417 lines
23 KiB
Java
417 lines
23 KiB
Java
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package eu.eudat.service.prefilling;
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import com.fasterxml.jackson.databind.JsonNode;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import eu.eudat.authorization.AuthorizationFlags;
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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.FieldType;
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import eu.eudat.commons.types.descriptiontemplate.FieldEntity;
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import eu.eudat.commons.types.descriptiontemplate.fielddata.AutoCompleteDataEntity;
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import eu.eudat.commons.types.descriptiontemplate.fielddata.ComboBoxDataEntity;
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import eu.eudat.commons.types.descriptiontemplate.fielddata.LicenseDataEntity;
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import eu.eudat.commons.types.descriptiontemplate.fielddata.WordListDataEntity;
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import eu.eudat.commons.types.prefilling.PrefillingEntity;
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import eu.eudat.commons.validation.ValidatorFactory;
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import eu.eudat.convention.ConventionService;
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import eu.eudat.data.DescriptionTemplateEntity;
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import eu.eudat.data.ReferenceEntity;
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import eu.eudat.file.transformer.utils.helpers.StreamDistinctBy;
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import eu.eudat.model.*;
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import eu.eudat.model.builder.DescriptionTemplateBuilder;
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import eu.eudat.model.builder.PrefillingBuilder;
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import eu.eudat.model.builder.ReferenceBuilder;
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import eu.eudat.model.descriptionproperties.Field;
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import eu.eudat.model.descriptionproperties.PropertyDefinition;
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import eu.eudat.model.persist.DescriptionProfilingRequest;
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import eu.eudat.model.persist.DescriptionProfilingWithDataRequest;
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import eu.eudat.query.ReferenceQuery;
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import eu.eudat.service.remotefetcher.ExternalUrlConfigProvider;
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import eu.eudat.service.remotefetcher.RemoteFetcherService;
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import eu.eudat.service.remotefetcher.config.entities.*;
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import eu.eudat.service.remotefetcher.criteria.ExternalReferenceCriteria;
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import gr.cite.tools.data.builder.BuilderFactory;
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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.exception.MyNotFoundException;
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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 gr.cite.tools.logging.MapLogEntry;
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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.beans.factory.annotation.Autowired;
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import org.springframework.context.MessageSource;
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import org.springframework.context.i18n.LocaleContextHolder;
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import org.springframework.http.HttpEntity;
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import org.springframework.http.HttpHeaders;
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import org.springframework.http.HttpMethod;
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import org.springframework.http.MediaType;
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import org.springframework.stereotype.Service;
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import org.springframework.web.client.RestTemplate;
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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.LocalDate;
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import java.time.format.DateTimeFormatter;
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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 PrefillingServiceImpl implements PrefillingService {
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private final static String Zenodo = "zenodo";
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private static final LoggerService logger = new LoggerService(LoggerFactory.getLogger(PrefillingServiceImpl.class));
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private final EntityManager entityManager;
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private final BuilderFactory builderFactory;
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private final QueryFactory queryFactory;
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private final ConventionService conventionService;
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private final MessageSource messageSource;
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private final RemoteFetcherService remoteFetcherService;
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private final JsonHandlingService jsonHandlingService;
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private final ExternalUrlConfigProvider externalUrlConfigProvider;
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private final XmlHandlingService xmlHandlingService;
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private final ValidatorFactory validatorFactory;
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@Autowired
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public PrefillingServiceImpl(
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EntityManager entityManager,
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BuilderFactory builderFactory,
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QueryFactory queryFactory,
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ConventionService conventionService,
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MessageSource messageSource,
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RemoteFetcherService remoteFetcherService,
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JsonHandlingService jsonHandlingService,
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ExternalUrlConfigProvider externalUrlConfigProvider,
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XmlHandlingService xmlHandlingService,
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ValidatorFactory validatorFactory) {
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this.entityManager = entityManager;
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this.builderFactory = builderFactory;
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this.queryFactory = queryFactory;
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this.conventionService = conventionService;
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this.messageSource = messageSource;
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this.remoteFetcherService = remoteFetcherService;
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this.jsonHandlingService = jsonHandlingService;
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this.externalUrlConfigProvider = externalUrlConfigProvider;
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this.xmlHandlingService = xmlHandlingService;
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this.validatorFactory = validatorFactory;
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}
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@Override
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public List<Prefilling> getPrefillings(PrefillingLookup lookup) {
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logger.debug(new MapLogEntry("persisting data").And("lookup", lookup));
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ExternalReferenceCriteria externalReferenceCriteria = new ExternalReferenceCriteria();
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externalReferenceCriteria.setLike(lookup.getLike());
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List<PrefillingEntity> prefillings = new ArrayList<>();
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List<Map<String, String>> map;
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Map<String, PrefillingConfig> prefillingConfigs = this.externalUrlConfigProvider.getExternalUrls().getPrefillings();
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for (PrefillingConfig prefillingConfig: prefillingConfigs.values()) {
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map = remoteFetcherService.getExternalGeneric(externalReferenceCriteria, prefillingConfig.getPrefillingSearch());
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prefillings.addAll(map.stream().map(submap -> PrefillingEntity.build(submap, this.jsonHandlingService)).toList());
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if (prefillingConfig.getPrefillingSearch().getUrlConfig().isDataInListing()) {
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List<Map<String, Object>> mapData = remoteFetcherService.getExternalGenericWithData(externalReferenceCriteria, prefillingConfig.getPrefillingSearch());
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for (int i = 0; i < mapData.size(); i++) {
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prefillings.get(i).setData(mapData.get(i));
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}
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prefillings = prefillings.stream().filter(prefilling -> prefilling.getData() != null).collect(Collectors.toList());
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}
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}
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return this.builderFactory.builder(PrefillingBuilder.class).authorize(AuthorizationFlags.OwnerOrDmpAssociatedOrPermissionOrPublic).build(BaseFieldSet.build(lookup.getProject(), Prefilling._pid), prefillings);
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}
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@Override
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public Description getPrefilledDescription(DescriptionProfilingRequest model) throws JAXBException, ParserConfigurationException, IOException, InstantiationException, IllegalAccessException, SAXException {
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PrefillingConfig prefillingConfig = this.externalUrlConfigProvider.getExternalUrls().getPrefillings().get(model.getConfigId());
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PrefillingGet prefillingGet = prefillingConfig.getPrefillingGet();
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Map<String, Object> prefillingEntity = getSinglePrefillingData(prefillingGet.getUrl(), model.getPrefillId());
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DescriptionProfilingWithDataRequest descriptionProfilingWithDataRequest = new DescriptionProfilingWithDataRequest();
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descriptionProfilingWithDataRequest.setConfigId(model.getConfigId());
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descriptionProfilingWithDataRequest.setProject(model.getProject());
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descriptionProfilingWithDataRequest.setDescriptionTemplateId(model.getDescriptionTemplateId());
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descriptionProfilingWithDataRequest.setData(prefillingEntity);
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validatorFactory.validator(DescriptionProfilingWithDataRequest.DescriptionProfilingWithDataRequestValidator.ValidatorName).validateForce(descriptionProfilingWithDataRequest);
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return this.getPrefilledDescriptionUsingData(descriptionProfilingWithDataRequest);
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}
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private Map<String, Object> getSinglePrefillingData(String url, String id) {
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RestTemplate restTemplate = new RestTemplate();
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String parsedUrl = url.replace("{id}", id);
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HttpHeaders headers = new HttpHeaders();
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headers.setAccept(Collections.singletonList(MediaType.APPLICATION_JSON));
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HttpEntity<String> entity = new HttpEntity("", headers);
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return restTemplate.exchange(parsedUrl, HttpMethod.GET, entity, LinkedHashMap.class).getBody();
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}
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@Override
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public Description getPrefilledDescriptionUsingData(DescriptionProfilingWithDataRequest model) throws JAXBException, ParserConfigurationException, IOException, InstantiationException, IllegalAccessException, SAXException {
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PrefillingConfig prefillingConfig = this.externalUrlConfigProvider.getExternalUrls().getPrefillings().get(model.getConfigId());
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PrefillingGet prefillingGet = prefillingConfig.getPrefillingGet();
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DescriptionTemplateEntity descriptionTemplateEntity = this.entityManager.find(DescriptionTemplateEntity.class, model.getDescriptionTemplateId());
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if (descriptionTemplateEntity == null) throw new MyNotFoundException(messageSource.getMessage("General_ItemNotFound", new Object[]{model.getDescriptionTemplateId(), DescriptionTemplate.class.getSimpleName()}, LocaleContextHolder.getLocale()));
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eu.eudat.commons.types.descriptiontemplate.DefinitionEntity descriptionTemplateDefinition = this.xmlHandlingService.fromXml(eu.eudat.commons.types.descriptiontemplate.DefinitionEntity.class, descriptionTemplateEntity.getDefinition());
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Description description = new Description();
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description.setDescriptionTemplate(this.builderFactory.builder(DescriptionTemplateBuilder.class).authorize(AuthorizationFlags.OwnerOrDmpAssociatedOrPermissionOrPublic).build(model.getProject(), descriptionTemplateEntity));
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return mapPrefilledEntityToDescription(description, model.getData(), prefillingGet, prefillingConfig.getType(), descriptionTemplateDefinition);
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}
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//region Description Mapping
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private Object getValueFromPath(Map<String, Object> data, String path){
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if (path == null || this.conventionService.isNullOrEmpty(path) || data == null) return null;
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if (path.contains(".")){
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String[] paths = path.split("\\.");
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if (paths.length == 0) return null;
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else {
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Object value = data.getOrDefault(paths[0], null);
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if (value instanceof Map) return this.getValueFromPath((Map) value, path.substring(paths[0].length() + 1));
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else return null;
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}
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}else {
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return data.getOrDefault(path, null);
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}
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}
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private Description mapPrefilledEntityToDescription(Description description, Map<String, Object> prefilledData, PrefillingGet prefillingGet, String type, eu.eudat.commons.types.descriptiontemplate.DefinitionEntity descriptionTemplateDefinition){
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for (DefaultPrefillingMapping prefillingMapping: prefillingGet.getMappings()) {
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Object sourceValue = this.getValueFromPath(prefilledData, prefillingMapping.getSource());
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try {
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setValueToDescription(description, prefillingMapping, sourceValue, descriptionTemplateDefinition, type);
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}
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catch (Exception e) {
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logger.warn("Couldn't map " + (this.conventionService.isNullOrEmpty(prefillingMapping.getSemanticTarget()) ? prefillingMapping.getTarget() : prefillingMapping.getSemanticTarget()));
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}
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}
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for (PrefillingFixedMapping fixedMapping: prefillingGet.getFixedMappings()) {
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try {
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setValueToDescription(description, fixedMapping, fixedMapping.getValue(), descriptionTemplateDefinition, type);
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}
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catch (Exception e) {
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logger.warn("Couldn't map " + (this.conventionService.isNullOrEmpty(fixedMapping.getSemanticTarget()) ? fixedMapping.getTarget() : fixedMapping.getSemanticTarget()));
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}
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}
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return description;
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}
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private void setValueToDescription(Description description, PrefillingMapping prefillingMapping, Object value, eu.eudat.commons.types.descriptiontemplate.DefinitionEntity definition, String type) {
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JsonNode valueNode = new ObjectMapper().valueToTree(value);
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String parsedValue = this.getValueAsString(prefillingMapping, valueNode);
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List<String> parsedValues = this.getValueAsStringArray(prefillingMapping, valueNode);
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if (prefillingMapping.getTarget() != null) {
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this.applyValueToDescriptionObject(description, prefillingMapping, parsedValue, parsedValues);
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} else {
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// zenodo prefilling customizations
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if(type.equals(PrefillingServiceImpl.Zenodo)){
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if(prefillingMapping.getSemanticTarget().equals("rda.dataset.distribution.data_access")){
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if(parsedValue != null && parsedValue.equals("open")){
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List<FieldEntity> issuedFieldEntities = definition.getAllField().stream().filter(x-> x.getSchematics() != null && x.getSchematics().contains("rda.dataset.issued")).toList();
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if(this.conventionService.isListNullOrEmpty(issuedFieldEntities)){
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String issuedIdNode = issuedFieldEntities.getFirst().getId();
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String issuedValue = description.getProperties().getFields().stream().filter(x-> x.getKey().equals(issuedIdNode)).map(Field::getValue).findFirst().orElse(null);//TODO
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List<FieldEntity> licStartEntities = definition.getAllField().stream().filter(x-> x.getSchematics() != null && x.getSchematics().contains("rda.dataset.distribution.license.start_date")).toList();
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if(this.conventionService.isListNullOrEmpty(licStartEntities)) {
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for (FieldEntity licStartDateNode : licStartEntities) {
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String licStartDateId = licStartDateNode.getId();
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Field field = new Field();
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field.setKey(licStartDateId);
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field.setValue(issuedValue);
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description.getProperties().getFields().add(field);
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}
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}
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}
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}
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}
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if (prefillingMapping.getSemanticTarget().equals("rda.dataset.distribution.available_until") && parsedValue != null && !parsedValue.equals("null")) {
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DateTimeFormatter formatter = DateTimeFormatter.ofPattern("uuuu-MM-dd");
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LocalDate date = LocalDate.parse(parsedValue, formatter);
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date = date.plusYears(20);
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parsedValue = date.toString();
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}
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}
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List<FieldEntity> fieldEntities = definition.getAllField().stream().filter(x-> x.getSchematics() != null && x.getSchematics().contains(prefillingMapping.getSemanticTarget())).toList();
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for (FieldEntity fieldEntity: fieldEntities) {
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if (description.getProperties() == null) description.setProperties(new PropertyDefinition());
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if (description.getProperties().getFields() == null) description.getProperties().setFields(new ArrayList<>());
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description.getProperties().getFields().add(buildFieldValue(fieldEntity, parsedValue, parsedValues, type));
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}
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}
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}
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private void applyValueToDescriptionObject(Description description, PrefillingMapping prefillingMapping, String parsedValue, List<String> parsedValues){
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switch (prefillingMapping.getTarget()){
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case Description._description:{
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description.setDescription(parsedValue);
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}
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case Description._label:{
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description.setLabel(parsedValue);
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}
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case Description._descriptionTags:{
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if (!parsedValues.isEmpty()){
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for (String tagString : parsedValues){
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if (description.getDescriptionTags() == null) description.setDescriptionTags(new ArrayList<>());
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if(description.getDescriptionTags().stream().anyMatch(x-> x.getTag() !=null && x.getTag().getLabel().equals(tagString))) continue;
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DescriptionTag descriptionTag = new DescriptionTag();
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Tag tag = new Tag();
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tag.setLabel(tagString.trim());
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descriptionTag.setTag(tag);
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description.getDescriptionTags().add(descriptionTag);
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}
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}
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}
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}
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}
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private Field buildFieldValue(FieldEntity fieldEntity, String parsedValue, List<String> parsedValues, String type){
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String id = fieldEntity.getId();
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Field field = new Field();
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field.setKey(id);
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switch (fieldEntity.getData().getFieldType()) {
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case COMBO_BOX:
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case AUTO_COMPLETE:
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case WORD_LIST: {
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if (!parsedValues.stream().allMatch(Objects::isNull)) {
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field.setValue(this.jsonHandlingService.toJsonSafe(parseComboBoxValues(fieldEntity, parsedValues)));
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}
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break;
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}
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case TAGS: {
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if (!parsedValues.isEmpty()) {
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field.setValue(jsonHandlingService.toJsonSafe(parseTags(String.join(", ", parsedValues))));
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}
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break;
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}
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case DATASET_IDENTIFIER: {
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JSONObject datasetID = new JSONObject();
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datasetID.put("identifier", parsedValue);
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if (type.equals(PrefillingServiceImpl.Zenodo)) {
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datasetID.put("type", "doi");
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}
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field.setValue(datasetID.toString());
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break;
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}
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case LICENSES: {
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List<ReferenceEntity> licenses = this.queryFactory.query(ReferenceQuery.class).references(parsedValues).collect();
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LicenseDataEntity wordListDataEntity = (LicenseDataEntity) fieldEntity.getData();
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if (licenses != null && !licenses.isEmpty() && wordListDataEntity != null) {
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boolean isMultiAutocomplete = wordListDataEntity.getMultiAutoComplete();
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List<Reference> licenseModels = this.builderFactory.builder(ReferenceBuilder.class).authorize(AuthorizationFlags.OwnerOrDmpAssociatedOrPermissionOrPublic).build(new BaseFieldSet(), licenses);
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if (isMultiAutocomplete) {
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field.setValue(jsonHandlingService.toJsonSafe(licenseModels));
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} else {
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field.setValue(jsonHandlingService.toJsonSafe(licenseModels.getFirst()));
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}
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}
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break;
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}
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default:
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field.setValue(parsedValue);
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break;
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}
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return field;
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}
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private List<String> getValueAsStringArray(PrefillingMapping prefillingMapping, Object value){
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String trimRegex = !this.conventionService.isNullOrEmpty(prefillingMapping.getTrimRegex()) ? prefillingMapping.getTrimRegex() : "";
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List<String> parsedValues = new ArrayList<>();
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if (value instanceof String){
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parsedValues.add(((String) value).replace(trimRegex, ""));
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} else if (value.getClass().isArray()){
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if (value instanceof String[]){
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List<String> values = new LinkedList<>();
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for (String val : (String[]) value) {
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parsedValues.add(val.replace(trimRegex, ""));
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}
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} else {
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if (prefillingMapping.getSubSource() == null || prefillingMapping.getSubSource().isEmpty()) {
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throw new MyApplicationException("Source value is an array but no subSource field have been set");
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}
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for (Object obj : (Object[]) value) {
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if (obj instanceof Map) {
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Object property = ((Map)obj).getOrDefault(prefillingMapping.getSubSource(), null);
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if (property instanceof String) {
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parsedValues.add(((String) property).replaceAll(trimRegex, ""));
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}
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}
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}
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}
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}
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parsedValues = parsedValues.stream().distinct().collect(Collectors.toList());
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return parsedValues;
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}
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private String getValueAsString(PrefillingMapping prefillingMapping, Object value){
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List<String> parsedValues = this.getValueAsStringArray(prefillingMapping, value);
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return parsedValues.isEmpty() ? null : String.join(", ", parsedValues);
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}
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|
private Object parseComboBoxValues(FieldEntity fieldEntity, List<String> parsedValues) {
|
||
|
List<String> normalizedValues = new ArrayList<>();
|
||
|
boolean isMultiSelect;
|
||
|
if(fieldEntity.getData().getFieldType().equals(FieldType.AUTO_COMPLETE)) {
|
||
|
AutoCompleteDataEntity autoCompleteData = (AutoCompleteDataEntity)fieldEntity.getData();
|
||
|
isMultiSelect = autoCompleteData.getMultiAutoComplete();
|
||
|
// for (String format : parsedValues) {
|
||
|
// List<ExternalAutocompleteFieldModel> result = new ArrayList<>();
|
||
|
// try {
|
||
|
// result = datasetProfileManager.getAutocomplete(autoCompleteData, format);
|
||
|
// }
|
||
|
// catch (Exception e) {
|
||
|
// logger.error(e.getMessage(), e);
|
||
|
// }
|
||
|
// result = result.stream().filter(StreamDistinctBy.distinctByKey(ExternalAutocompleteFieldModel::getId)).collect(Collectors.toList());
|
||
|
// if(!result.isEmpty()){
|
||
|
// List<String> tempValues = new LinkedList<>();
|
||
|
// for (ExternalAutocompleteFieldModel f : result) {
|
||
|
// if (format.equals(f.getId()) || f.getLabel().toUpperCase(Locale.ROOT).contains(format.toUpperCase(Locale.ROOT)))
|
||
|
// tempValues.add(mapper.valueToTree(f).toString());
|
||
|
// }
|
||
|
// if (isMultiSelect)
|
||
|
// normalizedValues.addAll(tempValues);
|
||
|
// else if (!tempValues.isEmpty())
|
||
|
// normalizedValues.add(tempValues.get(0));
|
||
|
// }
|
||
|
// }
|
||
|
return !normalizedValues.isEmpty() ? (isMultiSelect ? normalizedValues : normalizedValues.getFirst()) : null;
|
||
|
} else {
|
||
|
WordListDataEntity wordListDataEntity = (WordListDataEntity)fieldEntity.getData();
|
||
|
isMultiSelect = wordListDataEntity.getMultiList();
|
||
|
if (wordListDataEntity.getOptions() != null) {
|
||
|
for (ComboBoxDataEntity.Option option : wordListDataEntity.getOptions()) {
|
||
|
if (parsedValues.contains(option.getValue())) {
|
||
|
normalizedValues.add(option.getValue());
|
||
|
}
|
||
|
}
|
||
|
}
|
||
|
List<String> normalizedStringValues = normalizedValues.stream().map(Object::toString).collect(Collectors.toList());
|
||
|
|
||
|
return !normalizedValues.isEmpty() ? (isMultiSelect ? String.join(", ", normalizedStringValues) : normalizedValues.getFirst()) : null;
|
||
|
}
|
||
|
}
|
||
|
|
||
|
private static List<Tag> parseTags(String value) {
|
||
|
if (value == null || value.isEmpty())
|
||
|
return new LinkedList<>();
|
||
|
String[] rawTags = value.split(",");
|
||
|
List<Tag> parsedTags = new LinkedList<>();
|
||
|
for (String rawTag : rawTags) {
|
||
|
Tag tag = new Tag();
|
||
|
tag.setLabel(rawTag.trim());
|
||
|
parsedTags.add(tag);
|
||
|
}
|
||
|
return parsedTags;
|
||
|
}
|
||
|
//endregion aa
|
||
|
}
|
||
|
|