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

Example 21 with Source

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

the class OrcidMessageVersionConverterImplV1_2_rc5ToV1_2_rc6 method upgradeActivity.

private void upgradeActivity(OrcidWork orcidWork) {
    WorkSource workSource = orcidWork.getWorkSource();
    if (workSource != null) {
        Source source = new Source();
        source.setSourceOrcid(new SourceOrcid(workSource));
    }
}

Example 22 with Source

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

the class OrcidProfileManagerImplTest method testAddOrcidWorksWhenDefaultVisibilityIsPublic.

@Test
@Transactional
@Rollback(true)
public void testAddOrcidWorksWhenDefaultVisibilityIsPublic() {
    OrcidProfile profile1 = createBasicProfile();
    OrcidHistory history = new OrcidHistory();
    history.setSubmissionDate(new SubmissionDate(DateUtils.convertToXMLGregorianCalendar(new Date())));
    profile1.setOrcidHistory(history);
    history.setClaimed(new Claimed(true));
    profile1.getOrcidInternal().getPreferences().setActivitiesVisibilityDefault(new ActivitiesVisibilityDefault(Visibility.PUBLIC));
    orcidProfileManager.createOrcidProfile(profile1, false, false);
    OrcidProfile profile2 = new OrcidProfile();
    profile2.setOrcidIdentifier(TEST_ORCID);
    OrcidWorks orcidWorks = new OrcidWorks();
    profile2.setOrcidWorks(orcidWorks);
    WorkTitle workTitle1 = new WorkTitle();
    workTitle1.setTitle(new Title("Another Title"));
    workTitle1.setSubtitle(new Subtitle("Journal of Cloud Spotting"));
    OrcidWork work1 = createWork1(workTitle1);
    Source source = new Source(TEST_ORCID);
    work1.setSource(source);
    orcidWorks.getOrcidWork().add(work1);
    WorkTitle workTitle2 = new WorkTitle();
    workTitle2.setTitle(new Title("New Title"));
    workTitle2.setSubtitle(new Subtitle("Another New subtitle"));
    OrcidWork work2 = createWork2(workTitle2);
    orcidWorks.getOrcidWork().add(work2);
    // Try to add a duplicate
    WorkTitle workTitle3 = new WorkTitle();
    workTitle3.setTitle(new Title("Further Title"));
    workTitle3.setSubtitle(new Subtitle("Further subtitle"));
    OrcidWork work3 = createWork3(workTitle3);
    work3.setVisibility(Visibility.LIMITED);
    orcidWorks.getOrcidWork().add(work3);
    orcidProfileManager.addOrcidWorks(profile2);
    OrcidProfile resultProfile = orcidProfileManager.retrieveOrcidProfile(TEST_ORCID);
    assertEquals("Will", resultProfile.getOrcidBio().getPersonalDetails().getGivenNames().getContent());
    List<OrcidWork> works = resultProfile.retrieveOrcidWorks().getOrcidWork();
    assertEquals(4, works.size());
    assertEquals("Another Title", works.get(0).getWorkTitle().getTitle().getContent());
    assertEquals("Journal of Cloud Spotting", works.get(0).getWorkTitle().getSubtitle().getContent());
    for (OrcidWork work : works) {
        if ("Test Title".equals(work.getWorkTitle().getTitle().getContent()))
            assertEquals(Visibility.PRIVATE, work.getVisibility());
        else
            assertEquals(Visibility.PUBLIC, work.getVisibility());
    }
}

Example 23 with Source

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

the class OrcidProfileManagerImplTest method testAddOrcidWorksWhenDefaultVisibilityIsPrivate.

@Test
@Transactional
public void testAddOrcidWorksWhenDefaultVisibilityIsPrivate() {
    OrcidProfile profile1 = createBasicProfile();
    OrcidHistory history = new OrcidHistory();
    history.setSubmissionDate(new SubmissionDate(DateUtils.convertToXMLGregorianCalendar(new Date())));
    profile1.setOrcidHistory(history);
    history.setClaimed(new Claimed(true));
    profile1.getOrcidInternal().getPreferences().setActivitiesVisibilityDefault(new ActivitiesVisibilityDefault(Visibility.PRIVATE));
    orcidProfileManager.createOrcidProfile(profile1, false, false);
    OrcidProfile profile2 = new OrcidProfile();
    profile2.setOrcidIdentifier(TEST_ORCID);
    OrcidWorks orcidWorks = new OrcidWorks();
    profile2.setOrcidWorks(orcidWorks);
    WorkTitle workTitle1 = new WorkTitle();
    workTitle1.setTitle(new Title("Another Title"));
    workTitle1.setSubtitle(new Subtitle("Journal of Cloud Spotting"));
    OrcidWork work1 = createWork1(workTitle1);
    Source source = new Source(TEST_ORCID);
    work1.setSource(source);
    orcidWorks.getOrcidWork().add(work1);
    WorkTitle workTitle2 = new WorkTitle();
    workTitle2.setTitle(new Title("New Title"));
    workTitle2.setSubtitle(new Subtitle("Another New subtitle"));
    OrcidWork work2 = createWork2(workTitle2);
    orcidWorks.getOrcidWork().add(work2);
    // Try to add a duplicate
    WorkTitle workTitle3 = new WorkTitle();
    workTitle3.setTitle(new Title("Further Title"));
    workTitle3.setSubtitle(new Subtitle("Further subtitle"));
    OrcidWork work3 = createWork3(workTitle3);
    work3.setVisibility(Visibility.LIMITED);
    orcidWorks.getOrcidWork().add(work3);
    orcidProfileManager.addOrcidWorks(profile2);
    OrcidProfile resultProfile = orcidProfileManager.retrieveOrcidProfile(TEST_ORCID);
    assertEquals("Will", resultProfile.getOrcidBio().getPersonalDetails().getGivenNames().getContent());
    List<OrcidWork> works = resultProfile.retrieveOrcidWorks().getOrcidWork();
    assertEquals(4, works.size());
    assertEquals("Another Title", works.get(0).getWorkTitle().getTitle().getContent());
    assertEquals("Journal of Cloud Spotting", works.get(0).getWorkTitle().getSubtitle().getContent());
    for (OrcidWork work : works) {
        if ("Test Title".equals(work.getWorkTitle().getTitle().getContent()))
            assertEquals(Visibility.PRIVATE, work.getVisibility());
        else
            assertEquals(Visibility.PRIVATE, work.getVisibility());
    }
}

Example 24 with Source

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

the class OrcidProfileManagerImplTest method testAddOrcidWorksWhenDefaultVisibilityIsLimited.

@Test
@Transactional
@Rollback(true)
public void testAddOrcidWorksWhenDefaultVisibilityIsLimited() {
    OrcidProfile profile1 = createBasicProfile();
    OrcidHistory history = new OrcidHistory();
    history.setSubmissionDate(new SubmissionDate(DateUtils.convertToXMLGregorianCalendar(new Date())));
    profile1.setOrcidHistory(history);
    history.setClaimed(new Claimed(true));
    profile1.getOrcidInternal().getPreferences().setActivitiesVisibilityDefault(new ActivitiesVisibilityDefault(Visibility.LIMITED));
    orcidProfileManager.createOrcidProfile(profile1, false, false);
    OrcidProfile profile2 = new OrcidProfile();
    profile2.setOrcidIdentifier(TEST_ORCID);
    OrcidWorks orcidWorks = new OrcidWorks();
    profile2.setOrcidWorks(orcidWorks);
    WorkTitle workTitle1 = new WorkTitle();
    workTitle1.setTitle(new Title("Another Title"));
    workTitle1.setSubtitle(new Subtitle("Journal of Cloud Spotting"));
    OrcidWork work1 = createWork1(workTitle1);
    Source source = new Source(TEST_ORCID);
    work1.setSource(source);
    orcidWorks.getOrcidWork().add(work1);
    WorkTitle workTitle2 = new WorkTitle();
    workTitle2.setTitle(new Title("New Title"));
    workTitle2.setSubtitle(new Subtitle("Another New subtitle"));
    OrcidWork work2 = createWork2(workTitle2);
    orcidWorks.getOrcidWork().add(work2);
    // Try to add a duplicate
    WorkTitle workTitle3 = new WorkTitle();
    workTitle3.setTitle(new Title("Further Title"));
    workTitle3.setSubtitle(new Subtitle("Further subtitle"));
    OrcidWork work3 = createWork3(workTitle3);
    work3.setVisibility(Visibility.LIMITED);
    orcidWorks.getOrcidWork().add(work3);
    orcidProfileManager.addOrcidWorks(profile2);
    OrcidProfile resultProfile = orcidProfileManager.retrieveOrcidProfile(TEST_ORCID);
    assertEquals("Will", resultProfile.getOrcidBio().getPersonalDetails().getGivenNames().getContent());
    List<OrcidWork> works = resultProfile.retrieveOrcidWorks().getOrcidWork();
    assertEquals(4, works.size());
    assertEquals("Another Title", works.get(0).getWorkTitle().getTitle().getContent());
    assertEquals("Journal of Cloud Spotting", works.get(0).getWorkTitle().getSubtitle().getContent());
    for (OrcidWork work : works) {
        if ("Test Title".equals(work.getWorkTitle().getTitle().getContent()))
            assertEquals(Visibility.PRIVATE, work.getVisibility());
        else
            assertEquals(Visibility.LIMITED, work.getVisibility());
    }
}

Example 25 with Source

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

the class OrcidIndexManagerImpl method persistProfileInformationForIndexing.

@Override
@Deprecated
public void persistProfileInformationForIndexing(OrcidProfile orcidProfile) {
    // Check if the profile is locked
    if (orcidProfile.isLocked()) {
        orcidProfile.downgradeToOrcidIdentifierOnly();
    }
    OrcidMessage messageToFilter = new OrcidMessage();
    messageToFilter.setOrcidProfile(orcidProfile);
    OrcidMessage filteredMessage = visibilityFilter.filter(messageToFilter, Visibility.PUBLIC);
    OrcidProfile filteredProfile = filteredMessage.getOrcidProfile();
    OrcidSolrDocument profileIndexDocument = new OrcidSolrDocument();
    profileIndexDocument.setOrcid(filteredProfile.getOrcidIdentifier().getPath());
    OrcidDeprecated orcidDeprecated = filteredProfile.getOrcidDeprecated();
    if (orcidDeprecated != null) {
        profileIndexDocument.setPrimaryRecord(orcidDeprecated.getPrimaryRecord() != null ? orcidDeprecated.getPrimaryRecord().getOrcidIdentifier().getPath() : null);
    }
    OrcidBio orcidBio = filteredProfile.getOrcidBio();
    if (orcidBio != null) {
        PersonalDetails personalDetails = orcidBio.getPersonalDetails();
        boolean persistPersonalDetails = personalDetails != null;
        if (persistPersonalDetails) {
            profileIndexDocument.setFamilyName(personalDetails.getFamilyName() != null ? personalDetails.getFamilyName().getContent() : null);
            profileIndexDocument.setGivenNames(personalDetails.getGivenNames() != null ? personalDetails.getGivenNames().getContent() : null);
            profileIndexDocument.setCreditName(personalDetails.getCreditName() != null ? personalDetails.getCreditName().getContent() : null);
            List<OtherName> otherNames = personalDetails.getOtherNames() != null ? personalDetails.getOtherNames().getOtherName() : null;
            if (otherNames != null && !otherNames.isEmpty()) {
                List<String> names = new ArrayList<String>();
                for (OtherName otherName : otherNames) {
                    names.add(otherName.getContent());
                }
                profileIndexDocument.setOtherNames(names);
            }
        }
        ContactDetails contactDetails = orcidBio.getContactDetails();
        if (contactDetails != null) {
            for (Email email : contactDetails.getEmail()) {
                profileIndexDocument.addEmailAddress(email.getValue());
            }
        }
        ExternalIdentifiers externalIdentifiers = orcidBio.getExternalIdentifiers();
        if (externalIdentifiers != null) {
            List<String> extIdOrcids = new ArrayList<String>();
            List<String> extIdRefs = new ArrayList<String>();
            List<String> extIdOrcidsAndRefs = new ArrayList<String>();
            for (ExternalIdentifier externalIdentifier : externalIdentifiers.getExternalIdentifier()) {
                Source source = externalIdentifier.getSource();
                String sourcePath = null;
                if (source != null) {
                    sourcePath = source.retrieveSourcePath();
                    if (sourcePath != null) {
                        extIdOrcids.add(sourcePath);
                    }
                }
                ExternalIdReference externalIdReference = externalIdentifier.getExternalIdReference();
                if (externalIdReference != null) {
                    extIdRefs.add(externalIdReference.getContent());
                }
                if (NullUtils.noneNull(sourcePath, externalIdReference)) {
                    extIdOrcidsAndRefs.add(sourcePath + "=" + externalIdReference.getContent());
                }
            }
            if (!extIdOrcids.isEmpty()) {
                profileIndexDocument.setExternalIdSources(extIdOrcids);
            }
            if (!extIdRefs.isEmpty()) {
                profileIndexDocument.setExternalIdReferences(extIdRefs);
            }
            if (!extIdOrcidsAndRefs.isEmpty()) {
                profileIndexDocument.setExternalIdSourcesAndReferences(extIdOrcidsAndRefs);
            }
        }
        OrcidActivities orcidActivities = filteredProfile.getOrcidActivities();
        if (orcidActivities != null) {
            // Affiliations affiliations =
            // orcidActivities.getAffiliations();
            // if (affiliations != null) {
            // List<Affiliation> pastInsts = affiliations
            // .getAffiliationsByType(AffiliationType.PAST_INSTITUTION);
            // if (pastInsts != null && !pastInsts.isEmpty()) {
            // List<String> pastInstNames = new ArrayList<String>();
            // for (Affiliation pastAffiliation : pastInsts) {
            // pastInstNames.add(pastAffiliation
            // .getAffiliationName());
            // }
            // 
            // profileIndexDocument
            // .setAffiliatePastInstitutionNames(pastInstNames);
            // }
            // 
            // List<Affiliation> primaryInsts = affiliations
            // .getAffiliationsByType(AffiliationType.CURRENT_PRIMARY_INSTITUTION);
            // if (primaryInsts != null && !primaryInsts.isEmpty()) {
            // List<String> primaryInstNames = new ArrayList<String>();
            // for (Affiliation primaryAffiliation : primaryInsts) {
            // primaryInstNames.add(primaryAffiliation
            // .getAffiliationName());
            // }
            // 
            // profileIndexDocument
            // .setAffiliatePrimaryInstitutionNames(primaryInstNames);
            // }
            // 
            // List<Affiliation> currentNonPrimaryInsts = affiliations
            // .getAffiliationsByType(AffiliationType.CURRENT_INSTITUTION);
            // if (currentNonPrimaryInsts != null
            // && !currentNonPrimaryInsts.isEmpty()) {
            // List<String> affiliateInstNames = new ArrayList<String>();
            // for (Affiliation currentAffiliation : currentNonPrimaryInsts)
            // {
            // affiliateInstNames.add(currentAffiliation
            // .getAffiliationName());
            // }
            // 
            // profileIndexDocument
            // .setAffiliateInstitutionNames(affiliateInstNames);
            // }
            // }
            List<String> keywords = extractKeywordsAsStringFromBio(orcidBio);
            if (keywords != null) {
                profileIndexDocument.setKeywords(keywords);
            }
        }
        List<OrcidWork> orcidWorks = filteredProfile.retrieveOrcidWorks() != null ? filteredProfile.retrieveOrcidWorks().getOrcidWork() : null;
        if (orcidWorks != null) {
            List<String> workTitles = new ArrayList<String>();
            Map<WorkExternalIdentifierType, List<String>> allExternalIdentifiers = new HashMap<WorkExternalIdentifierType, List<String>>();
            for (OrcidWork orcidWork : orcidWorks) {
                if (orcidWork.getWorkExternalIdentifiers() != null) {
                    for (WorkExternalIdentifier workExternalIdentifier : orcidWork.getWorkExternalIdentifiers().getWorkExternalIdentifier()) {
                        /**
                         * Creates a map that contains all different
                         * external identifiers for the current work
                         */
                        if (nullSafeCheckForWorkExternalIdentifier(workExternalIdentifier)) {
                            WorkExternalIdentifierType type = workExternalIdentifier.getWorkExternalIdentifierType();
                            if (!allExternalIdentifiers.containsKey(type)) {
                                List<String> content = new ArrayList<String>();
                                content.add(workExternalIdentifier.getWorkExternalIdentifierId().getContent());
                                allExternalIdentifiers.put(type, content);
                            } else {
                                allExternalIdentifiers.get(type).add(workExternalIdentifier.getWorkExternalIdentifierId().getContent());
                            }
                        }
                    }
                }
                if (orcidWork.getWorkTitle() != null) {
                    Title workMainTitle = orcidWork.getWorkTitle().getTitle();
                    Subtitle worksubTitle = orcidWork.getWorkTitle().getSubtitle();
                    TranslatedTitle translatedTitle = orcidWork.getWorkTitle().getTranslatedTitle();
                    if (workMainTitle != null && !StringUtils.isBlank(workMainTitle.getContent())) {
                        workTitles.add(workMainTitle.getContent());
                    }
                    if (worksubTitle != null && !StringUtils.isBlank(worksubTitle.getContent())) {
                        workTitles.add(worksubTitle.getContent());
                    }
                    if (translatedTitle != null && !StringUtils.isBlank(translatedTitle.getContent())) {
                        workTitles.add(translatedTitle.getContent());
                    }
                }
            }
            profileIndexDocument.setWorkTitles(workTitles);
            // Set the list of external identifiers to the document list
            addExternalIdentifiersToIndexDocument(profileIndexDocument, allExternalIdentifiers);
        }
        List<Funding> orcidFundings = filteredProfile.retrieveFundings() != null ? filteredProfile.retrieveFundings().getFundings() : null;
        if (orcidFundings != null) {
            List<String> fundingTitle = new ArrayList<String>();
            for (Funding orcidFunding : orcidFundings) {
                FundingTitle title = orcidFunding.getTitle();
                if (title != null) {
                    if (title.getTitle() != null && !StringUtils.isBlank(title.getTitle().getContent())) {
                        fundingTitle.add(title.getTitle().getContent());
                    }
                    if (title.getTranslatedTitle() != null && StringUtils.isBlank(title.getTranslatedTitle().getContent())) {
                        fundingTitle.add(title.getTranslatedTitle().getContent());
                    }
                }
            }
            profileIndexDocument.setFundingTitles(fundingTitle);
        }
    }
    OrcidMessage orcidMessage = new OrcidMessage();
    orcidMessage.setMessageVersion(OrcidMessage.DEFAULT_VERSION);
    orcidMessage.setOrcidProfile(filteredProfile);
    OrcidHistory orcidHistory = filteredProfile.getOrcidHistory();
    if (orcidHistory != null) {
        LastModifiedDate lastModifiedDate = orcidHistory.getLastModifiedDate();
        if (lastModifiedDate != null) {
            profileIndexDocument.setProfileLastModifiedDate(lastModifiedDate.getValue().toGregorianCalendar().getTime());
        }
        SubmissionDate submissionDate = orcidHistory.getSubmissionDate();
        if (submissionDate != null) {
            profileIndexDocument.setProfileSubmissionDate(submissionDate.getValue().toGregorianCalendar().getTime());
        }
    }
    if (indexPublicProfile) {
        profileIndexDocument.setPublicProfileMessage(orcidMessage.toXmlString());
    }
    solrDao.persist(profileIndexDocument);
}