Examples with ProfileKeywordEntity org.orcid.persistence.jpa.entities.ProfileKeywordEntity used on opensource projects

Example 11 with ProfileKeywordEntity

use of org.orcid.persistence.jpa.entities.ProfileKeywordEntity in project ORCID-Source by ORCID.

the class SetUpClientsAndUsers method clearRegistry.

private boolean clearRegistry(OrcidProfile existingProfile, Map<String, String> params) {
    if (existingProfile != null) {
        String orcid = params.get(ORCID);
        String email = params.get(EMAIL);
        // exception
        if (existingProfile.getOrcidBio() == null || existingProfile.getOrcidBio().getContactDetails() == null || existingProfile.getOrcidBio().getContactDetails().retrievePrimaryEmail() == null || !email.equals(existingProfile.getOrcidBio().getContactDetails().retrievePrimaryEmail().getValue())) {
            throw new ApplicationException("User with email " + params.get(EMAIL) + " must have orcid id '" + orcid + "' but it is '" + existingProfile.getOrcidId() + "'");
        }
        // Check if the profile have the same password, if not, update the
        // password
        String encryptedPassword = encryptionManager.hashForInternalUse(params.get(PASSWORD));
        if (!encryptedPassword.equals(existingProfile.getPassword())) {
            existingProfile.setPassword(params.get(PASSWORD));
            orcidProfileManager.updatePasswordInformation(existingProfile);
        }
        // Set default names
        Name name = new Name();
        name.setCreditName(new CreditName(params.get(CREDIT_NAME)));
        name.setGivenNames(new GivenNames(params.get(GIVEN_NAMES)));
        name.setFamilyName(new FamilyName(params.get(FAMILY_NAMES)));
        name.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.fromValue(OrcidVisibilityDefaults.NAMES_DEFAULT.getVisibility().value()));
        if (recordNameManager.exists(orcid)) {
            recordNameManager.updateRecordName(orcid, name);
        } else {
            recordNameManager.createRecordName(orcid, name);
        }
        profileDao.updatePreferences(orcid, true, true, true, true, org.orcid.jaxb.model.common_v2.Visibility.PUBLIC, true, 1f);
        // Set default bio
        org.orcid.jaxb.model.record_v2.Biography bio = biographyManager.getBiography(orcid, 0L);
        if (bio == null || bio.getContent() == null) {
            bio = new org.orcid.jaxb.model.record_v2.Biography(params.get(BIO));
            bio.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.fromValue(OrcidVisibilityDefaults.BIOGRAPHY_DEFAULT.getVisibility().value()));
            biographyManager.createBiography(orcid, bio);
        } else {
            bio.setContent(params.get(BIO));
            bio.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.fromValue(OrcidVisibilityDefaults.BIOGRAPHY_DEFAULT.getVisibility().value()));
            biographyManager.updateBiography(orcid, bio);
        }
        // Remove other names
        List<OtherNameEntity> otherNames = otherNameDao.getOtherNames(orcid, 0L);
        if (otherNames != null && !otherNames.isEmpty()) {
            for (OtherNameEntity otherName : otherNames) {
                otherNameDao.deleteOtherName(otherName);
            }
        }
        // Remove keywords
        List<ProfileKeywordEntity> keywords = profileKeywordDao.getProfileKeywors(orcid, 0L);
        if (keywords != null && !keywords.isEmpty()) {
            for (ProfileKeywordEntity keyword : keywords) {
                profileKeywordDao.deleteProfileKeyword(keyword);
            }
        }
        //Remove researcher urls
        List<ResearcherUrlEntity> rUrls = researcherUrlDao.getResearcherUrls(orcid, 0L);
        if (rUrls != null && !rUrls.isEmpty()) {
            for (ResearcherUrlEntity rUrl : rUrls) {
                researcherUrlDao.deleteResearcherUrl(orcid, rUrl.getId());
            }
        }
        // Remove external ids
        List<ExternalIdentifierEntity> extIds = externalIdentifierDao.getExternalIdentifiers(orcid, System.currentTimeMillis());
        if (extIds != null && !extIds.isEmpty()) {
            for (ExternalIdentifierEntity extId : extIds) {
                externalIdentifierDao.removeExternalIdentifier(orcid, extId.getId());
            }
        }
        // Remove addresses
        List<AddressEntity> addresses = addressDao.getAddresses(orcid, 0L);
        if (addresses != null && !addresses.isEmpty()) {
            for (AddressEntity address : addresses) {
                addressDao.deleteAddress(orcid, address.getId());
            }
        }
        // Remove emails
        List<EmailEntity> emails = emailDao.findByOrcid(orcid);
        if (emails != null && !emails.isEmpty()) {
            for (EmailEntity rc2Email : emails) {
                if (!params.get(EMAIL).equals(rc2Email.getId())) {
                    emailDao.removeEmail(orcid, rc2Email.getId());
                }
            }
        }
        // Remove notifications
        List<NotificationEntity> notifications = notificationDao.findByOrcid(orcid, true, 0, 10000);
        if (notifications != null && !notifications.isEmpty()) {
            for (NotificationEntity notification : notifications) {
                notificationDao.deleteNotificationItemByNotificationId(notification.getId());
                notificationDao.deleteNotificationWorkByNotificationId(notification.getId());
                notificationDao.deleteNotificationById(notification.getId());
            }
        }
        // Remove works
        List<MinimizedWorkEntity> works = workDao.findWorks(orcid, 0L);
        if (works != null && !works.isEmpty()) {
            for (MinimizedWorkEntity work : works) {
                workDao.removeWork(orcid, work.getId());
            }
        }
        // Remove affiliations
        List<OrgAffiliationRelationEntity> affiliations = orgAffiliationRelationDao.getByUser(orcid);
        if (affiliations != null && !affiliations.isEmpty()) {
            for (OrgAffiliationRelationEntity affiliation : affiliations) {
                orgAffiliationRelationDao.remove(affiliation.getId());
            }
        }
        // Remove fundings
        List<ProfileFundingEntity> fundings = profileFundingDao.getByUser(orcid);
        if (fundings != null && !fundings.isEmpty()) {
            for (ProfileFundingEntity funding : fundings) {
                profileFundingDao.removeProfileFunding(orcid, funding.getId());
            }
        }
        // Remove peer reviews
        List<PeerReviewEntity> peerReviews = peerReviewDao.getByUser(orcid);
        if (peerReviews != null && !peerReviews.isEmpty()) {
            for (PeerReviewEntity peerReview : peerReviews) {
                peerReviewDao.removePeerReview(orcid, peerReview.getId());
            }
        }
        // Remove 3d party links
        List<OrcidOauth2TokenDetail> tokenDetails = orcidOauth2TokenDetailDao.findByUserName(orcid);
        if (tokenDetails != null && !tokenDetails.isEmpty()) {
            for (OrcidOauth2TokenDetail token : tokenDetails) {
                orcidOauth2TokenDetailDao.remove(token.getId());
            }
        }
        //Unlock just in case it is locked
        profileDao.unlockProfile(orcid);
        return true;
    }
    return false;
}

Example 12 with ProfileKeywordEntity

use of org.orcid.persistence.jpa.entities.ProfileKeywordEntity in project ORCID-Source by ORCID.

the class ProfileDaoTest method testInsertWithSubjectsAndKeywords.

@Test
@Rollback(true)
@Transactional(propagation = Propagation.REQUIRES_NEW)
public void testInsertWithSubjectsAndKeywords() {
    String newOrcid = "4444-1111-6666-4444";
    ProfileEntity profile = new ProfileEntity();
    profile.setId(newOrcid);
    Set<SubjectEntity> subjects = new HashSet<SubjectEntity>(2);
    // profile.setSubjects(subjects);
    subjects.add(new SubjectEntity("Rhymin"));
    subjects.add(new SubjectEntity("Stealin"));
    SortedSet<ProfileKeywordEntity> keywords = new TreeSet<ProfileKeywordEntity>();
    profile.setKeywords(keywords);
    ProfileKeywordEntity entity = new ProfileKeywordEntity();
    entity.setProfile(profile);
    entity.setKeywordName("Bilocation");
    keywords.add(entity);
    entity = new ProfileKeywordEntity();
    entity.setProfile(profile);
    entity.setKeywordName("Humour");
    keywords.add(entity);
    entity = new ProfileKeywordEntity();
    entity.setProfile(profile);
    entity.setKeywordName("Ceramics");
    keywords.add(entity);
    profileDao.persist(profile);
    profileDao.flush();
    profile = profileDao.find(newOrcid);
    assertNotNull(profile);
    assertEquals(newOrcid, profile.getId());
    // assertEquals(2, profile.getSubjects().size());
    assertEquals(3, profile.getKeywords().size());
}

Example 13 with ProfileKeywordEntity

use of org.orcid.persistence.jpa.entities.ProfileKeywordEntity in project ORCID-Source by ORCID.

the class ProfileKeywordManagerImpl method updateKeywords.

@Override
@Transactional
public Keywords updateKeywords(String orcid, Keywords keywords) {
    List<ProfileKeywordEntity> existingKeywordsList = profileKeywordDao.getProfileKeywors(orcid, getLastModified(orcid));
    // Delete the deleted ones
    for (ProfileKeywordEntity existing : existingKeywordsList) {
        boolean deleteMe = true;
        if (keywords.getKeywords() != null) {
            for (Keyword updatedOrNew : keywords.getKeywords()) {
                if (existing.getId().equals(updatedOrNew.getPutCode())) {
                    deleteMe = false;
                    break;
                }
            }
        }
        if (deleteMe) {
            try {
                profileKeywordDao.deleteProfileKeyword(existing);
            } catch (Exception e) {
                throw new ApplicationException("Unable to delete keyword " + existing.getId(), e);
            }
        }
    }
    if (keywords != null && keywords.getKeywords() != null) {
        for (Keyword updatedOrNew : keywords.getKeywords()) {
            if (updatedOrNew.getPutCode() != null) {
                // Update the existing ones
                for (ProfileKeywordEntity existingKeyword : existingKeywordsList) {
                    if (existingKeyword.getId().equals(updatedOrNew.getPutCode())) {
                        existingKeyword.setLastModified(new Date());
                        existingKeyword.setVisibility(updatedOrNew.getVisibility());
                        existingKeyword.setKeywordName(updatedOrNew.getContent());
                        existingKeyword.setDisplayIndex(updatedOrNew.getDisplayIndex());
                        profileKeywordDao.merge(existingKeyword);
                    }
                }
            } else {
                // Add the new ones
                ProfileKeywordEntity newKeyword = adapter.toProfileKeywordEntity(updatedOrNew);
                SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
                ProfileEntity profile = new ProfileEntity(orcid);
                newKeyword.setProfile(profile);
                newKeyword.setDateCreated(new Date());
                //Set the source
                if (sourceEntity.getSourceProfile() != null) {
                    newKeyword.setSourceId(sourceEntity.getSourceProfile().getId());
                }
                if (sourceEntity.getSourceClient() != null) {
                    newKeyword.setClientSourceId(sourceEntity.getSourceClient().getId());
                }
                newKeyword.setVisibility(updatedOrNew.getVisibility());
                newKeyword.setDisplayIndex(updatedOrNew.getDisplayIndex());
                profileKeywordDao.persist(newKeyword);
            }
        }
    }
    return keywords;
}

Example 14 with ProfileKeywordEntity

use of org.orcid.persistence.jpa.entities.ProfileKeywordEntity in project ORCID-Source by ORCID.

the class ProfileKeywordManagerImpl method updateKeyword.

@Override
@Transactional
public Keyword updateKeyword(String orcid, Long putCode, Keyword keyword, boolean isApiRequest) {
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    ProfileKeywordEntity updatedEntity = profileKeywordDao.getProfileKeyword(orcid, putCode);
    Visibility originalVisibility = Visibility.fromValue(updatedEntity.getVisibility().value());
    //Save the original source
    String existingSourceId = updatedEntity.getSourceId();
    String existingClientSourceId = updatedEntity.getClientSourceId();
    // Validate the keyword
    PersonValidator.validateKeyword(keyword, sourceEntity, false, isApiRequest, originalVisibility);
    // Validate it is not duplicated
    List<ProfileKeywordEntity> existingKeywords = profileKeywordDao.getProfileKeywors(orcid, getLastModified(orcid));
    for (ProfileKeywordEntity existing : existingKeywords) {
        if (isDuplicated(existing, keyword, sourceEntity)) {
            Map<String, String> params = new HashMap<String, String>();
            params.put("type", "keyword");
            params.put("value", keyword.getContent());
            throw new OrcidDuplicatedElementException(params);
        }
    }
    orcidSecurityManager.checkSource(updatedEntity);
    adapter.toProfileKeywordEntity(keyword, updatedEntity);
    updatedEntity.setLastModified(new Date());
    //Be sure it doesn't overwrite the source
    updatedEntity.setSourceId(existingSourceId);
    updatedEntity.setClientSourceId(existingClientSourceId);
    profileKeywordDao.merge(updatedEntity);
    return adapter.toKeyword(updatedEntity);
}

Example 15 with ProfileKeywordEntity

use of org.orcid.persistence.jpa.entities.ProfileKeywordEntity in project ORCID-Source by ORCID.

the class ProfileKeywordManagerImpl method createKeyword.

@Override
public Keyword createKeyword(String orcid, Keyword keyword, boolean isApiRequest) {
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    // Validate the keyword
    PersonValidator.validateKeyword(keyword, sourceEntity, true, isApiRequest, null);
    // Validate it is not duplicated
    List<ProfileKeywordEntity> existingKeywords = profileKeywordDao.getProfileKeywors(orcid, getLastModified(orcid));
    for (ProfileKeywordEntity existing : existingKeywords) {
        if (isDuplicated(existing, keyword, sourceEntity)) {
            Map<String, String> params = new HashMap<String, String>();
            params.put("type", "keyword");
            params.put("value", keyword.getContent());
            throw new OrcidDuplicatedElementException(params);
        }
    }
    ProfileKeywordEntity newEntity = adapter.toProfileKeywordEntity(keyword);
    ProfileEntity profile = profileEntityCacheManager.retrieve(orcid);
    newEntity.setProfile(profile);
    newEntity.setDateCreated(new Date());
    //Set the source
    if (sourceEntity.getSourceProfile() != null) {
        newEntity.setSourceId(sourceEntity.getSourceProfile().getId());
    }
    if (sourceEntity.getSourceClient() != null) {
        newEntity.setClientSourceId(sourceEntity.getSourceClient().getId());
    }
    setIncomingPrivacy(newEntity, profile);
    DisplayIndexCalculatorHelper.setDisplayIndexOnNewEntity(newEntity, isApiRequest);
    profileKeywordDao.persist(newEntity);
    return adapter.toKeyword(newEntity);
}