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

Example 36 with OrgEntity

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

the class LoadRinggoldData method generateOrganizationFromInstitutionNode.

private void generateOrganizationFromInstitutionNode(OrgDisambiguatedEntity disambiguatedEntity, String name, Iso3166Country country, String city, String region) {
    Date now = new Date();
    // Not happy with line below.  Can steal from other ORG ID types.
    OrgEntity existingOrg = orgDao.findByNameCityRegionAndCountry(name, city, region, country);
    if (existingOrg != null) {
        if (existingOrg.getOrgDisambiguated() == null) {
            existingOrg.setOrgDisambiguated(disambiguatedEntity);
            existingOrg.setLastModified(now);
            orgDao.merge(existingOrg);
            numUpdatedOrgs++;
        }
    } else {
        OrgEntity newOrg = new OrgEntity();
        newOrg.setDateCreated(now);
        newOrg.setLastModified(now);
        newOrg.setRegion(region);
        newOrg.setCity(city);
        newOrg.setCountry(country);
        newOrg.setName(name);
        newOrg.setOrgDisambiguated(disambiguatedEntity);
        orgDao.persist(newOrg);
        numAddedOrgs++;
    }
}

Example 37 with OrgEntity

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

the class Jpa2JaxbAdapterTest method testProfileEntityToOrcidMessage.

@Test
public void testProfileEntityToOrcidMessage() {
    String userOrcid = "0000-0000-0000-1234";
    String clientId = "APP-5555555555555555";
    ProfileEntity profile = new ProfileEntity(userOrcid);
    // Set default visibility
    profile.setActivitiesVisibilityDefault(org.orcid.jaxb.model.common_v2.Visibility.LIMITED);
    // Set name
    RecordNameEntity name = new RecordNameEntity();
    name.setCreditName("My credit name");
    name.setFamilyName("My family name");
    name.setGivenNames("My given names");
    name.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    profile.setRecordNameEntity(name);
    // Set biography
    BiographyEntity bio = new BiographyEntity();
    bio.setBiography("This is my biography");
    bio.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    profile.setBiographyEntity(bio);
    // Set other names
    TreeSet<OtherNameEntity> otherNames = new TreeSet<OtherNameEntity>();
    OtherNameEntity otherName = new OtherNameEntity();
    otherName.setDisplayName("My other name");
    otherName.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    otherName.setDisplayIndex(20000L);
    otherName.setClientSourceId(clientId);
    otherName.setId(24816L);
    otherNames.add(otherName);
    profile.setOtherNames(otherNames);
    // Set address
    Set<AddressEntity> addresses = new HashSet<AddressEntity>();
    AddressEntity address = new AddressEntity();
    address.setIso2Country(Iso3166Country.US);
    address.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    address.setDisplayIndex(20000L);
    address.setClientSourceId(clientId);
    address.setId(24816L);
    addresses.add(address);
    profile.setAddresses(addresses);
    // Set keywords
    TreeSet<ProfileKeywordEntity> keywords = new TreeSet<ProfileKeywordEntity>();
    ProfileKeywordEntity keyword = new ProfileKeywordEntity();
    keyword.setKeywordName("My keyword");
    keyword.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    keyword.setDisplayIndex(20000L);
    keyword.setClientSourceId(clientId);
    keyword.setId(24816L);
    keywords.add(keyword);
    profile.setKeywords(keywords);
    // Set researcher urls
    TreeSet<ResearcherUrlEntity> rUrls = new TreeSet<ResearcherUrlEntity>();
    ResearcherUrlEntity rUrl = new ResearcherUrlEntity();
    rUrl.setUrl("http://orcid.org");
    rUrl.setUrlName("My rUrl");
    rUrl.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    rUrl.setDisplayIndex(20000L);
    rUrl.setClientSourceId(clientId);
    rUrl.setId(24816L);
    rUrls.add(rUrl);
    profile.setResearcherUrls(rUrls);
    // Set external identifiers
    Set<ExternalIdentifierEntity> extIds = new HashSet<ExternalIdentifierEntity>();
    ExternalIdentifierEntity extId = new ExternalIdentifierEntity();
    extId.setExternalIdCommonName("My common name");
    extId.setExternalIdReference("My refrence");
    extId.setExternalIdUrl("http://orcid.org");
    extId.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    extId.setDisplayIndex(20000L);
    extId.setClientSourceId(clientId);
    extId.setId(24816L);
    extIds.add(extId);
    profile.setExternalIdentifiers(extIds);
    // Set works
    TreeSet<WorkEntity> works = new TreeSet<WorkEntity>();
    WorkEntity work = new WorkEntity();
    work.setWorkType(WorkType.OTHER);
    work.setTitle("My work title");
    work.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    work.setDisplayIndex(20000L);
    work.setClientSourceId(clientId);
    work.setId(24816L);
    work.setOrcid(profile.getId());
    works.add(work);
    when(mockWorkEntityCacheManager.retrieveFullWorks(userOrcid, 0)).thenReturn(new ArrayList<>(works));
    // Existing org
    OrgEntity newOrg = new OrgEntity();
    newOrg.setId(1234L);
    newOrg.setCity("San Jose");
    newOrg.setCountry(org.orcid.jaxb.model.message.Iso3166Country.CR);
    newOrg.setName("My org name");
    // Set funding
    TreeSet<ProfileFundingEntity> fundings = new TreeSet<ProfileFundingEntity>();
    ProfileFundingEntity funding = new ProfileFundingEntity();
    funding.setOrg(newOrg);
    funding.setTitle("My funding title");
    funding.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    funding.setDisplayIndex(20000L);
    funding.setClientSourceId(clientId);
    funding.setId(24816L);
    fundings.add(funding);
    profile.setProfileFunding(fundings);
    // Set affiliations
    TreeSet<OrgAffiliationRelationEntity> affiliations = new TreeSet<OrgAffiliationRelationEntity>();
    OrgAffiliationRelationEntity affiliation = new OrgAffiliationRelationEntity();
    affiliation.setAffiliationType(org.orcid.jaxb.model.v3.dev1.record.AffiliationType.EDUCATION);
    affiliation.setOrg(newOrg);
    affiliation.setVisibility(org.orcid.jaxb.model.common_v2.Visibility.PUBLIC);
    affiliation.setClientSourceId(clientId);
    affiliation.setId(24816L);
    affiliations.add(affiliation);
    profile.setOrgAffiliationRelations(affiliations);
    OrcidProfile orcidProfile = adapter.toOrcidProfile(profile, LoadOptions.ALL);
    // Check profile
    assertNotNull(orcidProfile);
    assertNotNull(orcidProfile.getOrcidIdentifier());
    assertEquals("http://orcid.org/" + userOrcid, orcidProfile.getOrcidIdentifier().getUri());
    assertEquals("orcid.org", orcidProfile.getOrcidIdentifier().getHost());
    assertEquals(userOrcid, orcidProfile.getOrcidIdentifier().getPath());
    // Check activities
    assertNotNull(orcidProfile.getOrcidActivities());
    // Check works
    assertNotNull(orcidProfile.getOrcidActivities().getOrcidWorks());
    assertNotNull(orcidProfile.getOrcidActivities().getOrcidWorks().getOrcidWork());
    assertEquals(1, orcidProfile.getOrcidActivities().getOrcidWorks().getOrcidWork().size());
    assertEquals("My work title", orcidProfile.getOrcidActivities().getOrcidWorks().getOrcidWork().get(0).getWorkTitle().getTitle().getContent());
    assertEquals("24816", orcidProfile.getOrcidActivities().getOrcidWorks().getOrcidWork().get(0).getPutCode());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidActivities().getOrcidWorks().getOrcidWork().get(0).getVisibility());
    checkSource(orcidProfile.getOrcidActivities().getOrcidWorks().getOrcidWork().get(0).getSource(), clientId);
    // Check fundings
    assertNotNull(orcidProfile.getOrcidActivities().getFundings());
    assertNotNull(orcidProfile.getOrcidActivities().getFundings().getFundings());
    assertEquals(1, orcidProfile.getOrcidActivities().getFundings().getFundings().size());
    assertEquals("My funding title", orcidProfile.getOrcidActivities().getFundings().getFundings().get(0).getTitle().getTitle().getContent());
    assertEquals("24816", orcidProfile.getOrcidActivities().getFundings().getFundings().get(0).getPutCode());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidActivities().getFundings().getFundings().get(0).getVisibility());
    checkSource(orcidProfile.getOrcidActivities().getFundings().getFundings().get(0).getSource(), clientId);
    // Check affiliations
    assertNotNull(orcidProfile.getOrcidActivities().getAffiliations());
    assertNotNull(orcidProfile.getOrcidActivities().getAffiliations().getAffiliation());
    assertEquals(1, orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().size());
    assertEquals(AffiliationType.EDUCATION, orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().get(0).getType());
    assertEquals("My org name", orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().get(0).getOrganization().getName());
    assertEquals("San Jose", orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().get(0).getOrganization().getAddress().getCity());
    assertEquals(org.orcid.jaxb.model.message.Iso3166Country.CR, orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().get(0).getOrganization().getAddress().getCountry());
    assertEquals("24816", orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().get(0).getPutCode());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().get(0).getVisibility());
    checkSource(orcidProfile.getOrcidActivities().getAffiliations().getAffiliation().get(0).getSource(), clientId);
    // Check biography
    assertNotNull(orcidProfile.getOrcidBio());
    // Check name
    assertNotNull(orcidProfile.getOrcidBio().getPersonalDetails());
    assertNotNull(orcidProfile.getOrcidBio().getPersonalDetails().getCreditName());
    assertEquals("My credit name", orcidProfile.getOrcidBio().getPersonalDetails().getCreditName().getContent());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getPersonalDetails().getCreditName().getVisibility());
    assertNotNull(orcidProfile.getOrcidBio().getPersonalDetails().getGivenNames());
    assertEquals("My given names", orcidProfile.getOrcidBio().getPersonalDetails().getGivenNames().getContent());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getPersonalDetails().getGivenNames().getVisibility());
    assertNotNull(orcidProfile.getOrcidBio().getPersonalDetails().getFamilyName());
    assertEquals("My family name", orcidProfile.getOrcidBio().getPersonalDetails().getFamilyName().getContent());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getPersonalDetails().getFamilyName().getVisibility());
    // Check other names
    assertNotNull(orcidProfile.getOrcidBio().getPersonalDetails().getOtherNames());
    assertNotNull(orcidProfile.getOrcidBio().getPersonalDetails().getOtherNames().getOtherName());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getPersonalDetails().getOtherNames().getVisibility());
    assertEquals(1, orcidProfile.getOrcidBio().getPersonalDetails().getOtherNames().getOtherName().size());
    // Check biography
    assertNotNull(orcidProfile.getOrcidBio().getBiography());
    assertEquals("This is my biography", orcidProfile.getOrcidBio().getBiography().getContent());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getBiography().getVisibility());
    // Check address
    assertNotNull(orcidProfile.getOrcidBio().getContactDetails());
    assertNotNull(orcidProfile.getOrcidBio().getContactDetails().getAddress());
    assertNotNull(orcidProfile.getOrcidBio().getContactDetails().getAddress().getCountry());
    assertEquals(org.orcid.jaxb.model.message.Iso3166Country.US, orcidProfile.getOrcidBio().getContactDetails().getAddress().getCountry().getValue());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getContactDetails().getAddress().getCountry().getVisibility());
    // Check keywords
    assertNotNull(orcidProfile.getOrcidBio().getKeywords());
    assertNotNull(orcidProfile.getOrcidBio().getKeywords().getKeyword());
    assertEquals(1, orcidProfile.getOrcidBio().getKeywords().getKeyword().size());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getKeywords().getVisibility());
    assertEquals("My keyword", orcidProfile.getOrcidBio().getKeywords().getKeyword().get(0).getContent());
    // Check researcher urls
    assertNotNull(orcidProfile.getOrcidBio().getResearcherUrls());
    assertNotNull(orcidProfile.getOrcidBio().getResearcherUrls().getResearcherUrl());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getResearcherUrls().getVisibility());
    assertEquals(1, orcidProfile.getOrcidBio().getResearcherUrls().getResearcherUrl().size());
    assertEquals("My rUrl", orcidProfile.getOrcidBio().getResearcherUrls().getResearcherUrl().get(0).getUrlName().getContent());
    assertEquals("http://orcid.org", orcidProfile.getOrcidBio().getResearcherUrls().getResearcherUrl().get(0).getUrl().getValue());
    // Check external identifiers
    assertNotNull(orcidProfile.getOrcidBio().getExternalIdentifiers());
    assertNotNull(orcidProfile.getOrcidBio().getExternalIdentifiers().getExternalIdentifier());
    assertEquals(1, orcidProfile.getOrcidBio().getExternalIdentifiers().getExternalIdentifier().size());
    assertEquals("My common name", orcidProfile.getOrcidBio().getExternalIdentifiers().getExternalIdentifier().get(0).getExternalIdCommonName().getContent());
    assertEquals("My refrence", orcidProfile.getOrcidBio().getExternalIdentifiers().getExternalIdentifier().get(0).getExternalIdReference().getContent());
    assertEquals("http://orcid.org", orcidProfile.getOrcidBio().getExternalIdentifiers().getExternalIdentifier().get(0).getExternalIdUrl().getValue());
    assertEquals(org.orcid.jaxb.model.message.Visibility.PUBLIC, orcidProfile.getOrcidBio().getExternalIdentifiers().getExternalIdentifier().get(0).getVisibility());
    checkSource(orcidProfile.getOrcidBio().getExternalIdentifiers().getExternalIdentifier().get(0).getSource(), clientId);
}

Example 38 with OrgEntity

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

the class LoadLEIDataTest method testUpdate.

@Test
public void testUpdate() throws URISyntaxException, FileNotFoundException, XMLStreamException {
    Path path = Paths.get(getClass().getClassLoader().getResource("lei/complex.xml").toURI());
    File testFile = path.toFile();
    // fake finding existing
    OrgDisambiguatedEntity found = new OrgDisambiguatedEntity();
    found.setSourceId("213800ZH4VUOQOUVYX93");
    found.setSourceType("LEI");
    Mockito.when(orgDisambiguatedDao.findBySourceIdAndSourceType(Mockito.anyString(), Mockito.anyString())).thenReturn(found);
    // capture merge
    ArgumentCaptor<OrgDisambiguatedEntity> argument = ArgumentCaptor.forClass(OrgDisambiguatedEntity.class);
    Mockito.when(orgDisambiguatedDao.merge(argument.capture())).then(AdditionalAnswers.returnsFirstArg());
    // fake finding existing org
    Mockito.when(orgDao.findByAddressAndDisambiguatedOrg(Mockito.anyString(), Mockito.anyString(), Mockito.anyString(), Mockito.anyObject(), Mockito.anyObject())).thenReturn(new OrgEntity());
    // make sure we're not calling the wrong things
    doThrow(new RuntimeException()).when(orgDao).persist(Mockito.anyObject());
    doThrow(new RuntimeException()).when(orgDao).merge(Mockito.anyObject());
    doThrow(new RuntimeException()).when(orgDisambiguatedDao).persist(Mockito.anyObject());
    loadLeiData.setFileToLoad(testFile);
    loadLeiData.execute();
    assertEquals("213800ZH4VUOQOUVYX93", argument.getValue().getSourceId());
    assertEquals("МОНБАТ АД", argument.getValue().getName());
    assertEquals("SOFIA", argument.getValue().getCity());
    assertEquals("BG", argument.getValue().getCountry().value());
    assertEquals("AKTSIONERNO DRUZHESTVO", argument.getValue().getOrgType());
    assertEquals("BG-22", argument.getValue().getRegion());
    assertEquals("PENDING", argument.getValue().getIndexingStatus().toString());
    assertEquals(null, argument.getValue().getStatus());
    assertEquals("LEI", argument.getValue().getSourceType());
}

Example 39 with OrgEntity

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

the class LoadLEIDataTest method testAddComplexRecord.

@Test
public void testAddComplexRecord() throws XMLStreamException, URISyntaxException, FileNotFoundException {
    Path path = Paths.get(getClass().getClassLoader().getResource("lei/complex.xml").toURI());
    File testFile = path.toFile();
    ArgumentCaptor<OrgDisambiguatedEntity> argument = ArgumentCaptor.forClass(OrgDisambiguatedEntity.class);
    doNothing().when(orgDisambiguatedDao).persist(argument.capture());
    ;
    ArgumentCaptor<OrgEntity> orgArgument = ArgumentCaptor.forClass(OrgEntity.class);
    doNothing().when(orgDao).persist(orgArgument.capture());
    loadLeiData.setFileToLoad(testFile);
    loadLeiData.execute();
    assertEquals("213800ZH4VUOQOUVYX93", argument.getValue().getSourceId());
    assertEquals("МОНБАТ АД", argument.getValue().getName());
    assertEquals("SOFIA", argument.getValue().getCity());
    assertEquals("BG", argument.getValue().getCountry().value());
    assertEquals("AKTSIONERNO DRUZHESTVO", argument.getValue().getOrgType());
    assertEquals("BG-22", argument.getValue().getRegion());
    assertEquals("PENDING", argument.getValue().getIndexingStatus().toString());
    assertEquals(null, argument.getValue().getStatus());
    assertEquals("LEI", argument.getValue().getSourceType());
    assertEquals("MONBAT PLC", orgArgument.getAllValues().get(0).getName());
    assertEquals("SOFIA", orgArgument.getAllValues().get(0).getCity());
    assertEquals("BG", orgArgument.getAllValues().get(0).getCountry().value());
    assertEquals("BG-22", orgArgument.getAllValues().get(0).getRegion());
    assertEquals("213800ZH4VUOQOUVYX93", orgArgument.getAllValues().get(0).getOrgDisambiguated().getSourceId());
}

Example 40 with OrgEntity

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

the class LoadRinggoldDataTest method test_LinkExistingOrgToNewDisambiguatedOrg.

@Test
public void test_LinkExistingOrgToNewDisambiguatedOrg() throws URISyntaxException {
    setupInitialMocks();
    Path path = Paths.get(getClass().getClassLoader().getResource("ringgold/test_LinkExistingOrgToNewDisambiguatedOrg/").toURI());
    File testDirectory = path.toFile();
    assertTrue(testDirectory.exists());
    loader.setDirectory(testDirectory);
    loader.execute();
    verify(mockOrgDisambiguatedDao, times(0)).persist(any());
    verify(mockOrgDisambiguatedDao, times(0)).merge(any());
    verify(mockOrgDisambiguatedExternalIdentifierDao, times(0)).persist(any());
    verify(mockOrgDisambiguatedExternalIdentifierDao, times(0)).merge(any());
    verify(mockOrgDisambiguatedExternalIdentifierDao, times(0)).remove(anyLong());
    ArgumentCaptor<OrgEntity> captor = ArgumentCaptor.forClass(OrgEntity.class);
    verify(mockOrgDao, times(0)).persist(any());
    verify(mockOrgDao, times(1)).merge(captor.capture());
    List<OrgEntity> list = captor.getAllValues();
    assertEquals(1, list.size());
    OrgEntity entity = list.get(0);
    assertEquals("AltCity#3", entity.getCity());
    assertEquals(Iso3166Country.CR, entity.getCountry());
    assertEquals("Testing Org", entity.getName());
    assertEquals(Long.valueOf(3000), entity.getOrgDisambiguated().getId());
    assertEquals(null, entity.getRegion());
}