Examples with Source org.orcid.jaxb.model.common_v2.Source used on opensource projects

Example 11 with Source

use of org.orcid.jaxb.model.common_v2.Source in project ORCID-Source by ORCID.

the class ValidateV2_1IdentifiersTest method testPeerReview.

/** Test both types of identifier here
     * 
     * @throws SAXException
     * @throws IOException
     * @throws JAXBException
     * @throws ParserConfigurationException
     */
@Test
public void testPeerReview() throws SAXException, IOException, JAXBException, ParserConfigurationException {
    PeerReview peerReview = unmarshallFromPath("/record_2.1/samples/read_samples/peer-review-2.1.xml", PeerReview.class);
    ExternalID id = peerReview.getExternalIdentifiers().getExternalIdentifier().get(0);
    assertEquals("source-work-id", id.getType());
    assertEquals("work:external-identifier-id", id.getValue());
    assertEquals(new Url("http://orcid.org"), id.getUrl());
    assertEquals(Relationship.SELF, id.getRelationship());
    ExternalID subjectid = peerReview.getSubjectExternalIdentifier();
    assertEquals("doi", subjectid.getType());
    assertEquals("peer-review:subject-external-identifier-id", subjectid.getValue());
    assertEquals(new Url("http://orcid.org"), subjectid.getUrl());
    assertEquals(Relationship.SELF, subjectid.getRelationship());
    Validator validator = getValidator("peer-review");
    validator.validate(marshall(PeerReview.class, peerReview));
    validator.validate(marshallToDOM(PeerReview.class, peerReview));
    //do the full record too
    peerReview = unmarshallFromPath("/record_2.1/samples/read_samples/peer-review-full-2.1.xml", PeerReview.class);
    id = peerReview.getExternalIdentifiers().getExternalIdentifier().get(0);
    assertEquals("source-work-id", id.getType());
    assertEquals("work:external-identifier-id", id.getValue());
    assertEquals(new Url("http://orcid.org"), id.getUrl());
    assertEquals(Relationship.SELF, id.getRelationship());
    subjectid = peerReview.getSubjectExternalIdentifier();
    assertEquals("doi", subjectid.getType());
    assertEquals("peer-review:subject-external-identifier-id", subjectid.getValue());
    assertEquals(new Url("http://orcid.org"), subjectid.getUrl());
    assertEquals(Relationship.SELF, subjectid.getRelationship());
}

Example 12 with Source

use of org.orcid.jaxb.model.common_v2.Source in project ORCID-Source by ORCID.

the class AddressManagerImpl method updateAddress.

@Override
@Transactional
public Address updateAddress(String orcid, Long putCode, Address address, boolean isApiRequest) {
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    AddressEntity updatedEntity = addressDao.getAddress(orcid, putCode);
    Visibility originalVisibility = Visibility.fromValue(updatedEntity.getVisibility().value());
    //Save the original source
    String existingSourceId = updatedEntity.getSourceId();
    String existingClientSourceId = updatedEntity.getClientSourceId();
    //If it is an update from the API, check the source and preserve the original visibility
    if (isApiRequest) {
        orcidSecurityManager.checkSource(updatedEntity);
    }
    // Validate the address
    PersonValidator.validateAddress(address, sourceEntity, false, isApiRequest, originalVisibility);
    // Validate it is not duplicated
    List<AddressEntity> existingAddresses = addressDao.getAddresses(orcid, getLastModified(orcid));
    for (AddressEntity existing : existingAddresses) {
        //If it is not the same element
        if (!existing.getId().equals(address.getPutCode())) {
            if (isDuplicated(existing, address, sourceEntity)) {
                Map<String, String> params = new HashMap<String, String>();
                params.put("type", "address");
                params.put("value", address.getCountry().getValue().value());
                throw new OrcidDuplicatedElementException(params);
            }
        }
    }
    adapter.toAddressEntity(address, updatedEntity);
    updatedEntity.setLastModified(new Date());
    //Be sure it doesn't overwrite the source
    updatedEntity.setSourceId(existingSourceId);
    updatedEntity.setClientSourceId(existingClientSourceId);
    addressDao.merge(updatedEntity);
    return adapter.toAddress(updatedEntity);
}

Example 13 with Source

use of org.orcid.jaxb.model.common_v2.Source in project ORCID-Source by ORCID.

the class ExternalIdentifierManagerImpl method updateExternalIdentifier.

@Override
public PersonExternalIdentifier updateExternalIdentifier(String orcid, PersonExternalIdentifier externalIdentifier, boolean isApiRequest) {
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    ExternalIdentifierEntity updatedExternalIdentifierEntity = externalIdentifierDao.getExternalIdentifierEntity(orcid, externalIdentifier.getPutCode());
    //Save the original source
    String existingSourceId = updatedExternalIdentifierEntity.getSourceId();
    String existingClientSourceId = updatedExternalIdentifierEntity.getClientSourceId();
    Visibility originalVisibility = Visibility.fromValue(updatedExternalIdentifierEntity.getVisibility().value());
    // Validate external identifier
    PersonValidator.validateExternalIdentifier(externalIdentifier, sourceEntity, false, isApiRequest, originalVisibility, 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);
        }
    }
    orcidSecurityManager.checkSource(updatedExternalIdentifierEntity);
    jpaJaxbExternalIdentifierAdapter.toExternalIdentifierEntity(externalIdentifier, updatedExternalIdentifierEntity);
    updatedExternalIdentifierEntity.setLastModified(new Date());
    //Set source
    updatedExternalIdentifierEntity.setSourceId(existingSourceId);
    updatedExternalIdentifierEntity.setClientSourceId(existingClientSourceId);
    externalIdentifierDao.merge(updatedExternalIdentifierEntity);
    return jpaJaxbExternalIdentifierAdapter.toExternalIdentifier(updatedExternalIdentifierEntity);
}

Example 14 with Source

use of org.orcid.jaxb.model.common_v2.Source in project ORCID-Source by ORCID.

the class AffiliationsManagerImpl method updateEmploymentAffiliation.

/**
     * Updates a employment that belongs to the given user
     * 
     * @param orcid
     *            The user
     * @param employment
     *            The employment to update
     * @return the updated employment
     * */
@Override
public Employment updateEmploymentAffiliation(String orcid, Employment employment, boolean isApiRequest) {
    OrgAffiliationRelationEntity employmentEntity = orgAffiliationRelationDao.getOrgAffiliationRelation(orcid, employment.getPutCode());
    Visibility originalVisibility = employmentEntity.getVisibility();
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    //Save the original source
    String existingSourceId = employmentEntity.getSourceId();
    String existingClientSourceId = employmentEntity.getClientSourceId();
    orcidSecurityManager.checkSource(employmentEntity);
    activityValidator.validateEmployment(employment, sourceEntity, false, isApiRequest, originalVisibility);
    jpaJaxbEmploymentAdapter.toOrgAffiliationRelationEntity(employment, employmentEntity);
    employmentEntity.setVisibility(originalVisibility);
    //Be sure it doesn't overwrite the source
    employmentEntity.setSourceId(existingSourceId);
    employmentEntity.setClientSourceId(existingClientSourceId);
    // Updates the give organization with the latest organization from
    // database, or, create a new one
    OrgEntity updatedOrganization = orgManager.getOrgEntity(employment);
    employmentEntity.setOrg(updatedOrganization);
    employmentEntity.setAffiliationType(AffiliationType.EMPLOYMENT);
    employmentEntity = orgAffiliationRelationDao.merge(employmentEntity);
    orgAffiliationRelationDao.flush();
    notificationManager.sendAmendEmail(orcid, AmendedSection.EMPLOYMENT, createItem(employmentEntity));
    return jpaJaxbEmploymentAdapter.toEmployment(employmentEntity);
}

Example 15 with Source

use of org.orcid.jaxb.model.common_v2.Source in project ORCID-Source by ORCID.

the class AffiliationsManagerImpl method updateEducationAffiliation.

/**
     * Updates a education that belongs to the given user
     * 
     * @param orcid
     *            The user
     * @param education
     *            The education to update
     * @return the updated education
     * */
@Override
public Education updateEducationAffiliation(String orcid, Education education, boolean isApiRequest) {
    OrgAffiliationRelationEntity educationEntity = orgAffiliationRelationDao.getOrgAffiliationRelation(orcid, education.getPutCode());
    SourceEntity sourceEntity = sourceManager.retrieveSourceEntity();
    //Save the original source
    String existingSourceId = educationEntity.getSourceId();
    String existingClientSourceId = educationEntity.getClientSourceId();
    Visibility originalVisibility = educationEntity.getVisibility();
    orcidSecurityManager.checkSource(educationEntity);
    activityValidator.validateEducation(education, sourceEntity, false, isApiRequest, originalVisibility);
    jpaJaxbEducationAdapter.toOrgAffiliationRelationEntity(education, educationEntity);
    educationEntity.setVisibility(originalVisibility);
    //Be sure it doesn't overwrite the source
    educationEntity.setSourceId(existingSourceId);
    educationEntity.setClientSourceId(existingClientSourceId);
    // Updates the give organization with the latest organization from
    // database, or, create a new one
    OrgEntity updatedOrganization = orgManager.getOrgEntity(education);
    educationEntity.setOrg(updatedOrganization);
    educationEntity.setAffiliationType(AffiliationType.EDUCATION);
    educationEntity = orgAffiliationRelationDao.merge(educationEntity);
    orgAffiliationRelationDao.flush();
    notificationManager.sendAmendEmail(orcid, AmendedSection.EDUCATION, createItem(educationEntity));
    return jpaJaxbEducationAdapter.toEducation(educationEntity);
}