FhirData.setMedicationRequests(medRequestsList);
            for (MedicationRequest medRequest : medRequestsList) {
                if (medRequest.getMedication() != null && !medRequest.getMedication().isEmpty() && medRequest.getMedication() instanceof Reference) {
                    Reference medRef = (Reference) medRequest.getMedication();
                    String medReference = medRef.getReferenceElement().getValue();
                    if (medReference.startsWith("#")) {
                        List<Resource> medRequestContained = medRequest.getContained();
                        if (medRequestContained.stream().anyMatch(resource -> resource.getIdElement().getValue().equals(medReference))) {
                            logger.debug("Medication Resource {} exists in MedicationRequest.contained, So no need to add again in Bundle.", medReference);
                        }
                    } else {
                        logger.debug("Medication Reference Found=============> {}", medReference);
                        Medication medication = getMedicationData(context, client, launchDetails, r4FhirData, medReference);
                        if (medication != null) {
                            BundleEntryComponent medicationEntry = new BundleEntryComponent().setResource(medication);
                            bundle.addEntry(medicationEntry);
                            medicationList.add(medication);
                        }
                    }
                }
                BundleEntryComponent medRequestEntry = new BundleEntryComponent().setResource(medRequest);
                bundle.addEntry(medRequestEntry);
            }
            r4FhirData.setMedicationList(medicationList);
        }
    } catch (Exception e) {
        logger.error("Error in getting the MedicationRequest Data", e);
    }
}

Example 19 with MedicationAdministration

use of org.hl7.fhir.r4.model.MedicationAdministration in project eCRNow by drajer-health.

the class CdaMedicationGenerator method generateMedicationSection.

public static String generateMedicationSection(R4FhirData data, LaunchDetails details) {
    StringBuilder sb = new StringBuilder(2000);
    List<Medication> medList = data.getMedicationList();
    List<MedicationStatement> meds = data.getMedications();
    List<MedicationAdministration> medAdms = data.getMedicationAdministrations();
    List<MedicationRequest> medReqs = getValidMedicationRequests(data, medList);
    if ((meds != null && !meds.isEmpty()) || (medAdms != null && !medAdms.isEmpty()) || (medReqs != null && !medReqs.isEmpty())) {
        // Generate the component and section end tags
        sb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.COMP_EL_NAME));
        sb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.SECTION_EL_NAME));
        sb.append(CdaGeneratorUtils.getXmlForTemplateId(CdaGeneratorConstants.MED_ADM_SEC_TEMPLATE_ID));
        sb.append(CdaGeneratorUtils.getXmlForTemplateId(CdaGeneratorConstants.MED_ADM_SEC_TEMPLATE_ID, CdaGeneratorConstants.MED_SEC_TEMPLATE_ID_EXT));
        sb.append(CdaGeneratorUtils.getXmlForCD(CdaGeneratorConstants.CODE_EL_NAME, CdaGeneratorConstants.MED_ADM_SEC_CODE, CdaGeneratorConstants.LOINC_CODESYSTEM_OID, CdaGeneratorConstants.LOINC_CODESYSTEM_NAME, CdaGeneratorConstants.MED_ADM_SEC_NAME));
        // add Title
        sb.append(CdaGeneratorUtils.getXmlForText(CdaGeneratorConstants.TITLE_EL_NAME, CdaGeneratorConstants.MED_ADM_SEC_TITLE));
        // add Narrative Text
        sb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.TEXT_EL_NAME));
        // Create Table Header.
        List<String> list = new ArrayList<>();
        list.add(CdaGeneratorConstants.MED_TABLE_COL_1_TITLE);
        list.add(CdaGeneratorConstants.MED_TABLE_COL_2_TITLE);
        sb.append(CdaGeneratorUtils.getXmlForTableHeader(list, CdaGeneratorConstants.TABLE_BORDER, CdaGeneratorConstants.TABLE_WIDTH));
        // add Table Body
        sb.append(CdaGeneratorUtils.getXmlForStartElement(CdaGeneratorConstants.TABLE_BODY_EL_NAME));
        // add Body Rows
        int rowNum = 1;
        StringBuilder medEntries = new StringBuilder();
        for (MedicationStatement med : meds) {
            String medDisplayName = CdaGeneratorConstants.UNKNOWN_VALUE;
            if (med.getMedication() != null) {
                medDisplayName = CdaFhirUtilities.getStringForMedicationType(med);
            }
            String dt = null;
            if (med.getEffective() != null) {
                dt = CdaFhirUtilities.getStringForType(med.getEffective());
            }
            Map<String, String> bodyvals = new LinkedHashMap<>();
            bodyvals.put(CdaGeneratorConstants.MED_TABLE_COL_1_BODY_CONTENT, medDisplayName);
            bodyvals.put(CdaGeneratorConstants.MED_TABLE_COL_2_BODY_CONTENT, dt);
            sb.append(CdaGeneratorUtils.addTableRow(bodyvals, rowNum));
            // TODO: ++rowNum or rowNum++
            ++rowNum;
            // Create the Med Entry for the Medication Statement.
            String medstatus = "";
            if (med.getStatus() != null) {
                medstatus = CdaFhirUtilities.getStatusCodeForFhirMedStatusCodes(med.getStatus().toString());
            } else {
                medstatus = COMPLETED;
            }
            Dosage dosage = null;
            if (med.getDosageFirstRep() != null)
                dosage = med.getDosageFirstRep();
            medEntries.append(getEntryForMedication(med.getId(), med.getMedication(), med.getEffective(), medstatus, dosage, details, null, null, CdaGeneratorConstants.MOOD_CODE_DEF, med));
        }
        // Add Medication Administration
        for (MedicationAdministration medAdm : medAdms) {
            String medDisplayName = CdaGeneratorConstants.UNKNOWN_VALUE;
            if (medAdm.getMedication() != null) {
                medDisplayName = CdaFhirUtilities.getStringForMedicationType(medAdm);
            }
            String dt = null;
            if (medAdm.getEffective() != null) {
                dt = CdaFhirUtilities.getStringForType(medAdm.getEffective());
            }
            Map<String, String> bodyvals = new HashMap<>();
            bodyvals.put(CdaGeneratorConstants.MED_TABLE_COL_1_BODY_CONTENT, medDisplayName);
            bodyvals.put(CdaGeneratorConstants.MED_TABLE_COL_2_BODY_CONTENT, dt);
            sb.append(CdaGeneratorUtils.addTableRow(bodyvals, rowNum));
            // TODO: ++rowNum or rowNum++
            ++rowNum;
            // Create the Med Entry for the Medication Statement.
            String medstatus = "";
            if (medAdm.getStatus() != null) {
                medstatus = CdaFhirUtilities.getStatusCodeForFhirMedStatusCodes(medAdm.getStatus());
            } else {
                medstatus = COMPLETED;
            }
            Quantity dose = null;
            if (medAdm.getDosage() != null && medAdm.getDosage().getDose() != null)
                dose = medAdm.getDosage().getDose();
            medEntries.append(getEntryForMedication(medAdm.getId(), medAdm.getMedication(), medAdm.getEffective(), medstatus, null, details, dose, null, CdaGeneratorConstants.MOOD_CODE_DEF, medAdm));
        }
        // Add Medication Requests
        for (MedicationRequest medReq : medReqs) {
            String medDisplayName = CdaGeneratorConstants.UNKNOWN_VALUE;
            if (medReq.getMedication() != null) {
                medDisplayName = CdaFhirUtilities.getStringForMedicationType(medReq);
            }
            DateTimeType startDate = null;
            Dosage dosage = null;
            if (medReq.getDosageInstructionFirstRep() != null && medReq.getDosageInstructionFirstRep().getTiming() != null) {
                dosage = medReq.getDosageInstructionFirstRep();
                Timing t = medReq.getDosageInstructionFirstRep().getTiming();
                if (t != null && t.getRepeat() != null && t.getRepeat().getBoundsPeriod() != null) {
                    startDate = t.getRepeat().getBoundsPeriod().getStartElement();
                }
            }
            String dt = CdaGeneratorConstants.UNKNOWN_VALUE;
            if (startDate != null) {
                dt = CdaFhirUtilities.getDisplayStringForDateTimeType(startDate);
            } else {
                logger.error(" Dosage field does not have a valid period either due to datetime or timezone being null ");
            }
            Map<String, String> bodyvals = new HashMap<>();
            bodyvals.put(CdaGeneratorConstants.MED_TABLE_COL_1_BODY_CONTENT, medDisplayName);
            bodyvals.put(CdaGeneratorConstants.MED_TABLE_COL_2_BODY_CONTENT, dt);
            sb.append(CdaGeneratorUtils.addTableRow(bodyvals, rowNum));
            // TODO: ++rowNum or rowNum++
            ++rowNum;
            // Create the Med Entry for the Medication Request.
            String medstatus = "";
            String moodCode = CdaGeneratorConstants.MOOD_CODE_INT;
            if (medReq.getStatus() != null) {
                medstatus = CdaFhirUtilities.getStatusCodeForFhirMedStatusCodes(medReq.getStatus().toString());
                if (medstatus.equalsIgnoreCase(COMPLETED)) {
                    moodCode = CdaGeneratorConstants.MOOD_CODE_DEF;
                }
            } else {
                medstatus = "active";
            }
            medEntries.append(getEntryForMedication(medReq.getId(), medReq.getMedication(), null, medstatus, dosage, details, null, startDate, moodCode, medReq));
        }
        sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.TABLE_BODY_EL_NAME));
        // End Table.
        sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.TABLE_EL_NAME));
        sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.TEXT_EL_NAME));
        // Add Medication Entries
        sb.append(medEntries);
        // Complete the section end tags.
        sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.SECTION_EL_NAME));
        sb.append(CdaGeneratorUtils.getXmlForEndElement(CdaGeneratorConstants.COMP_EL_NAME));
    } else {
        sb.append(generateEmptyMedications());
    }
    return sb.toString();
}

Example 20 with MedicationAdministration

use of org.hl7.fhir.r4.model.MedicationAdministration in project eCRNow by drajer-health.

the class CdaFhirUtilities method getStringForMedicationType.

public static String getStringForMedicationType(Resource r) {
    String retVal = CdaGeneratorConstants.UNKNOWN_VALUE;
    if (r instanceof MedicationRequest) {
        logger.debug("Found Med Request ");
        MedicationRequest mr = (MedicationRequest) r;
        if (mr.getMedication() instanceof Reference) {
            logger.debug("Found Med Request.Medication Reference ");
            Reference med = (Reference) mr.getMedication();
            if (med.getReference().startsWith(CdaGeneratorConstants.FHIR_CONTAINED_REFERENCE)) {
                logger.debug("Found Med Request.Medication which is a contained reference");
                // Check contained.
                String refId = med.getReference().substring(1);
                logger.debug("Ref Id {} ", refId);
                if (mr.getContained() != null) {
                    retVal = getStringForMedicationFromContainedResources(mr.getContained(), refId);
                    logger.debug("Return Val = {}", retVal);
                }
            // contained present
            }
            return retVal;
        } else if (mr.getMedication() instanceof CodeableConcept) {
            CodeableConcept cc = (CodeableConcept) mr.getMedication();
            return getStringForType(cc);
        }
    } else if (r instanceof MedicationAdministration) {
        MedicationAdministration medAdminRef = (MedicationAdministration) r;
        if (medAdminRef.getMedication() instanceof Reference) {
            Reference med = (Reference) medAdminRef.getMedication();
            if (med.getReference().startsWith(CdaGeneratorConstants.FHIR_CONTAINED_REFERENCE)) {
                // Check contained.
                String refId = med.getReference().substring(1);
                if (medAdminRef.getContained() != null) {
                    retVal = getStringForMedicationFromContainedResources(medAdminRef.getContained(), refId);
                }
            // contained present
            }
            return retVal;
        } else if (medAdminRef.getMedication() instanceof CodeableConcept) {
            CodeableConcept cc = (CodeableConcept) medAdminRef.getMedication();
            return getStringForType(cc);
        }
    } else if (r instanceof MedicationStatement) {
        MedicationStatement medStmtRef = (MedicationStatement) r;
        if (medStmtRef.getMedication() instanceof Reference) {
            Reference med = (Reference) medStmtRef.getMedication();
            if (med.getReference().startsWith(CdaGeneratorConstants.FHIR_CONTAINED_REFERENCE)) {
                // Check contained.
                String refId = med.getReference().substring(1);
                if (medStmtRef.getContained() != null) {
                    retVal = getStringForMedicationFromContainedResources(medStmtRef.getContained(), refId);
                }
            // contained present
            }
            return retVal;
        } else if (medStmtRef.getMedication() instanceof CodeableConcept) {
            CodeableConcept cc = (CodeableConcept) medStmtRef.getMedication();
            return getStringForType(cc);
        }
    }
    return retVal;
}