681 lines
40 KiB
Java
681 lines
40 KiB
Java
package eu.old.eudat.migration;
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import eu.eudat.commons.JsonHandlingService;
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import eu.eudat.commons.XmlHandlingService;
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import eu.eudat.commons.enums.DescriptionStatus;
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import eu.eudat.commons.enums.IsActive;
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import eu.eudat.commons.enums.ReferenceFieldDataType;
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import eu.eudat.commons.enums.ReferenceSourceType;
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import eu.eudat.commons.types.description.*;
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import eu.eudat.commons.types.descriptiontemplate.FieldSetEntity;
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import eu.eudat.commons.types.descriptiontemplate.fielddata.ReferenceTypeDataEntity;
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import eu.eudat.commons.types.dmpblueprint.DefinitionEntity;
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import eu.eudat.commons.types.externalfetcher.ExternalFetcherBaseSourceConfigurationEntity;
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import eu.eudat.commons.types.referencetype.ReferenceTypeDefinitionEntity;
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import eu.eudat.convention.ConventionService;
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import eu.eudat.data.*;
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import eu.eudat.model.Dmp;
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import eu.eudat.model.Reference;
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import eu.eudat.model.ReferenceType;
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import eu.eudat.query.*;
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import eu.old.eudat.data.dao.entities.DatasetDao;
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import eu.old.eudat.data.entities.Dataset;
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import eu.old.eudat.logic.services.operations.DatabaseRepository;
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import eu.old.eudat.models.data.user.components.datasetprofile.Field;
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import gr.cite.tools.data.query.QueryFactory;
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import gr.cite.tools.exception.MyApplicationException;
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import gr.cite.tools.fieldset.BaseFieldSet;
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import gr.cite.tools.logging.LoggerService;
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import jakarta.persistence.EntityManager;
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import jakarta.xml.bind.JAXBException;
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import org.json.JSONObject;
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import org.slf4j.LoggerFactory;
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import org.springframework.stereotype.Service;
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import org.xml.sax.SAXException;
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import javax.xml.parsers.ParserConfigurationException;
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import java.io.IOException;
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import java.time.Instant;
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import java.time.LocalDate;
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import java.time.ZoneOffset;
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import java.time.format.DateTimeParseException;
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import java.util.*;
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import java.util.stream.Collectors;
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@Service
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public class DatasetMigrationService {
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private static final LoggerService logger = new LoggerService(LoggerFactory.getLogger(DmpDatasetProfileMigrationService.class));
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private final DatabaseRepository databaseRepository;
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private final JsonHandlingService jsonHandlingService;
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private final QueryFactory queryFactory;
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private final XmlHandlingService xmlHandlingService;
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private static final int PageSize = 500;
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private static final boolean TestMode = false;
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private final EntityManager entityManager;
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private final ConventionService conventionService;
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public DatasetMigrationService(DatabaseRepository databaseRepository, JsonHandlingService jsonHandlingService, QueryFactory queryFactory, XmlHandlingService xmlHandlingService, EntityManager entityManager, ConventionService conventionService) {
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this.databaseRepository = databaseRepository;
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this.jsonHandlingService = jsonHandlingService;
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this.queryFactory = queryFactory;
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this.xmlHandlingService = xmlHandlingService;
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this.entityManager = entityManager;
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this.conventionService = conventionService;
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}
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public void migrate() throws IOException, JAXBException, ParserConfigurationException, InstantiationException, IllegalAccessException, SAXException {
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DatasetDao datasetDao = databaseRepository.getDatasetDao();
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long total = datasetDao.asQueryable().count();
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logger.debug("Migrate Dataset Total : " + total);
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int page = 0;
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Map<UUID, ReferenceTypeDefinitionEntity> referenceTypeDefinitionEntityMap = new HashMap<>();
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List<ReferenceTypeEntity> referenceTypes = this.queryFactory.query(ReferenceTypeQuery.class).collectAs(new BaseFieldSet().ensure(ReferenceType._id).ensure(ReferenceType._definition));
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for (ReferenceTypeEntity referenceType : referenceTypes){
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referenceTypeDefinitionEntityMap.put(referenceType.getId(), this.xmlHandlingService.fromXml(ReferenceTypeDefinitionEntity.class, referenceType.getDefinition()));
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}
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Map<ReferenceKey, ReferenceEntity> referenceMap = new HashMap<>();
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List<ReferenceEntity> references = this.queryFactory.query(ReferenceQuery.class).collectAs(new BaseFieldSet().ensure(Reference._id).ensure(Reference._source).ensure(Reference._type).ensure(Reference._reference));
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for (ReferenceEntity reference : references){
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if (reference.getCreatedById() == null) referenceMap.put(new ReferenceKey(reference), reference);
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}
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List<Dataset> items;
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do {
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items = datasetDao.asQueryable().orderBy((builder, root) -> builder.asc(root.get("created"))).orderBy((builder, root) -> builder.asc(root.get("ID"))).skip(page * PageSize).take(PageSize).toList();
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if (items != null && !items.isEmpty()) {
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logger.debug("Migrate Dataset " + page * PageSize + " of " + total);
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List<DmpBlueprintEntity> dmpBlueprints = this.queryFactory.query(DmpBlueprintQuery.class).ids(items.stream().map(x-> x.getDmp().getProfile().getId()).distinct().toList()).collect();
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Map<UUID, DefinitionEntity> dmpBlueprintsMap = new HashMap<>();
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for (DmpBlueprintEntity dmpBlueprint : dmpBlueprints) {
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DefinitionEntity definitionEntity = this.xmlHandlingService.fromXml(DefinitionEntity.class, dmpBlueprint.getDefinition());
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dmpBlueprintsMap.put(dmpBlueprint.getId(), definitionEntity);
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}
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List<DmpDescriptionTemplateEntity> dmpDescriptionTemplateEntities = this.queryFactory.query(DmpDescriptionTemplateQuery.class).dmpIds(items.stream().map(x-> x.getDmp().getId()).distinct().toList()).collect();
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List<DescriptionTemplateEntity> descriptionTemplates = this.queryFactory.query(DescriptionTemplateQuery.class).ids(items.stream().map(x-> x.getProfile().getId()).distinct().toList()).collect();
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Map<UUID, UUID> creatorsByDmp = this.queryFactory.query(DmpQuery.class).ids(items.stream().map(x-> x.getDmp().getId()).distinct().toList()).collectAs(new BaseFieldSet().ensure(Dmp._id).ensure(Dmp._creator)).stream().collect(Collectors.toMap(DmpEntity::getId, DmpEntity::getCreatorId));;
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Map<UUID, eu.eudat.commons.types.descriptiontemplate.DefinitionEntity> descriptionTemplateDefinitionMap = new HashMap<>();
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for (DescriptionTemplateEntity descriptionTemplateEntity : descriptionTemplates){
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descriptionTemplateDefinitionMap.put(descriptionTemplateEntity.getId(), this.xmlHandlingService.fromXml(eu.eudat.commons.types.descriptiontemplate.DefinitionEntity.class, descriptionTemplateEntity.getDefinition()));
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}
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for (Dataset item : items) {
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DefinitionEntity definition = dmpBlueprintsMap.getOrDefault(item.getDmp().getProfile().getId(), null);
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if (definition == null || definition.getSections() == null || definition.getSections().size() <= item.getDmpSectionIndex()) {
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logger.error("Migrate Dataset " + item.getId() + " cannot found section id for section " + item.getDmpSectionIndex());
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throw new MyApplicationException("Migrate Dataset " + item.getId() + " cannot found section id for section " + item.getDmpSectionIndex());
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}
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UUID sectionId = definition.getSections().get(item.getDmpSectionIndex()).getId();
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if (sectionId == null) {
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logger.error("Migrate Dataset " + item.getId() + " cannot found section id for section " + item.getDmpSectionIndex());
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throw new MyApplicationException("Migrate Dataset " + item.getId() + " cannot found section id for section " + item.getDmpSectionIndex());
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}
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List<DmpDescriptionTemplateEntity> itemDescriptionTemplates = this.getOrCreateDmpDescriptionTemplateEntity(item, sectionId, dmpDescriptionTemplateEntities);
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if (itemDescriptionTemplates.size() > 1) {
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logger.error("Migrate Dataset " + item.getId() + " multiple DmpDescriptionTemplateEntity for section " + item.getDmpSectionIndex());
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//TODO CLEAN Duplicates dmp, DescriptionTemplate, SectionId
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}
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DescriptionEntity data = new DescriptionEntity();
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data.setId(item.getId());
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data.setDescription(item.getDescription());
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if (item.getCreator() != null) {
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data.setCreatedById(item.getCreator().getId());
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} else {
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data.setCreatedById(creatorsByDmp.getOrDefault(item.getDmp().getId(), null));
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}
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data.setDmpId(item.getDmp().getId());
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data.setLabel(item.getLabel());
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data.setDmpDescriptionTemplateId(itemDescriptionTemplates.getFirst().getId());
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data.setDescriptionTemplateId(item.getProfile().getId());
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data.setCreatedAt(item.getCreated() != null ? item.getCreated().toInstant() : Instant.now());
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data.setUpdatedAt(item.getModified() != null ? item.getModified().toInstant() : Instant.now());
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if (item.getFinalizedAt() != null)
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data.setFinalizedAt(item.getFinalizedAt().toInstant());
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if (item.getStatus() == 99) {
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data.setIsActive(IsActive.Inactive);
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data.setStatus(DescriptionStatus.Canceled);
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} else {
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data.setIsActive(IsActive.Active);
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data.setStatus(DescriptionStatus.of(item.getStatus()));
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}
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eu.eudat.commons.types.descriptiontemplate.DefinitionEntity descriptionTemplateDefinitionEntity = descriptionTemplateDefinitionMap.getOrDefault(item.getProfile().getId(), null);
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data.setProperties(this.jsonHandlingService.toJson(this.buildPropertyDefinitionEntity(item, descriptionTemplateDefinitionEntity, referenceTypeDefinitionEntityMap, referenceMap)));
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if (data.getCreatedById() == null){
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logger.error("Migration skipped creator not found " + item.getId());
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throw new MyApplicationException("Migration skipped creator not found " + item.getId());
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}
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this.entityManager.persist(data);
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this.entityManager.flush();
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}
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page++;
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}
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} while (items != null && !items.isEmpty() && !TestMode);
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throw new MyApplicationException("");
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}
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private List<DmpDescriptionTemplateEntity> getOrCreateDmpDescriptionTemplateEntity(Dataset item, UUID sectionId, List<DmpDescriptionTemplateEntity> dmpDescriptionTemplateEntities){
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List<DmpDescriptionTemplateEntity> itemDescriptionTemplates = dmpDescriptionTemplateEntities.stream().filter(x-> x.getDescriptionTemplateGroupId().equals(item.getProfile().getGroupId()) && x.getDmpId().equals(item.getDmp().getId()) && x.getSectionId().equals(sectionId)).toList();
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if (itemDescriptionTemplates.isEmpty()) {
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logger.error("Migrate Dataset " + item.getId() + " cannot found DmpDescriptionTemplateEntity for section " + item.getDmpSectionIndex());
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if (dmpDescriptionTemplateEntities.stream().anyMatch(x -> x.getDmpId().equals(item.getDmp().getId()) && x.getSectionId().equals(sectionId))) {
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DmpDescriptionTemplateEntity dmpDescriptionTemplateEntity = new DmpDescriptionTemplateEntity();
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dmpDescriptionTemplateEntity.setId(UUID.randomUUID());
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dmpDescriptionTemplateEntity.setDescriptionTemplateGroupId(item.getProfile().getGroupId());
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dmpDescriptionTemplateEntity.setDmpId(item.getDmp().getId());
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dmpDescriptionTemplateEntity.setCreatedAt(item.getCreated() != null ? item.getCreated().toInstant() : Instant.now());
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dmpDescriptionTemplateEntity.setUpdatedAt(item.getModified() != null ? item.getModified().toInstant() : Instant.now());
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dmpDescriptionTemplateEntity.setSectionId(sectionId);
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dmpDescriptionTemplateEntity.setIsActive(IsActive.Active);
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this.entityManager.persist(dmpDescriptionTemplateEntity);
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itemDescriptionTemplates = List.of(dmpDescriptionTemplateEntity);
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} else {
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throw new MyApplicationException("Migrate Dataset " + item.getId() + " cannot found DmpDescriptionTemplateEntity for section " + item.getDmpSectionIndex());
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}
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}
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return itemDescriptionTemplates;
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}
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private PropertyDefinitionEntity buildPropertyDefinitionEntity(Dataset item, eu.eudat.commons.types.descriptiontemplate.DefinitionEntity descriptionTemplateDefinitionEntity, Map<UUID, ReferenceTypeDefinitionEntity> referenceTypeDefinitionEntityMap, Map<ReferenceKey, ReferenceEntity> referenceMap) {
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if (this.conventionService.isNullOrEmpty(item.getProperties())) return null;
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JSONObject jObject = new JSONObject(item.getProperties());
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Map<String, Object> properties = jObject.toMap();
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PropertyDefinitionEntity propertyDefinitionEntity = new PropertyDefinitionEntity();
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propertyDefinitionEntity.setFieldSets(new HashMap<>());
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List<FieldSetEntity> fieldSetEntities = descriptionTemplateDefinitionEntity.getAllFieldSets();
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for (String key : properties.keySet()) {
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if (key.toLowerCase(Locale.ROOT).trim().startsWith("commentfieldvalue")){
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if (properties.get(key) != null && this.conventionService.isNullOrEmpty(properties.get(key).toString())) { continue; }
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FieldSetEntity currentFieldSet = fieldSetEntities.stream().filter(x-> x.getId().equals(key.trim().substring("commentfieldvalue".length()))).findFirst().orElse(null);
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if (currentFieldSet == null) {
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logger.error("Field set " + key + " not found for comment " + properties.get(key).toString());
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continue;
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}
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this.addSimpleCommentField(propertyDefinitionEntity, currentFieldSet, properties.get(key).toString());
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} else {
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if (!key.toLowerCase(Locale.ROOT).trim().startsWith("multiple_")) {
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FieldSetEntity currentFieldSet = null;
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eu.eudat.commons.types.descriptiontemplate.FieldEntity currentField = null;
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for (FieldSetEntity fieldSetEntity : fieldSetEntities) {
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List<eu.eudat.commons.types.descriptiontemplate.FieldEntity> fieldEntities = fieldSetEntity.getFieldById(key.trim());
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if (!fieldEntities.isEmpty()) {
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currentFieldSet = fieldSetEntity;
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currentField = fieldEntities.getFirst();
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}
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}
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if (currentField == null) {
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logger.error("Field set not found for field " + key + " " + properties.get(key).toString());
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continue;
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}
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this.addSimpleField(propertyDefinitionEntity, currentFieldSet, currentField, properties, referenceTypeDefinitionEntityMap, referenceMap);
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}
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}
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}
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this.addMultipleField(properties, descriptionTemplateDefinitionEntity, propertyDefinitionEntity, referenceTypeDefinitionEntityMap, referenceMap);
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for (PropertyDefinitionFieldSetEntity fieldSetEntity : propertyDefinitionEntity.getFieldSets().values()){
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int newOrdinal = 0;
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for (PropertyDefinitionFieldSetItemEntity propertyDefinitionFieldSetItemEntity : fieldSetEntity.getItems().stream().filter(x-> x.getOrdinal() >= 0).sorted(Comparator.comparingInt(PropertyDefinitionFieldSetItemEntity::getOrdinal)).toList()){
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propertyDefinitionFieldSetItemEntity.setOrdinal(newOrdinal);
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newOrdinal++;
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}
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for (PropertyDefinitionFieldSetItemEntity propertyDefinitionFieldSetItemEntity : fieldSetEntity.getItems().stream().filter(x-> x.getOrdinal() < 0).sorted(Comparator.comparingInt(PropertyDefinitionFieldSetItemEntity::getOrdinal)).toList()){
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propertyDefinitionFieldSetItemEntity.setOrdinal(newOrdinal);
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newOrdinal++;
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}
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}
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return propertyDefinitionEntity;
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}
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private void addMultipleField(Map<String, Object> properties, eu.eudat.commons.types.descriptiontemplate.DefinitionEntity descriptionTemplateDefinitionEntity, PropertyDefinitionEntity propertyDefinitionEntity, Map<UUID, ReferenceTypeDefinitionEntity> referenceTypeDefinitionEntityMap, Map<ReferenceKey, ReferenceEntity> referenceMap){
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Map<MultipleFieldKey, Integer> groupOrdinalMapping = new HashMap<>();
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for (String key : properties.keySet()) {
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if (key.trim().toLowerCase(Locale.ROOT).startsWith("multiple_")) {
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String newKey = key.trim().substring("multiple_".length());
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String[] keyParts = newKey.split("_", 4);
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String fieldSetId = "";
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String groupId = "";
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int ordinal = Integer.MIN_VALUE;
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String fieldId = "";
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if (keyParts.length == 4) {
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fieldSetId = keyParts[0].trim();
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groupId = keyParts[1].trim();
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fieldId = keyParts[3].trim();
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} else if (keyParts.length == 3) {
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fieldSetId = keyParts[0].trim();
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groupId = keyParts[1].trim();
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fieldId = keyParts[2].trim();
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} else {
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logger.error("Field group key has invalid format " + key + " " + properties.get(key).toString());
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continue;
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}
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try {
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if (keyParts.length == 4) ordinal = Integer.parseInt(keyParts[2].trim());
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} catch (Exception e){
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logger.error("Field group key has invalid format " + key + " " + properties.get(key).toString());
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continue;
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}
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eu.eudat.commons.types.descriptiontemplate.FieldEntity currentField = descriptionTemplateDefinitionEntity.getFieldById(fieldId).stream().findFirst().orElse(null);
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if (currentField == null) {
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logger.error("Field set not found for field " + key + " " + properties.get(key).toString());
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continue;
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}
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PropertyDefinitionFieldSetEntity propertyDefinitionFieldSetEntity = propertyDefinitionEntity.getFieldSets().getOrDefault(fieldSetId, null);
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if (propertyDefinitionFieldSetEntity == null) {
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propertyDefinitionFieldSetEntity = new PropertyDefinitionFieldSetEntity();
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propertyDefinitionFieldSetEntity.setItems(new ArrayList<>());
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propertyDefinitionEntity.getFieldSets().put(fieldId, propertyDefinitionFieldSetEntity);
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}
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if (ordinal == Integer.MIN_VALUE) {
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if (groupOrdinalMapping.containsKey(new MultipleFieldKey(fieldSetId, groupId))){
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ordinal = groupOrdinalMapping.get(new MultipleFieldKey(fieldSetId, groupId));
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} else {
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ordinal = propertyDefinitionFieldSetEntity.getItems().stream().filter(x-> !x.getFields().isEmpty()).map(PropertyDefinitionFieldSetItemEntity::getOrdinal).min(Comparator.comparing(x -> x)).orElse(-1) - 1;
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ordinal = Math.min(ordinal, -1);
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}
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}
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if (!groupOrdinalMapping.containsKey(new MultipleFieldKey(fieldSetId, groupId))){
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groupOrdinalMapping.put(new MultipleFieldKey(fieldSetId, groupId), ordinal);
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} else {
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if (groupOrdinalMapping.get(new MultipleFieldKey(fieldSetId, groupId)) != ordinal) throw new MyApplicationException("Invalid multiple key ordinal " + key);
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}
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this.addMultipleField(propertyDefinitionFieldSetEntity, ordinal, currentField, properties, referenceTypeDefinitionEntityMap, referenceMap);
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}
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}
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}
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private void addMultipleField(PropertyDefinitionFieldSetEntity propertyDefinitionFieldSetEntity, int ordinal, eu.eudat.commons.types.descriptiontemplate.FieldEntity currentField, Map<String, Object> properties, Map<UUID, ReferenceTypeDefinitionEntity> referenceTypeDefinitionEntityMap, Map<ReferenceKey, ReferenceEntity> referenceMap){
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PropertyDefinitionFieldSetItemEntity propertyDefinitionFieldSetItemEntity = propertyDefinitionFieldSetEntity.getItems().stream().filter(x-> x.getOrdinal() == ordinal).findFirst().orElse(null);
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if (propertyDefinitionFieldSetItemEntity == null){
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propertyDefinitionFieldSetItemEntity = new PropertyDefinitionFieldSetItemEntity();
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propertyDefinitionFieldSetItemEntity.setFields(new HashMap<>());
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propertyDefinitionFieldSetItemEntity.setOrdinal(ordinal);
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propertyDefinitionFieldSetEntity.getItems().add(propertyDefinitionFieldSetItemEntity);
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}
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propertyDefinitionFieldSetItemEntity.getFields().put(currentField.getId(), this.buildField(currentField, properties, referenceTypeDefinitionEntityMap, referenceMap));
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}
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private void addSimpleField(PropertyDefinitionEntity propertyDefinitionEntity, FieldSetEntity currentFieldSet, eu.eudat.commons.types.descriptiontemplate.FieldEntity currentField, Map<String, Object> properties, Map<UUID, ReferenceTypeDefinitionEntity> referenceTypeDefinitionEntityMap, Map<ReferenceKey, ReferenceEntity> referenceMap){
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PropertyDefinitionFieldSetEntity propertyDefinitionFieldSetEntity = propertyDefinitionEntity.getFieldSets().getOrDefault(currentFieldSet.getId(), null);
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if (propertyDefinitionFieldSetEntity == null) {
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propertyDefinitionFieldSetEntity = new PropertyDefinitionFieldSetEntity();
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propertyDefinitionFieldSetEntity.setItems(new ArrayList<>());
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propertyDefinitionEntity.getFieldSets().put(currentFieldSet.getId(), propertyDefinitionFieldSetEntity);
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}
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PropertyDefinitionFieldSetItemEntity propertyDefinitionFieldSetItemEntity = null;
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if (this.conventionService.isListNullOrEmpty(propertyDefinitionFieldSetEntity.getItems())){
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propertyDefinitionFieldSetItemEntity = new PropertyDefinitionFieldSetItemEntity();
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propertyDefinitionFieldSetItemEntity.setFields(new HashMap<>());
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propertyDefinitionFieldSetItemEntity.setOrdinal(0);
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propertyDefinitionFieldSetEntity.getItems().add(propertyDefinitionFieldSetItemEntity);
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} else {
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propertyDefinitionFieldSetItemEntity = propertyDefinitionFieldSetEntity.getItems().getFirst();
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}
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propertyDefinitionFieldSetItemEntity.getFields().put(currentField.getId(), this.buildField(currentField, properties, referenceTypeDefinitionEntityMap, referenceMap));
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}
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private void addSimpleCommentField(PropertyDefinitionEntity propertyDefinitionEntity, FieldSetEntity currentFieldSet, String comment){
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PropertyDefinitionFieldSetEntity propertyDefinitionFieldSetEntity = propertyDefinitionEntity.getFieldSets().getOrDefault(currentFieldSet.getId(), null);
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if (propertyDefinitionFieldSetEntity == null) {
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propertyDefinitionFieldSetEntity = new PropertyDefinitionFieldSetEntity();
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propertyDefinitionFieldSetEntity.setItems(new ArrayList<>());
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propertyDefinitionEntity.getFieldSets().put(currentFieldSet.getId(), propertyDefinitionFieldSetEntity);
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}
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PropertyDefinitionFieldSetItemEntity propertyDefinitionFieldSetItemEntity = null;
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if (this.conventionService.isListNullOrEmpty(propertyDefinitionFieldSetEntity.getItems())){
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propertyDefinitionFieldSetItemEntity = new PropertyDefinitionFieldSetItemEntity();
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propertyDefinitionFieldSetItemEntity.setFields(new HashMap<>());
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propertyDefinitionFieldSetItemEntity.setOrdinal(0);
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propertyDefinitionFieldSetEntity.getItems().add(propertyDefinitionFieldSetItemEntity);
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} else {
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propertyDefinitionFieldSetItemEntity = propertyDefinitionFieldSetEntity.getItems().getFirst();
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}
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propertyDefinitionFieldSetItemEntity.setComment(comment);
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}
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private FieldEntity buildField(eu.eudat.commons.types.descriptiontemplate.FieldEntity currentField, Map<String, Object> properties, Map<UUID, ReferenceTypeDefinitionEntity> referenceTypeDefinitionEntityMap, Map<ReferenceKey, ReferenceEntity> referenceMap){
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FieldEntity fieldEntity = new FieldEntity();
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String textValue = properties.get(currentField.getId()) != null ? properties.get(currentField.getId()).toString() : null;
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if (textValue == null || textValue.isEmpty()) return fieldEntity;
|
|
switch (currentField.getData().getFieldType()){
|
|
case FREE_TEXT, TEXT_AREA, RICH_TEXT_AREA, RADIO_BOX -> fieldEntity.setTextValue(textValue.trim());
|
|
case CHECK_BOX, BOOLEAN_DECISION -> fieldEntity.setTextValue(textValue.trim().toLowerCase(Locale.ROOT));
|
|
case DATE_PICKER -> {
|
|
Instant instant = null;
|
|
if(!this.conventionService.isNullOrEmpty(textValue)) {
|
|
try {
|
|
instant = Instant.parse(textValue);
|
|
} catch (DateTimeParseException ex) {
|
|
instant = LocalDate.parse(textValue).atStartOfDay().toInstant(ZoneOffset.UTC);
|
|
}
|
|
}
|
|
fieldEntity.setDateValue(instant);
|
|
}
|
|
case SELECT -> {
|
|
if(!this.conventionService.isNullOrEmpty(textValue)) {
|
|
String[] valuesParsed = this.jsonHandlingService.fromJsonSafe(String[].class, textValue);
|
|
if (valuesParsed == null) valuesParsed = this.jsonHandlingService.fromJsonSafe(String[].class, this.cleanAsObjectString(textValue));
|
|
fieldEntity.setTextListValue(valuesParsed == null ? List.of(textValue) : Arrays.stream(valuesParsed).toList());
|
|
}
|
|
}
|
|
case DATASET_IDENTIFIER, VALIDATION -> {
|
|
if(!this.conventionService.isNullOrEmpty(textValue)) {
|
|
ExternalIdentifierEntity externalIdentifierEntity = this.jsonHandlingService.fromJsonSafe(ExternalIdentifierEntity.class, textValue);
|
|
if (externalIdentifierEntity == null) externalIdentifierEntity = this.jsonHandlingService.fromJsonSafe(ExternalIdentifierEntity.class, this.cleanAsObjectString(textValue));
|
|
if (externalIdentifierEntity == null) throw new MyApplicationException("Could not parse dataset External Identifier : " + textValue);
|
|
fieldEntity.setExternalIdentifier(externalIdentifierEntity);
|
|
}
|
|
}
|
|
case UPLOAD -> {
|
|
if(!this.conventionService.isNullOrEmpty(textValue)) {
|
|
Map<String, String> valuesParsed = this.jsonHandlingService.fromJsonSafe(Map.class, textValue);
|
|
if (valuesParsed == null) {
|
|
valuesParsed = (Map<String, String>) properties.get(currentField.getId());
|
|
}
|
|
if (valuesParsed == null) valuesParsed = this.jsonHandlingService.fromJsonSafe(Map.class, this.cleanAsObjectString(textValue));
|
|
if (valuesParsed == null) throw new MyApplicationException("Could not parse upload : " + textValue);
|
|
String id = valuesParsed.getOrDefault("id", null);
|
|
if (id == null) throw new MyApplicationException("Could not parse upload : " + textValue);
|
|
fieldEntity.setTextValue(UUID.fromString(id).toString());
|
|
}
|
|
}
|
|
case CURRENCY -> {
|
|
if(!this.conventionService.isNullOrEmpty(textValue)) {
|
|
Currency currency = this.jsonHandlingService.fromJsonSafe(Currency.class, textValue);
|
|
if (currency == null) currency = this.jsonHandlingService.fromJsonSafe(Currency.class, this.cleanAsObjectString(textValue));
|
|
if (currency == null && textValue.toUpperCase(Locale.ROOT).contains("EUR")) {
|
|
currency = new Currency();
|
|
currency.setName("Euro");
|
|
currency.setValue("EUR");
|
|
}
|
|
if (currency == null && textValue.toUpperCase(Locale.ROOT).contains("US DOLLAR")) {
|
|
currency = new Currency();
|
|
currency.setName("US DOLLAR");
|
|
currency.setValue("USD");
|
|
}
|
|
if (currency == null) throw new MyApplicationException("Could not parse Currency : " + textValue);
|
|
//TODO: {"name":"Euro","value":"EUR"} what we want to keep ?
|
|
|
|
fieldEntity.setTextValue(currency.getName());
|
|
}
|
|
}
|
|
case TAGS -> {
|
|
if(!this.conventionService.isNullOrEmpty(textValue)) {
|
|
Tag[] tags = this.jsonHandlingService.fromJsonSafe(Tag[].class, textValue);
|
|
if (tags == null) tags = this.jsonHandlingService.fromJsonSafe(Tag[].class, this.cleanAsObjectString(textValue));
|
|
if (tags == null) {
|
|
Tag tag = this.jsonHandlingService.fromJsonSafe(Tag.class, textValue);
|
|
if (tag == null) tag = this.jsonHandlingService.fromJsonSafe(Tag.class, this.cleanAsObjectString(textValue));
|
|
if (tag != null) tags = List.of(tag).toArray(Tag[]::new);
|
|
}
|
|
if (tags == null) {
|
|
//throw new MyApplicationException("Could not parse tag : " + textValue); //TODO
|
|
logger.error("Could not parse tag : " + textValue);
|
|
break;
|
|
}
|
|
fieldEntity.setTextListValue(Arrays.stream(tags).toList().stream().map(Tag::getName).toList());
|
|
}
|
|
}
|
|
|
|
case INTERNAL_ENTRIES_DMPS -> throw new MyApplicationException("Found INTERNAL_ENTRIES_DMPS into description");
|
|
case INTERNAL_ENTRIES_DESCRIPTIONS -> throw new MyApplicationException("Found INTERNAL_ENTRIES_DMPS into description");
|
|
case REFERENCE_TYPES -> {
|
|
if(!this.conventionService.isNullOrEmpty(textValue)) { //TODO
|
|
Map<String, Object>[] references = this.jsonHandlingService.fromJsonSafe(Map[].class, textValue);
|
|
if (references == null) references = this.jsonHandlingService.fromJsonSafe(Map[].class, this.cleanAsObjectString(textValue));
|
|
if (references == null) {
|
|
Map<String, Object> reference = this.jsonHandlingService.fromJsonSafe(Map.class, textValue);
|
|
if (reference == null) reference = this.jsonHandlingService.fromJsonSafe(Map.class, this.cleanAsObjectString(textValue));
|
|
if (reference != null) references = List.of(reference).toArray(Map[]::new);
|
|
}
|
|
if (references == null){
|
|
logger.warn("Could not parse reference : " + textValue);
|
|
//throw new MyApplicationException("Could not parse reference : " + textValue);
|
|
break;
|
|
}
|
|
ReferenceTypeDataEntity referenceTypeDataEntity = (ReferenceTypeDataEntity)currentField.getData();
|
|
if (referenceTypeDataEntity == null) throw new MyApplicationException("Could not parse description template reference : " + textValue);
|
|
|
|
fieldEntity.setTextListValue(new ArrayList<>());
|
|
for (Map<String, Object> item : references){
|
|
ReferenceEntity referenceEntity = this.geReferenceEntity(item, referenceTypeDefinitionEntityMap, referenceTypeDataEntity, textValue, referenceMap);
|
|
fieldEntity.getTextListValue().add(referenceEntity.getId().toString());
|
|
}
|
|
}
|
|
}
|
|
}
|
|
return fieldEntity;
|
|
}
|
|
|
|
private ReferenceEntity geReferenceEntity(Map<String, Object> item, Map<UUID, ReferenceTypeDefinitionEntity> referenceTypeDefinitionEntityMap, ReferenceTypeDataEntity referenceTypeDataEntity, String textValue, Map<ReferenceKey, ReferenceEntity> referenceMap){
|
|
ReferenceTypeDefinitionEntity referenceTypeDefinition = referenceTypeDefinitionEntityMap.getOrDefault(referenceTypeDataEntity.getReferenceTypeId(), null);
|
|
if (referenceTypeDefinition == null) throw new MyApplicationException("Could not find reference type for reference : " + textValue);
|
|
if (this.conventionService.isListNullOrEmpty(referenceTypeDefinition.getSources())) throw new MyApplicationException("Could not find reference source for reference : " + textValue);
|
|
|
|
ReferenceEntity data = new ReferenceEntity();
|
|
if (item.containsKey("name")) data.setLabel((String) item.get("name"));
|
|
if (this.conventionService.isNullOrEmpty(data.getLabel()) && item.containsKey("label")) data.setLabel((String) item.get("label"));
|
|
if (item.containsKey("abbreviation")) data.setAbbreviation((String) item.get("abbreviation"));
|
|
if (item.containsKey("id")) data.setReference((String)item.get("id"));
|
|
if (item.containsKey("reference")) data.setReference((String)item.get("reference"));
|
|
if (this.conventionService.isNullOrEmpty(data.getReference()) && item.containsKey("pid")) data.setReference((String)item.get("pid"));
|
|
|
|
data.setId(UUID.randomUUID());
|
|
data.setCreatedAt(Instant.now());
|
|
data.setUpdatedAt(Instant.now());
|
|
data.setSourceType(ReferenceSourceType.External);
|
|
data.setTypeId(referenceTypeDataEntity.getReferenceTypeId());
|
|
data.setIsActive(IsActive.Active);
|
|
eu.eudat.commons.types.reference.DefinitionEntity definitionEntity = new eu.eudat.commons.types.reference.DefinitionEntity();
|
|
definitionEntity.setFields(new ArrayList<>());
|
|
for (Map.Entry<String, Object> entries : item.entrySet()){
|
|
if (entries.getValue() != null && !entries.getKey().equals("name") && !entries.getKey().equals("label")&& !entries.getKey().equals("abbreviation")
|
|
&& !entries.getKey().equals("id") && !entries.getKey().equals("pid")&& !entries.getKey().equals("source")) {
|
|
eu.eudat.commons.types.reference.FieldEntity field = new eu.eudat.commons.types.reference.FieldEntity();
|
|
field.setCode(entries.getKey());
|
|
field.setDataType(ReferenceFieldDataType.Text);
|
|
field.setValue(entries.getValue().toString());
|
|
definitionEntity.getFields().add(field);
|
|
}
|
|
}
|
|
if (!this.conventionService.isListNullOrEmpty(definitionEntity.getFields())) data.setDefinition(this.xmlHandlingService.toXmlSafe(definitionEntity));
|
|
|
|
|
|
if (this.conventionService.isNullOrEmpty(data.getLabel())) data.setLabel(data.getReference());
|
|
if (referenceTypeDefinition.getSources().size() == 1) data.setSource(referenceTypeDefinition.getSources().getFirst().getKey());
|
|
else {
|
|
String key = referenceTypeDefinition.getSources().stream().filter(x-> x.getKey().equalsIgnoreCase((String) item.getOrDefault("source", null))).map(ExternalFetcherBaseSourceConfigurationEntity::getKey).findFirst().orElse(null);
|
|
if (this.conventionService.isNullOrEmpty(key)) {
|
|
logger.warn("Select first source for reference : " + textValue);
|
|
data.setSourceType(ReferenceSourceType.Internal);
|
|
data.setSource(referenceTypeDefinition.getSources().getFirst().getKey());
|
|
//throw new MyApplicationException("Could not find reference source for reference : " + textValue); //TODO
|
|
} else {
|
|
data.setSource(key);
|
|
}
|
|
}
|
|
if (this.conventionService.isNullOrEmpty(data.getReference())) {
|
|
data.setReference(this.queryFactory.query(ReferenceQuery.class).sources(data.getSource()).like(data.getLabel()).typeIds(data.getTypeId()).collectAs(new BaseFieldSet().ensure(Reference._reference, Reference._label))
|
|
.stream().filter(x-> x.getLabel().equals(data.getLabel())).map(ReferenceEntity::getReference).findFirst().orElse(null));//TODO
|
|
}
|
|
if (this.conventionService.isNullOrEmpty(data.getReference())) {
|
|
logger.warn("Local reference created with random id" + textValue);
|
|
data.setReference(data.getId().toString().replace("-", ""));
|
|
data.setSourceType(ReferenceSourceType.Internal); //TODO
|
|
}
|
|
|
|
ReferenceEntity existingEntity = referenceMap.getOrDefault(new ReferenceKey(data), null);
|
|
if(existingEntity == null){
|
|
referenceMap.put(new ReferenceKey(data), data);
|
|
this.entityManager.persist(data);
|
|
return data;
|
|
} else {
|
|
return existingEntity;
|
|
}
|
|
|
|
}
|
|
|
|
private String cleanAsObjectString(String value){
|
|
value = value.trim().replace("\\", "");
|
|
value = value.trim().replace("[\"{", "[{");
|
|
value = value.trim().replace("}\"]", "}]");
|
|
value = value.trim().replace("}\", \"{", "}, {");
|
|
value = value.trim().replace("}\",\"{", "},{");
|
|
|
|
while (!this.conventionService.isNullOrEmpty(value) && value.startsWith("\"")) value = value.substring(1);
|
|
while (!this.conventionService.isNullOrEmpty(value) && value.endsWith("\"")) value = value.substring(0, value.length() - 1);
|
|
return value;
|
|
}
|
|
|
|
public static class Currency{
|
|
private String name;
|
|
private String value;
|
|
|
|
public String getName() {
|
|
return name;
|
|
}
|
|
|
|
public void setName(String name) {
|
|
this.name = name;
|
|
}
|
|
|
|
public String getValue() {
|
|
return value;
|
|
}
|
|
|
|
public void setValue(String value) {
|
|
this.value = value;
|
|
}
|
|
}
|
|
public static class Tag{
|
|
private String id;
|
|
private String name;
|
|
|
|
public String getId() {
|
|
return id;
|
|
}
|
|
|
|
public void setId(String id) {
|
|
this.id = id;
|
|
}
|
|
|
|
public String getName() {
|
|
return name;
|
|
}
|
|
|
|
public void setName(String name) {
|
|
this.name = name;
|
|
}
|
|
}
|
|
|
|
public static class MultipleFieldKey{
|
|
private final String fieldSetId;
|
|
private final String groupKey;
|
|
|
|
private final int hashCode;
|
|
|
|
public MultipleFieldKey(String fieldSetId, String groupKey) {
|
|
this.fieldSetId = fieldSetId;
|
|
this.groupKey = groupKey;
|
|
this.hashCode = Objects.hash(this.fieldSetId, this.groupKey);
|
|
}
|
|
|
|
public String getFieldSetId() {
|
|
return fieldSetId;
|
|
}
|
|
|
|
public String getGroupKey() {
|
|
return groupKey;
|
|
}
|
|
|
|
@Override
|
|
public boolean equals(Object o) {
|
|
if (this == o)
|
|
return true;
|
|
if (o == null || getClass() != o.getClass())
|
|
return false;
|
|
MultipleFieldKey that = (MultipleFieldKey) o;
|
|
return Objects.equals(fieldSetId, that.getFieldSetId()) && Objects.equals(groupKey, that.getGroupKey());
|
|
}
|
|
|
|
@Override
|
|
public int hashCode() {
|
|
return this.hashCode;
|
|
}
|
|
}
|
|
|
|
public static class ReferenceKey {
|
|
private final UUID type;
|
|
private final String source;
|
|
private final String reference;
|
|
private final int hashCode;
|
|
|
|
|
|
public ReferenceKey(ReferenceEntity reference) {
|
|
this.type = reference.getTypeId();
|
|
this.source = reference.getSource().trim();
|
|
this.reference = reference.getReference().trim();
|
|
hashCode = Objects.hash(this.type, this.source, this.reference);
|
|
}
|
|
|
|
public UUID getType() {
|
|
return type;
|
|
}
|
|
|
|
public String getSource() {
|
|
return source;
|
|
}
|
|
|
|
public String getReference() {
|
|
return reference;
|
|
}
|
|
|
|
@Override
|
|
public boolean equals(Object o) {
|
|
if (this == o)
|
|
return true;
|
|
if (o == null || getClass() != o.getClass())
|
|
return false;
|
|
ReferenceKey that = (ReferenceKey) o;
|
|
return Objects.equals(type, that.getType()) && Objects.equals(source, that.getSource()) && Objects.equals(reference, that.getReference());
|
|
}
|
|
|
|
@Override
|
|
public int hashCode() {
|
|
return this.hashCode;
|
|
}
|
|
}
|
|
}
|