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

Example 11 with OrgEntity

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

the class PeerReviewManagerImpl method createPeerReview.

@Override
public PeerReview createPeerReview(String orcid, PeerReview peerReview, boolean isApiRequest) {
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    // If request comes from the API, perform the validations
    if (isApiRequest) {
        // Validate it have at least one ext id
        activityValidator.validatePeerReview(peerReview, sourceEntity, true, isApiRequest, null);
        List<PeerReviewEntity> peerReviews = peerReviewDao.getByUser(orcid, getLastModified(orcid));
        // duplicates
        if (!sourceEntity.getSourceId().equals(orcid)) {
            if (peerReviews != null) {
                for (PeerReviewEntity entity : peerReviews) {
                    PeerReview existing = jpaJaxbPeerReviewAdapter.toPeerReview(entity);
                    activityValidator.checkExternalIdentifiersForDuplicates(peerReview.getExternalIdentifiers(), existing.getExternalIdentifiers(), existing.getSource(), sourceEntity);
                }
            }
        } else {
            // check vocab of external identifiers
            externalIDValidator.validateWorkOrPeerReview(peerReview.getExternalIdentifiers());
            externalIDValidator.validateWorkOrPeerReview(peerReview.getSubjectExternalIdentifier());
        }
        validateGroupId(peerReview);
    }
    PeerReviewEntity entity = jpaJaxbPeerReviewAdapter.toPeerReviewEntity(peerReview);
    // Updates the give organization with the latest organization from
    // database
    OrgEntity updatedOrganization = orgManager.getOrgEntity(peerReview);
    entity.setOrg(updatedOrganization);
    // Set the source
    if (sourceEntity.getSourceProfile() != null) {
        entity.setSourceId(sourceEntity.getSourceProfile().getId());
    }
    if (sourceEntity.getSourceClient() != null) {
        entity.setClientSourceId(sourceEntity.getSourceClient().getId());
    }
    ProfileEntity profile = profileEntityCacheManager.retrieve(orcid);
    entity.setProfile(profile);
    setIncomingPrivacy(entity, profile);
    DisplayIndexCalculatorHelper.setDisplayIndexOnNewEntity(entity, isApiRequest);
    peerReviewDao.persist(entity);
    peerReviewDao.flush();
    notificationManager.sendAmendEmail(orcid, AmendedSection.PEER_REVIEW, createItemList(entity));
    return jpaJaxbPeerReviewAdapter.toPeerReview(entity);
}

Example 12 with OrgEntity

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

the class OrgDisambiguatedManagerImpl method convertEntityToDocument.

private OrgDisambiguatedSolrDocument convertEntityToDocument(OrgDisambiguatedEntity entity) {
    OrgDisambiguatedSolrDocument document = new OrgDisambiguatedSolrDocument();
    document.setOrgDisambiguatedId(entity.getId());
    document.setOrgDisambiguatedName(entity.getName());
    document.setOrgDisambiguatedCity(entity.getCity());
    document.setOrgDisambiguatedRegion(entity.getRegion());
    if (entity.getCountry() != null)
        document.setOrgDisambiguatedCountry(entity.getCountry().value());
    document.setOrgDisambiguatedIdFromSource(entity.getSourceId());
    document.setOrgDisambiguatedIdSourceType(entity.getSourceType());
    document.setOrgDisambiguatedType(entity.getOrgType());
    document.setOrgDisambiguatedPopularity(entity.getPopularity());
    Set<String> orgNames = new HashSet<>();
    orgNames.add(entity.getName());
    Set<OrgEntity> orgs = entity.getOrgs();
    if (orgs != null) {
        for (OrgEntity org : orgs) {
            orgNames.add(org.getName());
        }
    }
    document.setOrgNames(new ArrayList<>(orgNames));
    if (FUNDING_ORG_TYPE.equals(entity.getSourceType())) {
        document.setFundingOrg(true);
    } else {
        document.setFundingOrg(false);
    }
    return document;
}

Example 13 with OrgEntity

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

the class OrgManagerImpl method createUpdate.

@Override
public OrgEntity createUpdate(OrgEntity org) {
    OrgEntity existingOrg = orgDao.findByNameCityRegionAndCountry(org.getName(), org.getCity(), org.getRegion(), org.getCountry());
    if (existingOrg != null) {
        return existingOrg;
    }
    SourceEntity entity = sourceManager.retrieveSourceEntity();
    if (entity != null) {
        SourceEntity newEntity = new SourceEntity();
        if (entity.getSourceClient() != null) {
            newEntity.setSourceClient(new ClientDetailsEntity(entity.getSourceClient().getId()));
        }
        if (entity.getSourceProfile() != null) {
            newEntity.setSourceProfile(new ProfileEntity(entity.getSourceProfile().getId()));
        }
        org.setSource(newEntity);
    }
    orgDao.persist(org);
    return org;
}

Example 14 with OrgEntity

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

the class PeerReviewManagerImpl method createPeerReview.

@Override
public PeerReview createPeerReview(String orcid, PeerReview peerReview, boolean isApiRequest) {
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    // If request comes from the API, perform the validations
    if (isApiRequest) {
        // Validate it have at least one ext id
        activityValidator.validatePeerReview(peerReview, sourceEntity, true, isApiRequest, null);
        List<PeerReviewEntity> peerReviews = peerReviewDao.getByUser(orcid, getLastModified(orcid));
        // duplicates
        if (!sourceEntity.getSourceId().equals(orcid)) {
            if (peerReviews != null) {
                for (PeerReviewEntity entity : peerReviews) {
                    PeerReview existing = jpaJaxbPeerReviewAdapter.toPeerReview(entity);
                    activityValidator.checkExternalIdentifiersForDuplicates(peerReview.getExternalIdentifiers(), existing.getExternalIdentifiers(), existing.getSource(), sourceEntity);
                }
            }
        } else {
            // check vocab of external identifiers
            externalIDValidator.validateWorkOrPeerReview(peerReview.getExternalIdentifiers());
            externalIDValidator.validateWorkOrPeerReview(peerReview.getSubjectExternalIdentifier());
        }
        validateGroupId(peerReview);
    }
    PeerReviewEntity entity = jpaJaxbPeerReviewAdapter.toPeerReviewEntity(peerReview);
    // Updates the give organization with the latest organization from
    // database
    OrgEntity updatedOrganization = orgManager.getOrgEntity(peerReview);
    entity.setOrg(updatedOrganization);
    // Set the source
    if (sourceEntity.getSourceProfile() != null) {
        entity.setSourceId(sourceEntity.getSourceProfile().getId());
    }
    if (sourceEntity.getSourceClient() != null) {
        entity.setClientSourceId(sourceEntity.getSourceClient().getId());
    }
    ProfileEntity profile = profileEntityCacheManager.retrieve(orcid);
    entity.setProfile(profile);
    setIncomingPrivacy(entity, profile);
    DisplayIndexCalculatorHelper.setDisplayIndexOnNewEntity(entity, isApiRequest);
    peerReviewDao.persist(entity);
    peerReviewDao.flush();
    notificationManager.sendAmendEmail(orcid, AmendedSection.PEER_REVIEW, createItemList(entity));
    return jpaJaxbPeerReviewAdapter.toPeerReview(entity);
}

Example 15 with OrgEntity

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

the class PeerReviewManagerImpl method updatePeerReview.

@Override
public PeerReview updatePeerReview(String orcid, PeerReview peerReview, boolean isApiRequest) {
    PeerReviewEntity existingEntity = peerReviewDao.getPeerReview(orcid, peerReview.getPutCode());
    Visibility originalVisibility = existingEntity.getVisibility();
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    // Save the original source
    String existingSourceId = existingEntity.getSourceId();
    String existingClientSourceId = existingEntity.getClientSourceId();
    // If request comes from the API perform validations
    if (isApiRequest) {
        activityValidator.validatePeerReview(peerReview, sourceEntity, false, isApiRequest, originalVisibility);
        validateGroupId(peerReview);
        List<PeerReview> existingReviews = this.findPeerReviews(orcid);
        for (PeerReview existing : existingReviews) {
            // Dont compare the updated peer review with the DB version
            if (!existing.getPutCode().equals(peerReview.getPutCode())) {
                activityValidator.checkExternalIdentifiersForDuplicates(peerReview.getExternalIdentifiers(), existing.getExternalIdentifiers(), existing.getSource(), sourceManager.retrieveSourceEntity());
            }
        }
    } else {
        // check vocab of external identifiers
        externalIDValidator.validateWorkOrPeerReview(peerReview.getExternalIdentifiers());
        externalIDValidator.validateWorkOrPeerReview(peerReview.getSubjectExternalIdentifier());
    }
    PeerReviewEntity updatedEntity = new PeerReviewEntity();
    orcidSecurityManager.checkSource(existingEntity);
    jpaJaxbPeerReviewAdapter.toPeerReviewEntity(peerReview, updatedEntity);
    updatedEntity.setProfile(new ProfileEntity(orcid));
    updatedEntity.setVisibility(originalVisibility);
    // Be sure it doesn't overwrite the source
    updatedEntity.setSourceId(existingSourceId);
    updatedEntity.setClientSourceId(existingClientSourceId);
    OrgEntity updatedOrganization = orgManager.getOrgEntity(peerReview);
    updatedEntity.setOrg(updatedOrganization);
    updatedEntity = peerReviewDao.merge(updatedEntity);
    peerReviewDao.flush();
    notificationManager.sendAmendEmail(orcid, AmendedSection.PEER_REVIEW, createItemList(updatedEntity));
    return jpaJaxbPeerReviewAdapter.toPeerReview(updatedEntity);
}