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

Example 11 with OtherName

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

the class OrcidProfileManagerImplTest method testUpdatePersonalInformationRemovesOrcidIndexFields.

@Test
@Transactional
@Rollback(true)
public void testUpdatePersonalInformationRemovesOrcidIndexFields() throws Exception {
    // re-use the createFull method but add some extra criteria so we can
    // use our specific orcidAllSolrFieldsPopulatedForSave matcher
    OrcidProfile profile = createFullOrcidProfile();
    OtherNames otherNames = new OtherNames();
    otherNames.getOtherName().add(new OtherName("Stan", null));
    otherNames.getOtherName().add(new OtherName("Willis", null));
    profile.getOrcidBio().getPersonalDetails().setOtherNames(otherNames);
    OrcidWorks orcidWorks = new OrcidWorks();
    profile.setOrcidWorks(orcidWorks);
    WorkTitle singleWorkTitle = new WorkTitle();
    singleWorkTitle.setTitle(new Title("Single works"));
    singleWorkTitle.setSubtitle(new Subtitle("Single works"));
    OrcidWork orcidWork = createWork1(singleWorkTitle);
    // TODO JB some doi testing here?
    // orcidWork.getElectronicResourceNum().add(new
    // ElectronicResourceNum("10.1016/S0021-8502(00)90373-2",
    // ElectronicResourceNumType.DOI));
    orcidWorks.getOrcidWork().add(orcidWork);
    orcidProfileManager.createOrcidProfile(profile, false, false);
    // now negate all fields that form part of a solr query, leaving only
    // the orcid itself
    // we do this by passing through an orcid missing the fields from an
    // OrcidSolrDocument
    OrcidProfile negatedProfile = createBasicProfile();
    negatedProfile.getOrcidBio().getPersonalDetails().setFamilyName(null);
    negatedProfile.getOrcidBio().getPersonalDetails().setGivenNames(null);
    negatedProfile.getOrcidBio().getPersonalDetails().setCreditName(null);
    negatedProfile.getOrcidBio().getPersonalDetails().setOtherNames(null);
    negatedProfile.getOrcidActivities().setAffiliations(null);
    orcidProfileManager.updateOrcidBio(negatedProfile);
    assertEquals(IndexingStatus.PENDING, profileDao.find(TEST_ORCID).getIndexingStatus());
}

Example 12 with OtherName

use of org.orcid.jaxb.model.message.OtherName 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);
}

Example 13 with OtherName

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

the class OrcidProfileToSolrDocument method convert.

@Deprecated
public OrcidSolrDocument convert(OrcidProfile profile) {
    // Check if the profile is locked
    if (profile.isLocked()) {
        profile.downgradeToOrcidIdentifierOnly();
    }
    OrcidSolrDocument profileIndexDocument = new OrcidSolrDocument();
    profileIndexDocument.setOrcid(profile.getOrcidIdentifier().getPath());
    OrcidDeprecated orcidDeprecated = profile.getOrcidDeprecated();
    if (orcidDeprecated != null) {
        profileIndexDocument.setPrimaryRecord(orcidDeprecated.getPrimaryRecord() != null ? orcidDeprecated.getPrimaryRecord().getOrcidIdentifier().getPath() : null);
    }
    OrcidBio orcidBio = profile.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 = profile.getOrcidActivities();
        if (orcidActivities != null) {
            if (orcidBio != null && orcidBio.getKeywords() != null) {
                List<Keyword> keyWords = orcidBio.getKeywords().getKeyword();
                if (keyWords != null && keyWords.size() > 0) {
                    List<String> keywordValues = new ArrayList<String>();
                    for (Keyword keyword : keyWords) {
                        keywordValues.add(keyword.getContent());
                    }
                    profileIndexDocument.setKeywords(keywordValues);
                }
            }
        }
        List<OrcidWork> orcidWorks = profile.retrieveOrcidWorks() != null ? profile.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
                         */
                        boolean nullSafeCheckForWorkExternalIdentifier = workExternalIdentifier.getWorkExternalIdentifierId() != null && !StringUtils.isBlank(workExternalIdentifier.getWorkExternalIdentifierId().getContent());
                        if (nullSafeCheckForWorkExternalIdentifier) {
                            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 = profile.retrieveFundings() != null ? profile.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(profile);
    OrcidHistory orcidHistory = profile.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());
        }
    }
    return profileIndexDocument;
}

Example 14 with OtherName

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

the class OrcidSearchManagerImplTest method getOrcidProfileAllIndexFieldsPopulated.

private OrcidProfile getOrcidProfileAllIndexFieldsPopulated() {
    OrcidProfile orcidProfile = new OrcidProfile();
    orcidProfile.setOrcidIdentifier("5678");
    OrcidBio orcidBio = new OrcidBio();
    PersonalDetails personalDetails = new PersonalDetails();
    personalDetails.setFamilyName(new FamilyName("Logan"));
    personalDetails.setGivenNames(new GivenNames("Donald Edward"));
    personalDetails.setCreditName(new CreditName("Stanley Higgins"));
    OtherNames otherNames = new OtherNames();
    otherNames.getOtherName().add(new OtherName("Edward Bass", null));
    otherNames.getOtherName().add(new OtherName("Gareth Dove", null));
    personalDetails.setOtherNames(otherNames);
    orcidBio.setPersonalDetails(personalDetails);
    orcidProfile.setOrcidBio(orcidBio);
    OrcidActivities orcidActivities = new OrcidActivities();
    orcidProfile.setOrcidActivities(orcidActivities);
    Affiliations affiliations = new Affiliations();
    orcidActivities.setAffiliations(affiliations);
    OrcidWorks orcidWorks = new OrcidWorks();
    orcidProfile.setOrcidWorks(orcidWorks);
    OrcidWork orcidWork1 = new OrcidWork();
    OrcidWork orcidWork2 = new OrcidWork();
    assignWorkIdentifers(orcidWork1, orcidWork2);
    orcidWorks.getOrcidWork().add(orcidWork1);
    orcidWorks.getOrcidWork().add(orcidWork2);
    orcidProfile.setOrcidWorks(orcidWorks);
    FundingList orcidFundings = new FundingList();
    orcidProfile.setFundings(orcidFundings);
    Funding funding1 = new Funding();
    funding1.setVisibility(Visibility.PUBLIC);
    FundingTitle title = new FundingTitle();
    title.setTitle(new Title("grant1"));
    funding1.setTitle(title);
    funding1.setDescription("Grant 1 - a short description");
    funding1.setPutCode("grant 1 - put-code");
    Funding funding2 = new Funding();
    funding2.setVisibility(Visibility.PUBLIC);
    FundingTitle title2 = new FundingTitle();
    title2.setTitle(new Title("grant2"));
    funding2.setTitle(title2);
    funding2.setDescription("Grant 2 - a short description");
    funding2.setPutCode("grant 2 - put-code");
    orcidFundings.getFundings().add(funding1);
    orcidFundings.getFundings().add(funding2);
    return orcidProfile;
}