Examples with CaseDataDto de.symeda.sormas.api.caze.CaseDataDto used on opensource projects

Example 11 with CaseDataDto

use of de.symeda.sormas.api.caze.CaseDataDto in project SORMAS-Project by hzi-braunschweig.

the class CaseFacadeEjb method postUpdate.

public CaseDataDto postUpdate(String uuid, JsonNode caseDataDtoJson) {
    CaseDataDto existingCaseDto = getCaseDataWithoutPseudonyimization(uuid);
    PatchHelper.postUpdate(caseDataDtoJson, existingCaseDto);
    return this.save(existingCaseDto);
}

Example 12 with CaseDataDto

use of de.symeda.sormas.api.caze.CaseDataDto in project SORMAS-Project by hzi-braunschweig.

the class CaseFacadeEjb method restorePseudonymizedDto.

public void restorePseudonymizedDto(CaseDataDto dto, CaseDataDto existingCaseDto, Case caze, Pseudonymizer pseudonymizer) {
    if (existingCaseDto != null) {
        boolean inJurisdiction = service.inJurisdictionOrOwned(caze);
        User currentUser = userService.getCurrentUser();
        pseudonymizer.restoreUser(caze.getReportingUser(), currentUser, dto, dto::setReportingUser);
        pseudonymizer.restoreUser(caze.getClassificationUser(), currentUser, dto, dto::setClassificationUser);
        pseudonymizer.restorePseudonymizedValues(CaseDataDto.class, dto, existingCaseDto, inJurisdiction);
        EpiDataDto epiData = dto.getEpiData();
        EpiDataDto existingEpiData = existingCaseDto.getEpiData();
        pseudonymizer.restorePseudonymizedValues(EpiDataDto.class, epiData, existingEpiData, inJurisdiction);
        epiData.getExposures().forEach(exposure -> {
            ExposureDto existingExposure = existingEpiData.getExposures().stream().filter(exp -> DataHelper.isSame(exposure, exp)).findFirst().orElse(null);
            if (existingExposure != null) {
                pseudonymizer.restorePseudonymizedValues(ExposureDto.class, exposure, existingExposure, inJurisdiction);
                pseudonymizer.restorePseudonymizedValues(LocationDto.class, exposure.getLocation(), existingExposure.getLocation(), inJurisdiction);
            }
        });
        pseudonymizer.restorePseudonymizedValues(HealthConditionsDto.class, dto.getHealthConditions(), existingCaseDto.getHealthConditions(), inJurisdiction);
        dto.getHospitalization().getPreviousHospitalizations().forEach(previousHospitalization -> existingCaseDto.getHospitalization().getPreviousHospitalizations().stream().filter(eh -> DataHelper.isSame(previousHospitalization, eh)).findFirst().ifPresent(existingPreviousHospitalization -> pseudonymizer.restorePseudonymizedValues(PreviousHospitalizationDto.class, previousHospitalization, existingPreviousHospitalization, inJurisdiction)));
        pseudonymizer.restorePseudonymizedValues(SymptomsDto.class, dto.getSymptoms(), existingCaseDto.getSymptoms(), inJurisdiction);
        pseudonymizer.restorePseudonymizedValues(MaternalHistoryDto.class, dto.getMaternalHistory(), existingCaseDto.getMaternalHistory(), inJurisdiction);
    }
}

Example 13 with CaseDataDto

use of de.symeda.sormas.api.caze.CaseDataDto in project SORMAS-Project by hzi-braunschweig.

the class CaseFacadeEjb method onCaseChanged.

public void onCaseChanged(CaseDataDto existingCase, Case newCase, boolean syncShares) {
    // If its a new case and the case is new and the geo coordinates of the case's
    // health facility are null, set its coordinates to the case's report
    // coordinates, if available. Else if case report coordinates are null set them
    // to the facility's coordinates
    Facility facility = newCase.getHealthFacility();
    if (existingCase == null && facility != null && !FacilityHelper.isOtherOrNoneHealthFacility(facility.getUuid())) {
        if ((facility.getLatitude() == null || facility.getLongitude() == null) && newCase.getReportLat() != null && newCase.getReportLon() != null) {
            facility.setLatitude(newCase.getReportLat());
            facility.setLongitude(newCase.getReportLon());
            facilityService.ensurePersisted(facility);
        } else if (newCase.getReportLat() == null && newCase.getReportLon() == null && newCase.getReportLatLonAccuracy() == null) {
            newCase.setReportLat(facility.getLatitude());
            newCase.setReportLon(facility.getLongitude());
        }
    }
    // Clear facility type if no facility or home was selected
    if (newCase.getHealthFacility() == null || FacilityDto.NONE_FACILITY_UUID.equals(newCase.getHealthFacility().getUuid())) {
        newCase.setFacilityType(null);
    }
    // Generate epid number if missing or incomplete
    FieldVisibilityCheckers fieldVisibilityCheckers = FieldVisibilityCheckers.withCountry(configFacade.getCountryLocale());
    if (fieldVisibilityCheckers.isVisible(CaseDataDto.class, CaseDataDto.EPID_NUMBER) && !CaseLogic.isCompleteEpidNumber(newCase.getEpidNumber())) {
        newCase.setEpidNumber(generateEpidNumber(newCase.getEpidNumber(), newCase.getUuid(), newCase.getDisease(), newCase.getReportDate(), newCase.getResponsibleDistrict().getUuid()));
    }
    // update the plague type based on symptoms
    if (newCase.getDisease() == Disease.PLAGUE) {
        PlagueType plagueType = DiseaseHelper.getPlagueTypeForSymptoms(SymptomsFacadeEjb.toDto(newCase.getSymptoms()));
        if (plagueType != newCase.getPlagueType() && plagueType != null) {
            newCase.setPlagueType(plagueType);
        }
    }
    District survOffDistrict = newCase.getSurveillanceOfficer() != null ? newCase.getSurveillanceOfficer().getDistrict() : null;
    if (survOffDistrict == null || (!survOffDistrict.equals(newCase.getResponsibleDistrict()) && !survOffDistrict.equals(newCase.getDistrict()))) {
        setResponsibleSurveillanceOfficer(newCase);
    }
    updateInvestigationByStatus(existingCase, newCase);
    updatePersonAndCaseByOutcome(existingCase, newCase);
    updateCaseAge(existingCase, newCase);
    // Change the disease of all contacts if the case disease or disease details have changed
    if (existingCase != null && (newCase.getDisease() != existingCase.getDisease() || !StringUtils.equals(newCase.getDiseaseDetails(), existingCase.getDiseaseDetails()))) {
        for (Contact contact : contactService.findBy(new ContactCriteria().caze(newCase.toReference()), null)) {
            if (contact.getDisease() != newCase.getDisease() || !StringUtils.equals(contact.getDiseaseDetails(), newCase.getDiseaseDetails())) {
                // Only do the change if it hasn't been done in the mobile app before
                contact.setDisease(newCase.getDisease());
                contact.setDiseaseDetails(newCase.getDiseaseDetails());
                contactService.ensurePersisted(contact);
            }
        }
    }
    if (existingCase != null && (newCase.getDisease() != existingCase.getDisease() || !Objects.equals(newCase.getReportDate(), existingCase.getReportDate()) || !Objects.equals(newCase.getSymptoms().getOnsetDate(), existingCase.getSymptoms().getOnsetDate()))) {
        // Update follow-up until and status of all contacts
        for (Contact contact : contactService.findBy(new ContactCriteria().caze(newCase.toReference()), null)) {
            contactService.updateFollowUpDetails(contact, false);
            contactService.udpateContactStatus(contact);
        }
        for (Contact contact : contactService.getAllByResultingCase(newCase)) {
            contactService.updateFollowUpDetails(contact, false);
            contactService.udpateContactStatus(contact);
        }
    }
    updateTasksOnCaseChanged(newCase, existingCase);
    // Update case classification if the feature is enabled
    CaseClassification classification = null;
    if (configFacade.isFeatureAutomaticCaseClassification()) {
        if (newCase.getCaseClassification() != CaseClassification.NO_CASE) {
            // calculate classification
            CaseDataDto newCaseDto = toDto(newCase);
            classification = caseClassificationFacade.getClassification(newCaseDto);
            // only update when classification by system changes - user may overwrite this
            if (classification != newCase.getSystemCaseClassification()) {
                newCase.setSystemCaseClassification(classification);
                // really a change? (user may have already set it)
                if (classification != newCase.getCaseClassification()) {
                    newCase.setCaseClassification(classification);
                    newCase.setClassificationUser(null);
                    newCase.setClassificationDate(new Date());
                }
            }
        }
    }
    // calculate reference definition for cases
    if (configFacade.isConfiguredCountry(CountryHelper.COUNTRY_CODE_GERMANY)) {
        boolean fulfilled = evaluateFulfilledCondition(toDto(newCase), classification);
        newCase.setCaseReferenceDefinition(fulfilled ? CaseReferenceDefinition.FULFILLED : CaseReferenceDefinition.NOT_FULFILLED);
    }
    // are not empty
    if (!newCase.getHospitalization().getPreviousHospitalizations().isEmpty() && YesNoUnknown.YES != newCase.getHospitalization().getHospitalizedPreviously()) {
        newCase.getHospitalization().setHospitalizedPreviously(YesNoUnknown.YES);
    }
    if (!newCase.getEpiData().getExposures().isEmpty() && !YesNoUnknown.YES.equals(newCase.getEpiData().getExposureDetailsKnown())) {
        newCase.getEpiData().setExposureDetailsKnown(YesNoUnknown.YES);
    }
    // Update completeness value
    newCase.setCompleteness(null);
    // changed
    if (existingCase != null && existingCase.getCaseClassification() != newCase.getCaseClassification()) {
        try {
            String message = String.format(I18nProperties.getString(MessageContents.CONTENT_CASE_CLASSIFICATION_CHANGED), DataHelper.getShortUuid(newCase.getUuid()), newCase.getCaseClassification().toString());
            notificationService.sendNotifications(NotificationType.CASE_CLASSIFICATION_CHANGED, JurisdictionHelper.getCaseRegions(newCase), null, MessageSubject.CASE_CLASSIFICATION_CHANGED, message);
        } catch (NotificationDeliveryFailedException e) {
            logger.error("NotificationDeliveryFailedException when trying to notify supervisors about the change of a case classification. ");
        }
    }
    // Unspecified VHF case has changed
    if (existingCase != null && existingCase.getDisease() == Disease.UNSPECIFIED_VHF && existingCase.getDisease() != newCase.getDisease()) {
        try {
            String message = String.format(I18nProperties.getString(MessageContents.CONTENT_DISEASE_CHANGED), DataHelper.getShortUuid(newCase.getUuid()), existingCase.getDisease().toString(), newCase.getDisease().toString());
            notificationService.sendNotifications(NotificationType.DISEASE_CHANGED, JurisdictionHelper.getCaseRegions(newCase), null, MessageSubject.DISEASE_CHANGED, message);
        } catch (NotificationDeliveryFailedException e) {
            logger.error("NotificationDeliveryFailedException when trying to notify supervisors about the change of a case disease.");
        }
    }
    // If the case is a newly created case or if it was not in a CONFIRMED status
    // and now the case is in a CONFIRMED status, notify related surveillance officers
    Set<CaseClassification> confirmedClassifications = CaseClassification.getConfirmedClassifications();
    if ((existingCase == null || !confirmedClassifications.contains(existingCase.getCaseClassification())) && confirmedClassifications.contains(newCase.getCaseClassification())) {
        sendConfirmedCaseNotificationsForEvents(newCase);
    }
    if (existingCase != null && syncShares && sormasToSormasFacade.isFeatureConfigured()) {
        syncSharesAsync(new ShareTreeCriteria(existingCase.getUuid()));
    }
    // This logic should be consistent with CaseDataForm.onQuarantineEndChange
    if (existingCase != null && existingCase.getQuarantineTo() != null && !existingCase.getQuarantineTo().equals(newCase.getQuarantineTo())) {
        newCase.setPreviousQuarantineTo(existingCase.getQuarantineTo());
    }
    if (existingCase == null) {
        vaccinationFacade.updateVaccinationStatuses(newCase);
    }
    // On German systems, correct and clean up reinfection data
    if (configFacade.isConfiguredCountry(CountryHelper.COUNTRY_CODE_GERMANY)) {
        newCase.setReinfectionDetails(cleanUpReinfectionDetails(newCase.getReinfectionDetails()));
        newCase.setReinfectionStatus(CaseLogic.calculateReinfectionStatus(newCase.getReinfectionDetails()));
    }
}

Example 14 with CaseDataDto

use of de.symeda.sormas.api.caze.CaseDataDto in project SORMAS-Project by hzi-braunschweig.

the class CaseImportFacadeEjb method saveImportedEntities.

@Override
public ImportLineResultDto<CaseImportEntities> saveImportedEntities(@Valid CaseImportEntities entities, boolean skipPersonValidation) {
    CaseDataDto caze = entities.getCaze();
    PersonDto person = entities.getPerson();
    List<SampleDto> samples = entities.getSamples();
    List<PathogenTestDto> pathogenTests = entities.getPathogenTests();
    List<VaccinationDto> vaccinations = entities.getVaccinations();
    try {
        // Necessary to make sure that the follow-up information is retained
        if (featureConfigurationFacade.isFeatureEnabled(FeatureType.CASE_FOLLOWUP) && caze.getFollowUpStatus() == null) {
            caze.setFollowUpStatus(FollowUpStatus.FOLLOW_UP);
        }
        if (caze.getEpidNumber() != null && caseFacade.doesEpidNumberExist(caze.getEpidNumber(), caze.getUuid(), caze.getDisease())) {
            return ImportLineResultDto.errorResult(I18nProperties.getString(Strings.messageEpidNumberWarning));
        }
        // PersonDto savedPerson = personFacade.savePerson(person);
        final PersonDto savedPerson = personFacade.savePerson(person, skipPersonValidation);
        caze.setPerson(savedPerson.toReference());
        // Workaround: Reset the change date to avoid OutdatedEntityExceptions
        // Should be changed when doing #2265
        caze.setChangeDate(new Date());
        caseFacade.save(caze);
        for (SampleDto sample : samples) {
            sampleFacade.saveSample(sample);
        }
        for (PathogenTestDto pathogenTest : pathogenTests) {
            pathogenTestFacade.savePathogenTest(pathogenTest);
        }
        for (VaccinationDto vaccination : vaccinations) {
            vaccinationFacade.createWithImmunization(vaccination, caze.getResponsibleRegion(), caze.getResponsibleDistrict(), caze.getPerson(), caze.getDisease());
        }
        return ImportLineResultDto.successResult();
    } catch (ValidationRuntimeException e) {
        return ImportLineResultDto.errorResult(e.getMessage());
    }
}

Example 15 with CaseDataDto

use of de.symeda.sormas.api.caze.CaseDataDto in project SORMAS-Project by hzi-braunschweig.

the class CaseFacadeEjbTest method testGetAllActiveCasesIncludeExtendedChangeDateFiltersPathogenTest.

@Test
public void testGetAllActiveCasesIncludeExtendedChangeDateFiltersPathogenTest() throws InterruptedException {
    RDCFEntities rdcf = creator.createRDCFEntities("Region", "District", "Community", "Facility");
    UserDto user = creator.createUser(rdcf.region.getUuid(), rdcf.district.getUuid(), rdcf.facility.getUuid(), "Surv", "Sup", UserRole.SURVEILLANCE_SUPERVISOR);
    PersonDto cazePerson = creator.createPerson("Case", "Person");
    CaseDataDto caze = creator.createCase(user.toReference(), cazePerson.toReference(), Disease.EVD, CaseClassification.PROBABLE, InvestigationStatus.PENDING, new Date(), rdcf);
    SampleDto sample = creator.createSample(caze.toReference(), user.toReference(), rdcf.facility);
    PathogenTestDto pathogenTestDto = creator.createPathogenTest(sample.toReference(), caze);
    Date date = new Date();
    // the delay is needed in order to ensure the time difference between the date and the case dependent objects update
    Thread.sleep(10L);
    pathogenTestDto.setTestResultText("test result changed");
    getPathogenTestFacade().savePathogenTest(pathogenTestDto);
    assertEquals(0, getCaseFacade().getAllActiveCasesAfter(date).size());
    assertEquals(1, getCaseFacade().getAllActiveCasesAfter(date, true).size());
}