265 lines
15 KiB
Java
265 lines
15 KiB
Java
package eu.eudat.logic.managers;
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import com.jayway.jsonpath.DocumentContext;
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import com.jayway.jsonpath.JsonPath;
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import eu.eudat.data.dao.criteria.DataManagementPlanCriteria;
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import eu.eudat.data.dao.criteria.RequestItem;
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import eu.eudat.data.dao.entities.DatasetDao;
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import eu.eudat.data.dao.entities.DatasetProfileDao;
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import eu.eudat.data.entities.DMPProfile;
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import eu.eudat.data.entities.DescriptionTemplate;
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import eu.eudat.data.query.items.dmpblueprint.DataManagementPlanBlueprintTableRequest;
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import eu.eudat.data.query.items.item.dmpprofile.DataManagementPlanProfileCriteriaRequest;
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import eu.eudat.data.query.items.table.dmpprofile.DataManagementPlanProfileTableRequest;
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import eu.eudat.exceptions.datasetprofile.DatasetProfileWithDatasetsExeption;
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import eu.eudat.exceptions.dmpblueprint.DmpBlueprintUsedException;
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import eu.eudat.logic.services.operations.DatabaseRepository;
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import eu.eudat.logic.utilities.builders.XmlBuilder;
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import eu.eudat.logic.utilities.documents.helpers.FileEnvelope;
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import eu.eudat.logic.utilities.documents.xml.dmpXml.ExportXmlBuilderDmpBlueprint;
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import eu.eudat.logic.utilities.documents.xml.dmpXml.ImportXmlBuilderDmpBlueprint;
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import eu.eudat.models.data.entities.xmlmodels.dmpprofiledefinition.*;
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import eu.eudat.models.data.entities.xmlmodels.dmpprofiledefinition.types.FieldCategory;
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import eu.eudat.models.data.entities.xmlmodels.dmpprofiledefinition.types.SystemFieldType;
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import eu.eudat.models.data.helpermodels.Tuple;
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import eu.eudat.models.data.helpers.common.AutoCompleteLookupItem;
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import eu.eudat.models.data.helpers.common.DataTableData;
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import eu.eudat.models.data.listingmodels.DataManagementPlanBlueprintListingModel;
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import eu.eudat.models.data.listingmodels.DataManagementPlanProfileListingModel;
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import eu.eudat.models.data.security.Principal;
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import eu.eudat.queryable.QueryableList;
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import eu.eudat.logic.services.ApiContext;
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import org.slf4j.Logger;
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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.core.env.Environment;
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import org.springframework.http.ResponseEntity;
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import org.springframework.stereotype.Component;
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import javax.activation.MimetypesFileTypeMap;
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import javax.xml.xpath.*;
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import java.io.*;
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import java.nio.file.Files;
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import java.util.*;
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import java.util.concurrent.CompletableFuture;
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import org.springframework.http.*;
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import org.springframework.web.client.RestTemplate;
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import org.springframework.web.multipart.MultipartFile;
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import org.w3c.dom.Document;
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import org.w3c.dom.Element;
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/**
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* Created by ikalyvas on 3/21/2018.
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*/
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@Component
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public class DataManagementProfileManager {
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private static final Logger logger = LoggerFactory.getLogger(DataManagementProfileManager.class);
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private ApiContext apiContext;
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private DatabaseRepository databaseRepository;
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private Environment environment;
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@Autowired
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public DataManagementProfileManager(ApiContext apiContext, Environment environment) {
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this.apiContext = apiContext;
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this.databaseRepository = apiContext.getOperationsContext().getDatabaseRepository();
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this.environment = environment;
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}
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public DataTableData<DataManagementPlanProfileListingModel> getPaged(DataManagementPlanProfileTableRequest dataManagementPlanProfileTableRequest, Principal principal) throws Exception {
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QueryableList<DMPProfile> items = apiContext.getOperationsContext().getDatabaseRepository().getDmpProfileDao().getWithCriteria(dataManagementPlanProfileTableRequest.getCriteria());
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QueryableList<DMPProfile> pagedItems = PaginationManager.applyPaging(items, dataManagementPlanProfileTableRequest);
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DataTableData<DataManagementPlanProfileListingModel> dataTable = new DataTableData<DataManagementPlanProfileListingModel>();
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CompletableFuture itemsFuture = pagedItems
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.selectAsync(item -> new DataManagementPlanProfileListingModel().fromDataModel(item)).whenComplete((resultList, throwable) -> {
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dataTable.setData(resultList);
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});
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CompletableFuture countFuture = items.countAsync().whenComplete((count, throwable) -> {
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dataTable.setTotalCount(count);
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});
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CompletableFuture.allOf(itemsFuture, countFuture).join();
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return dataTable;
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}
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public DataTableData<DataManagementPlanBlueprintListingModel> getPagedBlueprint(DataManagementPlanBlueprintTableRequest dataManagementPlanBlueprintTableRequest, Principal principal) throws Exception {
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QueryableList<DMPProfile> items = apiContext.getOperationsContext().getDatabaseRepository().getDmpProfileDao().getWithCriteriaBlueprint(dataManagementPlanBlueprintTableRequest.getCriteria());
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QueryableList<DMPProfile> pagedItems = PaginationManager.applyPaging(items, dataManagementPlanBlueprintTableRequest);
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DataTableData<DataManagementPlanBlueprintListingModel> dataTable = new DataTableData<>();
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CompletableFuture itemsFuture = pagedItems
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.selectAsync(item -> new DataManagementPlanBlueprintListingModel().fromDataModel(item)).whenComplete((resultList, throwable) -> dataTable.setData(resultList));
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CompletableFuture countFuture = items.countAsync().whenComplete((count, throwable) -> dataTable.setTotalCount(count));
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CompletableFuture.allOf(itemsFuture, countFuture).join();
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return dataTable;
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}
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public DataManagementPlanProfileListingModel getSingle(String id, Principal principal) throws InstantiationException, IllegalAccessException {
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DMPProfile dmpProfile = databaseRepository.getDmpProfileDao().find(UUID.fromString(id));
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DataManagementPlanProfileListingModel dataManagementPlanProfileListingModel = new DataManagementPlanProfileListingModel();
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dataManagementPlanProfileListingModel.fromDataModel(dmpProfile);
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return dataManagementPlanProfileListingModel;
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}
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public DataManagementPlanBlueprintListingModel getSingleBlueprint(String id, Principal principal) {
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DMPProfile dmpProfile = databaseRepository.getDmpProfileDao().find(UUID.fromString(id));
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DataManagementPlanBlueprintListingModel dataManagementPlanBlueprintListingModel = new DataManagementPlanBlueprintListingModel();
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dataManagementPlanBlueprintListingModel.fromDataModel(dmpProfile);
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return dataManagementPlanBlueprintListingModel;
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}
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public boolean fieldInBlueprint(String id, SystemFieldType type, Principal principal) {
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DMPProfile dmpProfile = databaseRepository.getDmpProfileDao().find(UUID.fromString(id));
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return this.fieldInBlueprint(dmpProfile, type, principal);
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}
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public boolean fieldInBlueprint(DMPProfile dmpProfile, SystemFieldType type, Principal principal) {
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DataManagementPlanBlueprintListingModel dmpBlueprint = new DataManagementPlanBlueprintListingModel();
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dmpBlueprint.fromDataModel(dmpProfile);
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for(Section section: dmpBlueprint.getDefinition().getSections()){
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for(FieldModel field: section.getFields()){
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if(field.getCategory().equals(FieldCategory.SYSTEM)){
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SystemField systemField = field.toSystemField();
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if(systemField.getType().equals(type)){
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return true;
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}
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}
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}
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}
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return false;
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}
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public List<Integer> sectionIndexesForDescriptionTemplate(DMPProfile dmpProfile, UUID descriptionTemplateId) {
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DataManagementPlanBlueprintListingModel dmpBlueprint = new DataManagementPlanBlueprintListingModel();
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dmpBlueprint.fromDataModel(dmpProfile);
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List<Integer> sectionIndexes = new ArrayList<>();
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for(int i = 0; i < dmpBlueprint.getDefinition().getSections().size(); i++) {
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Section section = dmpBlueprint.getDefinition().getSections().get(i);
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if(section.getHasTemplates() && section.getDescriptionTemplates().stream().anyMatch(x -> x.getDescriptionTemplateId().equals(descriptionTemplateId))) sectionIndexes.add(i);
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}
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return sectionIndexes;
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}
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public List<DataManagementPlanProfileListingModel> getWithCriteria(DataManagementPlanProfileCriteriaRequest dataManagementPlanProfileCriteriaRequest) throws IllegalAccessException, InstantiationException {
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QueryableList<DMPProfile> items = databaseRepository.getDmpProfileDao().getWithCriteria(dataManagementPlanProfileCriteriaRequest.getCriteria());
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List<DataManagementPlanProfileListingModel> datamanagementPlans = items.select(item -> new DataManagementPlanProfileListingModel().fromDataModel(item));
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return datamanagementPlans;
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}
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public void createOrUpdate(DataManagementPlanProfileListingModel dataManagementPlanProfileListingModel, Principal principal) throws Exception {
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DMPProfile dmpProfile = dataManagementPlanProfileListingModel.toDataModel();
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apiContext.getOperationsContext().getDatabaseRepository().getDmpProfileDao().createOrUpdate(dmpProfile);
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}
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public void createOrUpdateBlueprint(DataManagementPlanBlueprintListingModel dataManagementPlanBlueprintListingModel, Principal principal) throws Exception {
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DMPProfile dmpProfile = dataManagementPlanBlueprintListingModel.toDataModel();
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apiContext.getOperationsContext().getDatabaseRepository().getDmpProfileDao().createOrUpdate(dmpProfile);
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}
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public void inactivate(String id) {
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DMPProfile dmpProfile = databaseRepository.getDmpProfileDao().find(UUID.fromString(id));
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DataManagementPlanCriteria dataManagementPlanCriteria = new DataManagementPlanCriteria();
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dataManagementPlanCriteria.setProfile(dmpProfile);
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if (dmpProfile.getStatus() == DMPProfile.Status.SAVED.getValue() || databaseRepository.getDmpDao().getWithCriteria(dataManagementPlanCriteria).count() == 0) {
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dmpProfile.setStatus(DMPProfile.Status.DELETED.getValue());
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databaseRepository.getDmpProfileDao().createOrUpdate(dmpProfile);
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} else {
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throw new DmpBlueprintUsedException("This blueprint can not deleted, because DMPs are associated with it");
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}
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}
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public ResponseEntity<byte[]> getDocument(DataManagementPlanBlueprintListingModel dmpProfile) throws IOException {
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FileEnvelope envelope = getXmlDocument(dmpProfile);
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InputStream resource = new FileInputStream(envelope.getFile());
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logger.info("Mime Type of " + envelope.getFilename() + " is " +
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new MimetypesFileTypeMap().getContentType(envelope.getFile()));
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HttpHeaders responseHeaders = new HttpHeaders();
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responseHeaders.setContentLength(envelope.getFile().length());
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responseHeaders.setContentType(MediaType.APPLICATION_OCTET_STREAM);
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String fileName = envelope.getFilename().replace(" ", "_").replace(",", "_");
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responseHeaders.set("Content-Disposition", "attachment;filename=" + fileName + ".xml");
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responseHeaders.set("Access-Control-Expose-Headers", "Content-Disposition");
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responseHeaders.get("Access-Control-Expose-Headers").add("Content-Type");
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byte[] content = org.apache.poi.util.IOUtils.toByteArray(resource);
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resource.close();
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Files.deleteIfExists(envelope.getFile().toPath());
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return new ResponseEntity<>(content,
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responseHeaders,
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HttpStatus.OK);
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}
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public FileEnvelope getXmlDocument(DataManagementPlanBlueprintListingModel dmpProfile) throws IOException {
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ExportXmlBuilderDmpBlueprint xmlBuilder = new ExportXmlBuilderDmpBlueprint();
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File file = xmlBuilder.build(dmpProfile, environment);
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FileEnvelope fileEnvelope = new FileEnvelope();
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fileEnvelope.setFile(file);
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fileEnvelope.setFilename(dmpProfile.getLabel());
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return fileEnvelope;
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}
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public eu.eudat.logic.utilities.documents.xml.dmpXml.dmpBlueprintModel.DmpBlueprint createDmpProfileFromXml(MultipartFile multiPartFile) {
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ImportXmlBuilderDmpBlueprint xmlBuilder = new ImportXmlBuilderDmpBlueprint();
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try {
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return xmlBuilder.build(convert(multiPartFile));
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} catch (IOException e) {
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logger.error(e.getMessage(), e);
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}
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return null;
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}
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private File convert(MultipartFile file) throws IOException {
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File convFile = new File(this.environment.getProperty("temp.temp") + file.getOriginalFilename());
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convFile.createNewFile();
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FileOutputStream fos = new FileOutputStream(convFile);
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fos.write(file.getBytes());
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fos.close();
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return convFile;
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}
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public List<Tuple<String, String>> getExternalAutocomplete(RequestItem<AutoCompleteLookupItem> lookupItem) throws XPathExpressionException {
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DMPProfile dmpProfile = this.apiContext.getOperationsContext().getDatabaseRepository().getDmpProfileDao().find(UUID.fromString(lookupItem.getCriteria().getProfileID()));
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Field field = this.queryForField(dmpProfile.getDefinition(), lookupItem.getCriteria().getFieldID());
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DmpProfileExternalAutoComplete data = field.getExternalAutocomplete();
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return this.externalAutocompleteRequest(data, lookupItem.getCriteria().getLike());
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}
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private Field queryForField(String xml, String fieldId) throws XPathExpressionException {
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Field field = new Field();
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Document document = XmlBuilder.fromXml(xml);
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XPathFactory xpathFactory = XPathFactory.newInstance();
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XPath xpath = xpathFactory.newXPath();
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XPathExpression expr = xpath.compile("//field[@id='" + fieldId + "']");
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Element name = (Element) expr.evaluate(document, XPathConstants.NODE);
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field.fromXml(name);
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return field;
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}
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private List<Tuple<String, String>> externalAutocompleteRequest(DmpProfileExternalAutoComplete data, String like) {
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return externalAutocompleteRequest(data.getUrl(), data.getOptionsRoot(), data.getLabel(), data.getValue(), like);
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}
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public static List<Tuple<String, String>> externalAutocompleteRequest(String url, String optionsRoot, String label, String value, String like) {
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List<Tuple<String, String>> result = new LinkedList<>();
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RestTemplate restTemplate = new RestTemplate();
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HttpHeaders headers = new HttpHeaders();
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headers.setAccept(Collections.singletonList(MediaType.valueOf("application/vnd.api+json; charset=utf-8")));
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headers.setContentType(MediaType.APPLICATION_JSON);
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HttpEntity<String> entity = new HttpEntity<>("parameters", headers);
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ResponseEntity<Object> response = restTemplate.exchange(url + "?search=" + like, HttpMethod.GET, entity, Object.class);
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DocumentContext jsonContext = JsonPath.parse(response.getBody());
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List<Map<String, String>> jsonItems = jsonContext.read(optionsRoot + "['" + label + "','" + value + "']");
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jsonItems.forEach(item -> result.add(new Tuple<>(item.get(value), item.get(label))));
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return result;
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}
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}
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