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

Example 11 with ExternalIdentifierEntity

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

the class ExternalIdentifierManagerImpl method createExternalIdentifier.

@Override
public PersonExternalIdentifier createExternalIdentifier(String orcid, PersonExternalIdentifier externalIdentifier, boolean isApiRequest) {
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    // Validate external identifier
    PersonValidator.validateExternalIdentifier(externalIdentifier, sourceEntity, true, isApiRequest, null, requireRelationshipOnExternalIdentifier);
    // Validate it is not duplicated
    List<ExternalIdentifierEntity> existingExternalIdentifiers = externalIdentifierDao.getExternalIdentifiers(orcid, getLastModified(orcid));
    for (ExternalIdentifierEntity existing : existingExternalIdentifiers) {
        if (isDuplicated(existing, externalIdentifier, sourceEntity)) {
            Map<String, String> params = new HashMap<String, String>();
            params.put("type", "external-identifier");
            params.put("value", externalIdentifier.getUrl().getValue());
            throw new OrcidDuplicatedElementException(params);
        }
    }
    ExternalIdentifierEntity newEntity = jpaJaxbExternalIdentifierAdapter.toExternalIdentifierEntity(externalIdentifier);
    ProfileEntity profile = profileEntityCacheManager.retrieve(orcid);
    newEntity.setOwner(profile);
    newEntity.setDateCreated(new Date());
    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);
    externalIdentifierDao.persist(newEntity);
    return jpaJaxbExternalIdentifierAdapter.toExternalIdentifier(newEntity);
}

Example 12 with ExternalIdentifierEntity

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

the class ExternalIdentifierDaoImpl method getExternalIdentifierEntity.

@Override
public ExternalIdentifierEntity getExternalIdentifierEntity(String orcid, Long id) {
    Query query = entityManager.createQuery("FROM ExternalIdentifierEntity WHERE owner.id = :orcid and id = :id");
    query.setParameter("orcid", orcid);
    query.setParameter("id", id);
    return (ExternalIdentifierEntity) query.getSingleResult();
}

Example 13 with ExternalIdentifierEntity

use of org.orcid.persistence.jpa.entities.ExternalIdentifierEntity 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 14 with ExternalIdentifierEntity

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

the class ExternalIdentifierDaoTest method testGetExternalIdentifier.

@Test
public void testGetExternalIdentifier() {
    ExternalIdentifierEntity extId = externalIdentifierDao.getExternalIdentifierEntity("4444-4444-4444-4442", 3L);
    assertNotNull(extId);
    assertNotNull(extId.getDateCreated());
    assertNotNull(extId.getLastModified());
    assertEquals("Facebook", extId.getExternalIdCommonName());
    assertEquals("abc456", extId.getExternalIdReference());
    assertEquals("http://www.facebook.com/abc456", extId.getExternalIdUrl());
    assertEquals(Long.valueOf(3), extId.getId());
    assertEquals(Visibility.LIMITED, extId.getVisibility());
    assertNotNull(extId.getElementSourceId());
    assertEquals("4444-4444-4444-4442", extId.getElementSourceId());
}

Example 15 with ExternalIdentifierEntity

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

the class ExternalIdentifierDaoTest method testGetExternalIdentifiers.

@SuppressWarnings("unchecked")
@Test
public void testGetExternalIdentifiers() {
    List<ExternalIdentifierEntity> extIds = externalIdentifierDao.getExternalIdentifiers("4444-4444-4444-4442", 0L);
    assertNotNull(extIds);
    assertEquals(4, extIds.size());
    for (ExternalIdentifierEntity extId : extIds) {
        assertThat(extId.getId(), anyOf(is(2L), is(3L), is(4L), is(5L)));
        assertEquals("Facebook", extId.getExternalIdCommonName());
        assertNotNull(extId.getElementSourceId());
        if (extId.getId() == 2L) {
            assertEquals("http://www.facebook.com/abc123", extId.getExternalIdUrl());
            assertEquals("abc123", extId.getExternalIdReference());
            assertEquals("APP-5555555555555555", extId.getElementSourceId());
        } else if (extId.getId() == 3L) {
            assertEquals("http://www.facebook.com/abc456", extId.getExternalIdUrl());
            assertEquals("abc456", extId.getExternalIdReference());
            assertEquals("4444-4444-4444-4442", extId.getElementSourceId());
        } else if (extId.getId() == 4L) {
            assertEquals("http://www.facebook.com/abc789", extId.getExternalIdUrl());
            assertEquals("abc789", extId.getExternalIdReference());
            assertEquals("4444-4444-4444-4441", extId.getElementSourceId());
        } else {
            assertEquals(Long.valueOf(5), extId.getId());
            assertEquals("http://www.facebook.com/abc012", extId.getExternalIdUrl());
            assertEquals("abc012", extId.getExternalIdReference());
            assertEquals("APP-5555555555555555", extId.getElementSourceId());
        }
    }
}