361 lines
13 KiB
Java
361 lines
13 KiB
Java
package eu.dnetlib.organizations.utils;
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import java.time.OffsetDateTime;
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import java.util.Arrays;
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import java.util.HashMap;
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import java.util.HashSet;
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import java.util.List;
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import java.util.Map;
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import java.util.Map.Entry;
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import java.util.Set;
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import java.util.TreeSet;
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import java.util.UUID;
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import java.util.stream.Collectors;
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import javax.transaction.Transactional;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.commons.logging.Log;
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import org.apache.commons.logging.LogFactory;
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import org.springframework.beans.factory.annotation.Autowired;
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import org.springframework.cache.annotation.Cacheable;
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import org.springframework.jdbc.core.BeanPropertyRowMapper;
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import org.springframework.jdbc.core.JdbcTemplate;
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import org.springframework.stereotype.Component;
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import org.springframework.web.bind.annotation.RequestBody;
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import eu.dnetlib.organizations.controller.UserRole;
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import eu.dnetlib.organizations.model.Acronym;
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import eu.dnetlib.organizations.model.OpenaireConflict;
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import eu.dnetlib.organizations.model.OpenaireConflictPK;
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import eu.dnetlib.organizations.model.OpenaireDuplicate;
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import eu.dnetlib.organizations.model.Organization;
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import eu.dnetlib.organizations.model.OtherIdentifier;
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import eu.dnetlib.organizations.model.OtherName;
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import eu.dnetlib.organizations.model.Relationship;
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import eu.dnetlib.organizations.model.Url;
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import eu.dnetlib.organizations.model.User;
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import eu.dnetlib.organizations.model.UserCountry;
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import eu.dnetlib.organizations.model.utils.BrowseEntry;
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import eu.dnetlib.organizations.model.utils.OrganizationConflict;
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import eu.dnetlib.organizations.model.utils.TempBrowseEntry;
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import eu.dnetlib.organizations.model.utils.VocabularyTerm;
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import eu.dnetlib.organizations.model.view.OrganizationView;
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import eu.dnetlib.organizations.model.view.UserView;
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import eu.dnetlib.organizations.repository.AcronymRepository;
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import eu.dnetlib.organizations.repository.OpenaireConflictRepository;
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import eu.dnetlib.organizations.repository.OpenaireDuplicateRepository;
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import eu.dnetlib.organizations.repository.OrganizationRepository;
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import eu.dnetlib.organizations.repository.OtherIdentifierRepository;
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import eu.dnetlib.organizations.repository.OtherNameRepository;
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import eu.dnetlib.organizations.repository.RelationshipRepository;
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import eu.dnetlib.organizations.repository.UrlRepository;
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import eu.dnetlib.organizations.repository.UserCountryRepository;
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import eu.dnetlib.organizations.repository.UserRepository;
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@Component
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public class DatabaseUtils {
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@Autowired
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private AcronymRepository acronymRepository;
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@Autowired
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private OrganizationRepository organizationRepository;
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@Autowired
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private OtherIdentifierRepository otherIdentifierRepository;
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@Autowired
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private OtherNameRepository otherNameRepository;
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@Autowired
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private UrlRepository urlRepository;
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@Autowired
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private RelationshipRepository relationshipRepository;
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@Autowired
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private UserRepository userRepository;
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@Autowired
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private UserCountryRepository userCountryRepository;
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@Autowired
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private OpenaireConflictRepository openaireConflictRepository;
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@Autowired
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private OpenaireDuplicateRepository openaireDuplicateRepository;
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@Autowired
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private JdbcTemplate jdbcTemplate;
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private static final Log log = LogFactory.getLog(DatabaseUtils.class);
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public enum VocabularyTable {
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languages,
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countries,
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org_types,
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id_types,
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rel_types,
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simrel_types
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}
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@Transactional
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public String insertOrUpdateOrganization(final OrganizationView orgView, final String user) {
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final boolean alreadyApproved = StringUtils.equals(orgView.getStatus(), OrganizationStatus.approved.toString());
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final String oldId = orgView.getId();
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if (StringUtils.isBlank(orgView.getId())) {
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orgView.setId(null);
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} else if (!alreadyApproved) {
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cleanOldRelations(oldId);
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organizationRepository.deleteById(oldId);
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orgView.setId(null);
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} else {
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cleanOldRelations(orgView.getId());
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}
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final Organization org = new Organization(orgView.getId(),
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orgView.getName(),
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orgView.getType(),
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orgView.getLat(), orgView.getLng(),
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orgView.getCity(), orgView.getCountry(),
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OrganizationStatus.approved.toString());
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final String newId = organizationRepository.save(org).getId();
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makeNewRelations(newId, orgView);
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updateHistoryFields(newId, user, alreadyApproved);
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return newId;
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}
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private void updateHistoryFields(final String id, final String user, final boolean update) {
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final OffsetDateTime now = OffsetDateTime.now();
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if (update) {
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organizationRepository.updateModificationDate(id, user, now);
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} else {
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organizationRepository.updateCreationDate(id, user, now);
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organizationRepository.updateModificationDate(id, user, now);
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}
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}
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@Transactional
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public void saveDuplicates(final List<OpenaireDuplicate> simrels, final String email) {
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final OffsetDateTime now = OffsetDateTime.now();
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final List<OpenaireDuplicate> list = openaireDuplicateRepository.saveAll(simrels);
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list.forEach(d -> openaireDuplicateRepository.updateModificationDate(d.getLocalId(), d.getOaOriginalId(), email, now));
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}
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private void makeNewRelations(final String orgId, final OrganizationView orgView) {
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orgView.getAcronyms().forEach(s -> acronymRepository.save(new Acronym(orgId, s)));
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orgView.getOtherNames().forEach(n -> otherNameRepository.save(new OtherName(orgId, n.getName(), n.getLang())));
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orgView.getOtherIdentifiers().forEach(id -> otherIdentifierRepository.save(new OtherIdentifier(orgId, id.getId(), id.getType())));
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orgView.getUrls().forEach(u -> urlRepository.save(new Url(orgId, u)));
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orgView.getRelations().forEach(r -> makeRelation(orgId, r.getRelatedOrgId(), RelationType.valueOf(r.getType())));
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}
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private void cleanOldRelations(final String id) {
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acronymRepository.deleteByOrgId(id);
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otherNameRepository.deleteByOrgId(id);
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otherIdentifierRepository.deleteByOrgId(id);
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urlRepository.deleteByOrgId(id);
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relationshipRepository.deleteById1(id);
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relationshipRepository.deleteById2(id);
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}
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@Cacheable("vocs")
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public List<VocabularyTerm> listValuesOfVocabularyTable(final VocabularyTable table) {
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final String sql = "select val as value, name as name from " + table;
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return jdbcTemplate.query(sql, new BeanPropertyRowMapper<>(VocabularyTerm.class));
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}
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@Cacheable("countries_for_user")
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public List<VocabularyTerm> listCountriesForUser(final String name) {
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final String sql =
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"select uc.country as value, c.name as name from user_countries uc left outer join countries c on (c.val = uc.country) where uc.email = ?";
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return jdbcTemplate.query(sql, new BeanPropertyRowMapper<>(VocabularyTerm.class), name);
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}
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@Transactional
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public void saveUser(@RequestBody final UserView userView) {
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final User user = userRepository.findById(userView.getEmail()).orElseThrow(() -> new RuntimeException("User not found"));
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user.setRole(userView.getRole());
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user.setValid(userView.isValid());
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userRepository.save(user);
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userCountryRepository.deleteByEmail(userView.getEmail());
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if (userView.getCountries() != null) {
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userCountryRepository
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.saveAll(Arrays.stream(userView.getCountries()).map(c -> new UserCountry(userView.getEmail(), c)).collect(Collectors.toList()));
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}
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}
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@Transactional
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public void deleteUser(final String email) {
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userCountryRepository.deleteByEmail(email);
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userRepository.deleteById(email);
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}
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@Transactional
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public void newUser(final String email, final List<String> countries) {
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final User user = new User();
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user.setEmail(email);
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user.setRole(UserRole.PENDING.name());
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user.setValid(false);
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userRepository.save(user);
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if (countries != null) {
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userCountryRepository.saveAll(countries.stream().map(c -> new UserCountry(email, c)).collect(Collectors.toList()));
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}
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}
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@Transactional
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public void verifyConflictGroups(final boolean forceUpdate) {
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if (forceUpdate || openaireConflictRepository.countByGroupNull() > 0) {
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log.info("Recreating conflicts group...");
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openaireConflictRepository.resetGroupIds();
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final Map<String, Set<String>> groups = new HashMap<>();
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for (final OpenaireConflict w : openaireConflictRepository.findAll()) {
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final List<String> list = findExistingGroupsForRel(w, groups);
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if (list.isEmpty()) {
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final String idGroup = generateGroupId();
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groups.put(idGroup, new HashSet<>());
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addToGroup(groups, idGroup, w);
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} else if (list.size() == 1) {
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addToGroup(groups, list.get(0), w);
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} else {
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final String idGroup = generateGroupId();
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groups.put(idGroup, new TreeSet<>());
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list.forEach(id -> groups.get(idGroup).addAll(groups.get(id)));
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list.forEach(id -> groups.remove(id));
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addToGroup(groups, idGroup, w);
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}
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}
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for (final Entry<String, Set<String>> e : groups.entrySet()) {
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final String gid = e.getKey();
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for (final String orgId : e.getValue()) {
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for (final OpenaireConflict oc : openaireConflictRepository.findById1AndGroupIsNull(orgId)) {
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oc.setGroup(gid);
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openaireConflictRepository.save(oc);
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}
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for (final OpenaireConflict oc : openaireConflictRepository.findById2AndGroupIsNull(orgId)) {
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oc.setGroup(gid);
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openaireConflictRepository.save(oc);
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}
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}
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}
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log.info("...conflicts group recreated");
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}
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}
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private String generateGroupId() {
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return "group::" + UUID.randomUUID();
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}
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private List<String> findExistingGroupsForRel(final OpenaireConflict w, final Map<String, Set<String>> groups) {
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return groups.entrySet()
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.stream()
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.filter(e -> {
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return e.getValue().contains(w.getId1()) || e.getValue().contains(w.getId2());
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})
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.map(e -> e.getKey())
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.distinct()
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.collect(Collectors.toList());
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}
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private void addToGroup(final Map<String, Set<String>> groups, final String gid, final OpenaireConflict w) {
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groups.get(gid).add(w.getId1());
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groups.get(gid).add(w.getId2());
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}
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@Transactional
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public List<Relationship> makeRelation(final String id1, final String id2, final RelationType type) {
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final Relationship r1 = new Relationship(id1, id2, type.toString());
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final Relationship r2 = new Relationship(id2, id1, type.getInverse().toString());
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relationshipRepository.save(r1);
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relationshipRepository.save(r2);
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return Arrays.asList(r1, r2);
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}
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// BROWSE BY COUNTRY
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public List<BrowseEntry> browseCountries() {
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final String sql =
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"select o.country as code, c.name as name, o.status as group, count(o.status) as count from organizations o left outer join countries c on (o.country = c.val) group by o.country, c.name, o.status";
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return listBrowseEntries(sql);
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}
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// BROWSE BY COUNTRY FOR USER
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public List<BrowseEntry> browseCountriesForUser(final String email) {
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final String sql =
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"select o.country as code, c.name as name, o.status as group, count(o.status) as count from user_countries uc left outer join organizations o on (uc.country = o.country) left outer join countries c on (o.country = c.val) where uc.email=? group by o.country, c.name, o.status";
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return listBrowseEntries(sql, email);
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}
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// BROWSE BY ORG TYPE
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public List<BrowseEntry> browseTypes() {
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final String sql =
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"select type as code, type as name, status as group, count(status) as count from organizations group by type, status";
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return listBrowseEntries(sql);
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}
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// BROWSE BY ORG TYPE FOR USER
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public List<BrowseEntry> browseTypesForUser(final String email) {
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final String sql = "select o.type as code, o.type as name,"
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+ "o.status as group, count(o.status) as count "
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+ "from organizations o "
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+ "left outer join user_countries uc on (uc.country = o.country) "
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+ "where uc.email=? "
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+ "group by o.type, o.status";
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return listBrowseEntries(sql, email);
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}
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private List<BrowseEntry> listBrowseEntries(final String sql, final Object... params) {
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final Map<String, BrowseEntry> map = new HashMap<>();
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for (final TempBrowseEntry t : jdbcTemplate.query(sql, new BeanPropertyRowMapper<>(TempBrowseEntry.class), params)) {
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if (StringUtils.isNotBlank(t.getCode())) {
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if (!map.containsKey(t.getCode())) {
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final BrowseEntry e = new BrowseEntry();
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e.setCode(t.getCode());
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e.setName(t.getName());
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map.put(t.getCode(), e);
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}
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map.get(t.getCode()).getValues().put(t.getGroup(), t.getCount());
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}
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}
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return map.values().stream().sorted((o1, o2) -> StringUtils.compare(o1.getName(), o2.getName())).collect(Collectors.toList());
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}
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public List<OrganizationConflict> listConflictsForId(final String id) {
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final String sql =
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"select o.id, o.name, o.type, o.city, o.country from oa_conflicts c left outer join organizations o on (c.id2 = o.id) where o.id is not null and c.id1 = ?";
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return jdbcTemplate.query(sql, new BeanPropertyRowMapper<>(OrganizationConflict.class), id);
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}
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@Transactional
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public void importDedupEvents() {
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try {
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// log.info("Importing conflicts and duplicates...");
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// jdbcTemplate.update(IOUtils.toString(getClass().getResourceAsStream("/sql/importNewRels.sql")));
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// log.info("...done");
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// verifyConflictGroups(true);
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} catch (final Exception e) {
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log.error("Error importing conflicts and duplicates", e);
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}
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}
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@Transactional
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public List<Relationship> fixDuplicate(final String masterId, final String otherId) {
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organizationRepository.updateStatus(otherId, OrganizationStatus.hidden.toString());
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openaireConflictRepository.findById(new OpenaireConflictPK(masterId, otherId)).ifPresent(openaireConflictRepository::delete);
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openaireConflictRepository.findById(new OpenaireConflictPK(otherId, masterId)).ifPresent(openaireConflictRepository::delete);
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// TODO Merge the organizations ???
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return makeRelation(masterId, otherId, RelationType.Merges);
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}
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}
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