579 lines
31 KiB
Java
579 lines
31 KiB
Java
package eu.eudat.logic.managers;
|
|
|
|
import eu.eudat.data.dao.criteria.*;
|
|
import eu.eudat.data.dao.entities.*;
|
|
import eu.eudat.data.entities.*;
|
|
import eu.eudat.data.query.items.table.dataset.DatasetPublicTableRequest;
|
|
import eu.eudat.data.query.items.table.dataset.DatasetTableRequest;
|
|
import eu.eudat.elastic.criteria.DatasetCriteria;
|
|
import eu.eudat.elastic.repository.DatasetRepository;
|
|
import eu.eudat.logic.builders.BuilderFactory;
|
|
import eu.eudat.logic.builders.entity.UserInfoBuilder;
|
|
import eu.eudat.logic.services.ApiContext;
|
|
import eu.eudat.logic.services.forms.VisibilityRuleService;
|
|
import eu.eudat.logic.services.operations.DatabaseRepository;
|
|
import eu.eudat.logic.utilities.documents.helpers.FileEnvelope;
|
|
import eu.eudat.logic.utilities.documents.types.ParagraphStyle;
|
|
import eu.eudat.logic.utilities.documents.word.WordBuilder;
|
|
import eu.eudat.logic.utilities.documents.xml.ExportXmlBuilder;
|
|
import eu.eudat.models.HintedModelFactory;
|
|
import eu.eudat.models.data.datasetImport.*;
|
|
import eu.eudat.models.data.datasetwizard.DatasetWizardModel;
|
|
import eu.eudat.models.data.dmp.AssociatedProfile;
|
|
import eu.eudat.models.data.helpers.common.DataTableData;
|
|
import eu.eudat.models.data.listingmodels.DatasetListingModel;
|
|
import eu.eudat.models.data.security.Principal;
|
|
import eu.eudat.models.data.user.composite.DatasetProfilePage;
|
|
import eu.eudat.models.data.user.composite.PagedDatasetProfile;
|
|
import eu.eudat.queryable.QueryableList;
|
|
import org.apache.commons.io.IOUtils;
|
|
import org.apache.poi.xwpf.usermodel.XWPFDocument;
|
|
import org.json.JSONObject;
|
|
import org.springframework.beans.factory.annotation.Autowired;
|
|
import org.springframework.core.env.Environment;
|
|
import org.springframework.core.io.FileSystemResource;
|
|
import org.springframework.http.*;
|
|
import org.springframework.http.converter.ByteArrayHttpMessageConverter;
|
|
import org.springframework.http.converter.HttpMessageConverter;
|
|
import org.springframework.http.converter.json.MappingJackson2HttpMessageConverter;
|
|
import org.springframework.stereotype.Component;
|
|
import org.springframework.util.LinkedMultiValueMap;
|
|
import org.springframework.web.client.RestTemplate;
|
|
|
|
import javax.activation.MimetypesFileTypeMap;
|
|
import javax.mail.Multipart;
|
|
import javax.xml.bind.JAXBContext;
|
|
import javax.xml.bind.JAXBException;
|
|
import javax.xml.bind.Unmarshaller;
|
|
|
|
import org.springframework.web.multipart.MultipartFile;
|
|
import java.io.*;
|
|
import java.math.BigInteger;
|
|
import java.net.URL;
|
|
import java.nio.file.Files;
|
|
import java.nio.file.Paths;
|
|
import java.util.*;
|
|
import java.util.concurrent.CompletableFuture;
|
|
import java.util.stream.Collectors;
|
|
import java.util.stream.Stream;
|
|
import java.util.zip.ZipEntry;
|
|
import java.util.zip.ZipInputStream;
|
|
|
|
@Component
|
|
public class DatasetManager {
|
|
|
|
private ApiContext apiContext;
|
|
private DatabaseRepository databaseRepository;
|
|
private DatasetRepository datasetRepository;
|
|
private BuilderFactory builderFactory;
|
|
private UserManager userManager;
|
|
|
|
@Autowired
|
|
public DatasetManager(ApiContext apiContext, UserManager userManager) {
|
|
this.apiContext = apiContext;
|
|
this.databaseRepository = apiContext.getOperationsContext().getDatabaseRepository();
|
|
this.datasetRepository = apiContext.getOperationsContext().getDatasetRepository();
|
|
this.builderFactory = apiContext.getOperationsContext().getBuilderFactory();
|
|
this.userManager = userManager;
|
|
}
|
|
|
|
public DataTableData<DatasetListingModel> getPaged(DatasetTableRequest datasetTableRequest, Principal principal) throws Exception {
|
|
DatasetCriteria datasetCriteria = new DatasetCriteria();
|
|
datasetCriteria.setTags(datasetTableRequest.getCriteria().getTags());
|
|
List<eu.eudat.elastic.entities.Dataset> datasets;
|
|
try {
|
|
datasets = datasetCriteria.getTags() != null && datasetCriteria.getTags().size() > 0 && datasetRepository.exists() ?
|
|
datasetRepository.query(datasetCriteria) : new LinkedList<>();
|
|
}
|
|
catch (Exception ex){
|
|
datasets = null;
|
|
}
|
|
|
|
UserInfo userInfo = builderFactory.getBuilder(UserInfoBuilder.class).id(principal.getId()).build();
|
|
QueryableList<eu.eudat.data.entities.Dataset> items = databaseRepository.getDatasetDao().getWithCriteria(datasetTableRequest.getCriteria()).withHint(HintedModelFactory.getHint(DatasetListingModel.class));
|
|
if (datasets != null && datasetTableRequest.getCriteria().getTags() != null && !datasetTableRequest.getCriteria().getTags().isEmpty()) {
|
|
if (!datasets.isEmpty()){
|
|
List<eu.eudat.elastic.entities.Dataset> finalDatasets = datasets;
|
|
items.where((builder, root) -> root.get("id").in(finalDatasets.stream().map(x -> UUID.fromString(x.getId())).collect(Collectors.toList())));
|
|
}
|
|
else
|
|
items.where((builder, root) -> root.get("id").in(new UUID[]{UUID.randomUUID()}));
|
|
}
|
|
QueryableList<eu.eudat.data.entities.Dataset> authItems = databaseRepository.getDatasetDao().getAuthenticated(items, userInfo);
|
|
QueryableList<eu.eudat.data.entities.Dataset> pagedItems = PaginationManager.applyPaging(authItems, datasetTableRequest);
|
|
DataTableData<DatasetListingModel> dataTable = new DataTableData<DatasetListingModel>();
|
|
|
|
|
|
CompletableFuture<List<DatasetListingModel>> itemsFuture = pagedItems.
|
|
selectAsync(item -> new DatasetListingModel().fromDataModel(item)).whenComplete((resultList, throwable) -> {
|
|
dataTable.setData(resultList);
|
|
});
|
|
|
|
CompletableFuture countFuture = authItems.countAsync().whenComplete((count, throwable) -> {
|
|
dataTable.setTotalCount(count);
|
|
});
|
|
|
|
CompletableFuture.allOf(itemsFuture, countFuture).join();
|
|
return dataTable;
|
|
}
|
|
|
|
public DataTableData<DatasetListingModel> getPaged(DatasetPublicTableRequest datasetTableRequest, Principal principal) throws Exception {
|
|
DatasetCriteria datasetCriteria = new DatasetCriteria();
|
|
datasetCriteria.setTags(datasetTableRequest.getCriteria().getTags());
|
|
List<eu.eudat.elastic.entities.Dataset> datasets;
|
|
try{
|
|
datasets = datasetCriteria.getTags() != null && datasetCriteria.getTags().size() > 0 && datasetRepository.exists() ?
|
|
datasetRepository.query(datasetCriteria) : new LinkedList<>();
|
|
}
|
|
catch (Exception ex){
|
|
datasets = null;
|
|
}
|
|
datasetTableRequest.setQuery(databaseRepository.getDatasetDao().asQueryable().withHint(HintedModelFactory.getHint(DatasetListingModel.class)));
|
|
QueryableList<Dataset> items = datasetTableRequest.applyCriteria();
|
|
if (datasets != null && datasetTableRequest.getCriteria().getTags() != null && !datasetTableRequest.getCriteria().getTags().isEmpty()) {
|
|
if (!datasets.isEmpty()) {
|
|
List<eu.eudat.elastic.entities.Dataset> finalDatasets = datasets;
|
|
items.where((builder, root) -> root.get("id").in(finalDatasets.stream().map(x -> UUID.fromString(x.getId())).collect(Collectors.toList())));
|
|
}
|
|
else
|
|
items.where((builder, root) -> root.get("id").in(new UUID[]{UUID.randomUUID()}));
|
|
}
|
|
QueryableList<eu.eudat.data.entities.Dataset> pagedItems = PaginationManager.applyPaging(items, datasetTableRequest);
|
|
DataTableData<DatasetListingModel> dataTable = new DataTableData<>();
|
|
|
|
CompletableFuture<List<DatasetListingModel>> itemsFuture = pagedItems.
|
|
selectAsync(item -> new DatasetListingModel().fromDataModel(item)).whenComplete((resultList, throwable) -> {
|
|
dataTable.setData(resultList);
|
|
});
|
|
|
|
CompletableFuture countFuture = pagedItems.countAsync().whenComplete((count, throwable) -> {
|
|
dataTable.setTotalCount(count);
|
|
});
|
|
|
|
CompletableFuture.allOf(itemsFuture, countFuture).join();
|
|
return dataTable;
|
|
}
|
|
|
|
public DatasetWizardModel getSingle(String id) throws InstantiationException, IllegalAccessException, IOException {
|
|
DatasetWizardModel dataset = new DatasetWizardModel();
|
|
eu.eudat.data.entities.Dataset datasetEntity = databaseRepository.getDatasetDao().find(UUID.fromString(id), HintedModelFactory.getHint(DatasetWizardModel.class));
|
|
eu.eudat.elastic.entities.Dataset datasetElastic;
|
|
try{
|
|
datasetElastic = datasetRepository.exists() ?
|
|
datasetRepository.findDocument(id) : new eu.eudat.elastic.entities.Dataset();
|
|
}
|
|
catch (Exception ex){
|
|
datasetElastic = new eu.eudat.elastic.entities.Dataset();
|
|
}
|
|
dataset.setDatasetProfileDefinition(getPagedProfile(dataset, datasetEntity));
|
|
dataset.fromDataModel(datasetEntity);
|
|
|
|
// Creates the Criteria to get all version of DatasetProfile in question.
|
|
DatasetProfileCriteria profileCriteria = new DatasetProfileCriteria();
|
|
UUID profileId = datasetEntity.getProfile().getGroupId();
|
|
List<UUID> uuidList = new LinkedList<>();
|
|
uuidList.add(profileId);
|
|
profileCriteria.setGroupIds(uuidList);
|
|
profileCriteria.setAllVersions(true);
|
|
|
|
List<eu.eudat.data.entities.DatasetProfile> profileVersions = databaseRepository.getDatasetProfileDao().getWithCriteria(profileCriteria)
|
|
.orderBy(((builder, root) -> builder.desc(root.get("version"))))
|
|
.toList();
|
|
List<DatasetProfile> profileVersionsIncluded = new LinkedList<>();
|
|
|
|
// Iterate through the versions and remove those that are not included in the DMP of the dataset in question.
|
|
for(DatasetProfile version : profileVersions) {
|
|
for(AssociatedProfile p : dataset.getDmp().getProfiles()){
|
|
if(version.getId().toString().equals(p.getId().toString())) {
|
|
profileVersionsIncluded.add(version);
|
|
}
|
|
}
|
|
}
|
|
|
|
// Sort the list with the included Versions.
|
|
Stream<DatasetProfile> sorted = profileVersionsIncluded.stream().sorted(Comparator.comparing(DatasetProfile::getVersion).reversed());
|
|
|
|
// Make the Stream into List and get the first item.
|
|
DatasetProfile profile = sorted.collect(Collectors.toList()).iterator().next();
|
|
|
|
// Check if the dataset is on the latest Version.
|
|
boolean latestVersion = profile.getVersion().toString().equals(datasetEntity.getProfile().getVersion().toString());
|
|
dataset.setIsProfileLatestVersion(latestVersion);
|
|
|
|
dataset.setTags(datasetElastic.getTags());
|
|
return dataset;
|
|
}
|
|
|
|
public DatasetWizardModel getSinglePublic(String id) throws Exception {
|
|
DatasetWizardModel dataset = new DatasetWizardModel();
|
|
eu.eudat.data.entities.Dataset datasetEntity = databaseRepository.getDatasetDao().isPublicDataset(UUID.fromString(id));
|
|
|
|
if (datasetEntity != null && datasetEntity.getStatus() == 1 && datasetEntity.getDmp().getStatus() == 1){
|
|
dataset.setDatasetProfileDefinition(getPagedProfile(dataset, datasetEntity));
|
|
dataset.fromDataModel(datasetEntity);
|
|
return dataset;
|
|
}
|
|
else {
|
|
throw new Exception("Selected dataset is not public");
|
|
}
|
|
}
|
|
|
|
public PagedDatasetProfile getPagedProfile(DatasetWizardModel dataset, eu.eudat.data.entities.Dataset datasetEntity) {
|
|
eu.eudat.models.data.user.composite.DatasetProfile datasetprofile = userManager.generateDatasetProfileModel(datasetEntity.getProfile());
|
|
datasetprofile.setStatus(dataset.getStatus());
|
|
if (datasetEntity.getProperties() != null) {
|
|
JSONObject jobject = new JSONObject(datasetEntity.getProperties());
|
|
Map<String, Object> properties = jobject.toMap();
|
|
datasetprofile.fromJsonObject(properties);
|
|
}
|
|
PagedDatasetProfile pagedDatasetProfile = new PagedDatasetProfile();
|
|
pagedDatasetProfile.buildPagedDatasetProfile(datasetprofile);
|
|
return pagedDatasetProfile;
|
|
}
|
|
|
|
public File getWordDocument(Environment environment, String id, VisibilityRuleService visibilityRuleService) throws InstantiationException, IllegalAccessException, IOException {
|
|
WordBuilder wordBuilder = new WordBuilder();
|
|
DatasetWizardModel dataset = new DatasetWizardModel();
|
|
String fileUrl = environment.getProperty("configuration.h2020template");
|
|
InputStream is = new URL(Paths.get(fileUrl).toUri().toURL().toString()).openStream();
|
|
XWPFDocument document = new XWPFDocument(is);
|
|
eu.eudat.data.entities.Dataset datasetEntity = databaseRepository.getDatasetDao().find(UUID.fromString(id), HintedModelFactory.getHint(DatasetWizardModel.class));
|
|
wordBuilder.addParagraphContent(datasetEntity.getLabel(), document, ParagraphStyle.TITLE, BigInteger.ZERO);
|
|
Map<String, Object> properties = new HashMap<>();
|
|
if (datasetEntity.getProperties() != null) {
|
|
JSONObject jobject = new JSONObject(datasetEntity.getProperties());
|
|
properties = jobject.toMap();
|
|
}
|
|
PagedDatasetProfile pagedDatasetProfile = getPagedProfile(dataset, datasetEntity);
|
|
visibilityRuleService.setProperties(properties);
|
|
visibilityRuleService.buildVisibilityContext(pagedDatasetProfile.getRules());
|
|
wordBuilder.build(document, pagedDatasetProfile, visibilityRuleService);
|
|
String label = datasetEntity.getLabel().replaceAll("[^a-zA-Z0-9+ ]", "");
|
|
File exportFile = new File(environment.getProperty("configuration.exportUrl") + label + ".docx");
|
|
FileOutputStream out = new FileOutputStream(exportFile);
|
|
document.write(out);
|
|
out.close();
|
|
return exportFile;
|
|
}
|
|
|
|
public FileEnvelope getXmlDocument(String id, VisibilityRuleService visibilityRuleService) throws InstantiationException, IllegalAccessException, IOException {
|
|
ExportXmlBuilder xmlBuilder = new ExportXmlBuilder();
|
|
DatasetWizardModel dataset = new DatasetWizardModel();
|
|
eu.eudat.data.entities.Dataset datasetEntity = databaseRepository.getDatasetDao().find(UUID.fromString(id), HintedModelFactory.getHint(DatasetWizardModel.class));
|
|
Map<String, Object> properties = new HashMap<>();
|
|
if (datasetEntity.getProperties() != null) {
|
|
JSONObject jobject = new JSONObject(datasetEntity.getProperties());
|
|
properties = jobject.toMap();
|
|
}
|
|
PagedDatasetProfile pagedDatasetProfile = getPagedProfile(dataset, datasetEntity);
|
|
visibilityRuleService.setProperties(properties);
|
|
visibilityRuleService.buildVisibilityContext(pagedDatasetProfile.getRules());
|
|
File file = xmlBuilder.build(pagedDatasetProfile, datasetEntity.getProfile().getId(), visibilityRuleService);
|
|
FileEnvelope fileEnvelope = new FileEnvelope();
|
|
fileEnvelope.setFile(file);
|
|
fileEnvelope.setFilename(datasetEntity.getLabel());
|
|
return fileEnvelope;
|
|
}
|
|
|
|
public File convertToPDF(File file, Environment environment, String label) throws IOException, InterruptedException {
|
|
LinkedMultiValueMap<String, Object> map = new LinkedMultiValueMap<>();
|
|
map.add("files", new FileSystemResource(file));
|
|
map.add("filename", label + ".pdf");
|
|
HttpHeaders headers = new HttpHeaders();
|
|
headers.setContentType(MediaType.MULTIPART_FORM_DATA);
|
|
headers.add("Content-disposition", "attachment; filename=" + label + ".pdf");
|
|
headers.add("Content-type", "application/pdf");
|
|
|
|
HttpEntity<LinkedMultiValueMap<String, Object>> requestEntity = new HttpEntity<LinkedMultiValueMap<String, Object>>(
|
|
map, headers);
|
|
|
|
byte[] queueResult = new RestTemplate().postForObject(environment.getProperty("pdf.converter.url") + "convert/office"
|
|
, requestEntity, byte[].class);
|
|
|
|
File resultPdf = new File(environment.getProperty("configuration.exportUrl") + label + ".pdf");
|
|
FileOutputStream output = new FileOutputStream(resultPdf);
|
|
IOUtils.write(queueResult, output);
|
|
|
|
return resultPdf;
|
|
}
|
|
|
|
private File extractFromZip(File file, String filename) throws IOException {
|
|
byte[] buffer = new byte[1024];
|
|
File newFile = new File(filename);
|
|
ZipInputStream zis = new ZipInputStream(new FileInputStream(file));
|
|
ZipEntry zipEntry = zis.getNextEntry();
|
|
while (zipEntry != null) {
|
|
String zippedFileName = zipEntry.getName();
|
|
if (zippedFileName.equals("pdf")) {
|
|
|
|
FileOutputStream fos = new FileOutputStream(newFile);
|
|
int len;
|
|
while ((len = zis.read(buffer)) > 0) {
|
|
fos.write(buffer, 0, len);
|
|
}
|
|
fos.close();
|
|
zipEntry = zis.getNextEntry();
|
|
}
|
|
}
|
|
zis.closeEntry();
|
|
zis.close();
|
|
return newFile;
|
|
}
|
|
|
|
public eu.eudat.data.entities.Dataset createOrUpdate(DatasetWizardModel datasetWizardModel, Principal principal) throws Exception {
|
|
eu.eudat.data.entities.Dataset dataset = datasetWizardModel.toDataModel();
|
|
propertiesModelToString(datasetWizardModel, dataset);
|
|
UserInfo userInfo = apiContext.getOperationsContext().getBuilderFactory().getBuilder(UserInfoBuilder.class).id(principal.getId()).build();
|
|
dataset.setCreator(userInfo);
|
|
updateTags(apiContext.getOperationsContext().getDatasetRepository(), datasetWizardModel);
|
|
createRegistriesIfTheyDontExist(apiContext.getOperationsContext().getDatabaseRepository().getRegistryDao(), dataset);
|
|
createDataRepositoriesIfTheyDontExist(apiContext.getOperationsContext().getDatabaseRepository().getDataRepositoryDao(), dataset);
|
|
createServicesIfTheyDontExist(dataset);
|
|
createExternalDatasetsIfTheyDontExist(dataset);
|
|
return apiContext.getOperationsContext().getDatabaseRepository().getDatasetDao().createOrUpdate(dataset);
|
|
}
|
|
|
|
private void propertiesModelToString(DatasetWizardModel datasetWizardModel, eu.eudat.data.entities.Dataset dataset) {
|
|
Map<String, Object> values = new HashMap();
|
|
PagedDatasetProfile properties = datasetWizardModel.getDatasetProfileDefinition();
|
|
properties.toMap(values);
|
|
JSONObject jobject = new JSONObject(values);
|
|
dataset.setProperties(jobject.toString());
|
|
}
|
|
|
|
private void updateTags(DatasetRepository datasetRepository, DatasetWizardModel datasetWizardModel) throws IOException {
|
|
if (datasetWizardModel.getTags() != null && !datasetWizardModel.getTags().isEmpty()) {
|
|
eu.eudat.elastic.entities.Dataset dataset = new eu.eudat.elastic.entities.Dataset();
|
|
dataset.setId(datasetWizardModel.getId().toString());
|
|
dataset.setTags(datasetWizardModel.getTags());
|
|
datasetRepository.createOrUpdate(dataset);
|
|
}
|
|
}
|
|
|
|
private void createRegistriesIfTheyDontExist(RegistryDao registryDao, eu.eudat.data.entities.Dataset dataset) {
|
|
if (dataset.getRegistries() != null && !dataset.getRegistries().isEmpty()) {
|
|
for (eu.eudat.data.entities.Registry registry : dataset.getRegistries()) {
|
|
RegistryCriteria criteria = new RegistryCriteria();
|
|
criteria.setLike(registry.getReference());
|
|
List<eu.eudat.data.entities.Registry> entries = registryDao.getWithCriteria(criteria).toList();
|
|
if (entries != null && !entries.isEmpty()) registry.setId(entries.get(0).getId());
|
|
else registry = registryDao.createOrUpdate(registry);
|
|
}
|
|
}
|
|
}
|
|
|
|
private void createDataRepositoriesIfTheyDontExist(DataRepositoryDao dataRepositoryDao, eu.eudat.data.entities.Dataset dataset) {
|
|
Set<DatasetDataRepository> datasetDataRepositories = dataset.getDatasetDataRepositories();
|
|
dataset.setDatasetDataRepositories(new HashSet<>());
|
|
|
|
if (datasetDataRepositories != null && !datasetDataRepositories.isEmpty()) {
|
|
for (eu.eudat.data.entities.DatasetDataRepository datasetDataRepository : datasetDataRepositories) {
|
|
DataRepositoryCriteria criteria = new DataRepositoryCriteria();
|
|
criteria.setLike(datasetDataRepository.getDataRepository().getReference());
|
|
List<eu.eudat.data.entities.DataRepository> entries = dataRepositoryDao.getWithCriteria(criteria).toList();
|
|
if (entries != null && !entries.isEmpty()) {
|
|
datasetDataRepository.getDataRepository().setId(entries.get(0).getId());
|
|
datasetDataRepository.setDataset(dataset);
|
|
dataset.getDatasetDataRepositories().add(datasetDataRepository);
|
|
} else {
|
|
//datasetDataRepository.getDataRepository().setId(UUID.randomUUID());
|
|
DataRepository dataRepository = dataRepositoryDao.createOrUpdate(datasetDataRepository.getDataRepository());
|
|
datasetDataRepository.setDataRepository(dataRepository);
|
|
dataset.getDatasetDataRepositories().add(datasetDataRepository);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
|
|
private void createServicesIfTheyDontExist(eu.eudat.data.entities.Dataset dataset) {
|
|
Set<DatasetService> services = dataset.getServices();
|
|
dataset.setServices(new HashSet<>());
|
|
if (services != null && !services.isEmpty()) {
|
|
for (eu.eudat.data.entities.DatasetService datasetService : services) {
|
|
ServiceCriteria criteria = new ServiceCriteria();
|
|
criteria.setLike(datasetService.getService().getLabel());
|
|
List<eu.eudat.data.entities.Service> entries = databaseRepository.getServiceDao().getWithCriteria(criteria).toList();
|
|
if (entries != null && !entries.isEmpty()) {
|
|
datasetService.getService().setId(entries.get(0).getId());
|
|
datasetService.setDataset(dataset);
|
|
dataset.getServices().add(datasetService);
|
|
} else {
|
|
Service service = databaseRepository.getServiceDao().createOrUpdate(datasetService.getService());
|
|
datasetService.setService(service);
|
|
dataset.getServices().add(datasetService);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
|
|
private void createExternalDatasetsIfTheyDontExist(eu.eudat.data.entities.Dataset dataset) {
|
|
Set<DatasetExternalDataset> externalDatasets = dataset.getDatasetExternalDatasets();
|
|
dataset.setDatasetExternalDatasets(new HashSet<>());
|
|
if (externalDatasets != null && !externalDatasets.isEmpty()) {
|
|
for (eu.eudat.data.entities.DatasetExternalDataset datasetExternalDataset : externalDatasets) {
|
|
ExternalDatasetCriteria criteria = new ExternalDatasetCriteria();
|
|
criteria.setLike(datasetExternalDataset.getExternalDataset().getLabel());
|
|
List<eu.eudat.data.entities.ExternalDataset> entries = databaseRepository.getExternalDatasetDao().getWithCriteria(criteria).toList();
|
|
if (entries != null && !entries.isEmpty()) {
|
|
datasetExternalDataset.getExternalDataset().setId(entries.get(0).getId());
|
|
datasetExternalDataset.setDataset(dataset);
|
|
dataset.getDatasetExternalDatasets().add(datasetExternalDataset);
|
|
} else {
|
|
ExternalDataset externalDataset = databaseRepository.getExternalDatasetDao().createOrUpdate(datasetExternalDataset.getExternalDataset());
|
|
datasetExternalDataset.setExternalDataset(externalDataset);
|
|
dataset.getDatasetExternalDatasets().add(datasetExternalDataset);
|
|
}
|
|
}
|
|
}
|
|
}
|
|
|
|
public void makePublic(DatasetDao datasetDao, UUID id) throws Exception {
|
|
eu.eudat.data.entities.Dataset dataset = datasetDao.find(id);
|
|
if (dataset.getStatus() != eu.eudat.data.entities.Dataset.Status.FINALISED.getValue())
|
|
throw new Exception("You cannot make public a Dataset That Has not Been Finalised");
|
|
datasetDao.createOrUpdate(dataset);
|
|
}
|
|
|
|
public ResponseEntity<byte[]> getDocument(String id, VisibilityRuleService visibilityRuleService, String contentType) throws IllegalAccessException, IOException, InstantiationException {
|
|
FileEnvelope envelope = getXmlDocument(id, visibilityRuleService);
|
|
InputStream resource = new FileInputStream(envelope.getFile());
|
|
System.out.println("Mime Type of " + envelope.getFilename() + " is " +
|
|
new MimetypesFileTypeMap().getContentType(envelope.getFile()));
|
|
HttpHeaders responseHeaders = new HttpHeaders();
|
|
responseHeaders.setContentLength(envelope.getFile().length());
|
|
responseHeaders.setContentType(MediaType.APPLICATION_OCTET_STREAM);
|
|
responseHeaders.set("Content-Disposition", "attachment;filename=" + envelope.getFilename() + ".xml");
|
|
responseHeaders.set("Access-Control-Expose-Headers", "Content-Disposition");
|
|
responseHeaders.get("Access-Control-Expose-Headers").add("Content-Type");
|
|
|
|
byte[] content = org.apache.poi.util.IOUtils.toByteArray(resource);
|
|
resource.close();
|
|
Files.deleteIfExists(envelope.getFile().toPath());
|
|
|
|
return new ResponseEntity<>(content,
|
|
responseHeaders,
|
|
HttpStatus.OK);
|
|
}
|
|
|
|
public eu.eudat.data.entities.Dataset createDatasetFromXml(MultipartFile importFile, String dmpId, String datasetProfileId, Principal principal) throws JAXBException, IOException {
|
|
DatasetImportPagedDatasetProfile importModel = new DatasetImportPagedDatasetProfile();
|
|
JAXBContext jaxbContext;
|
|
|
|
// Parses XML into DatasetImport Model.
|
|
try {
|
|
InputStream in = importFile.getInputStream();
|
|
jaxbContext = JAXBContext.newInstance(DatasetImportPagedDatasetProfile.class);
|
|
Unmarshaller jaxbUnmarshaller = jaxbContext.createUnmarshaller();
|
|
DatasetImportPagedDatasetProfile datasetImport = (DatasetImportPagedDatasetProfile)jaxbUnmarshaller.unmarshal(in);
|
|
importModel = datasetImport;
|
|
} catch (IOException e) {
|
|
e.printStackTrace();
|
|
}
|
|
|
|
// Checks if XML datasetProfileId GroupId matches the one selected.
|
|
try {
|
|
eu.eudat.data.entities.DatasetProfile importDatasetProfile = databaseRepository.getDatasetProfileDao().find(UUID.fromString(importModel.getDatasetProfileId()));
|
|
eu.eudat.data.entities.DatasetProfile latestVersionDatasetProfile = databaseRepository.getDatasetProfileDao().find(UUID.fromString(datasetProfileId));
|
|
if (latestVersionDatasetProfile.getGroupId() != importDatasetProfile.getGroupId()) {
|
|
throw new Exception();
|
|
}
|
|
} catch (Exception e) {
|
|
e.printStackTrace();
|
|
return null;
|
|
}
|
|
|
|
// Creates the Hash Map to place the values of the data set.
|
|
Map<String, String> importMap = importModel.getPages().stream()
|
|
.flatMap(s -> s.getSections().getSection().stream()
|
|
.flatMap(cFields -> cFields.getCompositeFields().stream()
|
|
.flatMap(cField -> cField.getCompositeField().stream()
|
|
.filter(Objects::nonNull)
|
|
.flatMap(fields -> fields.getFields().stream()
|
|
.flatMap(field -> field.getField().stream()
|
|
.filter(f -> f.getValue() != null)
|
|
)))))
|
|
.collect(Collectors.toMap(DatasetImportField::getId, DatasetImportField::getValue));
|
|
|
|
// Transforms map into json file.
|
|
JSONObject jsonDatasetProperties = new JSONObject(importMap);
|
|
|
|
// Creates the entity data set to save.
|
|
eu.eudat.data.entities.Dataset entity = new Dataset();
|
|
entity.setProperties(jsonDatasetProperties.toString());
|
|
entity.setLabel(importFile.getOriginalFilename());
|
|
DMP dmp = new DMP();
|
|
dmp.setId(UUID.fromString(dmpId));
|
|
entity.setDmp(dmp);
|
|
entity.setStatus((short) 0);
|
|
entity.setPublic(false);
|
|
entity.setCreated(new Date());
|
|
entity.setModified(new Date());
|
|
DatasetProfile profile = new DatasetProfile();
|
|
profile.setId(UUID.fromString(datasetProfileId));
|
|
entity.setProfile(profile);
|
|
|
|
UserInfo userInfo = apiContext.getOperationsContext().getBuilderFactory().getBuilder(UserInfoBuilder.class).id(principal.getId()).build();
|
|
entity.setCreator(userInfo);
|
|
|
|
updateTagsXmlImportDataset(apiContext.getOperationsContext().getDatasetRepository(), entity);
|
|
createRegistriesIfTheyDontExist(apiContext.getOperationsContext().getDatabaseRepository().getRegistryDao(), entity);
|
|
createDataRepositoriesIfTheyDontExist(apiContext.getOperationsContext().getDatabaseRepository().getDataRepositoryDao(), entity);
|
|
createServicesIfTheyDontExist(entity);
|
|
createExternalDatasetsIfTheyDontExist(entity);
|
|
|
|
return apiContext.getOperationsContext().getDatabaseRepository().getDatasetDao().createOrUpdate(entity);
|
|
}
|
|
|
|
public void updateTagsXmlImportDataset(DatasetRepository datasetRepository, Dataset dataset) throws IOException {
|
|
// TODO: When tags functionality return.
|
|
}
|
|
|
|
public DatasetWizardModel datasetUpdateProfile(String id) {
|
|
DatasetWizardModel dataset = new DatasetWizardModel();
|
|
eu.eudat.data.entities.Dataset datasetEntity = databaseRepository.getDatasetDao().find(UUID.fromString(id), HintedModelFactory.getHint(DatasetWizardModel.class));
|
|
eu.eudat.elastic.entities.Dataset datasetElastic;
|
|
try{
|
|
datasetElastic = datasetRepository.exists() ?
|
|
datasetRepository.findDocument(id) : new eu.eudat.elastic.entities.Dataset();
|
|
}
|
|
catch (Exception ex){
|
|
datasetElastic = new eu.eudat.elastic.entities.Dataset();
|
|
}
|
|
dataset.setDatasetProfileDefinition(getPagedProfile(dataset, datasetEntity));
|
|
dataset.fromDataModel(datasetEntity);
|
|
|
|
// Creates the Criteria to get all version of DatasetProfile in question.
|
|
DatasetProfileCriteria profileCriteria = new DatasetProfileCriteria();
|
|
UUID profileId = datasetEntity.getProfile().getGroupId();
|
|
List<UUID> uuidList = new LinkedList<>();
|
|
uuidList.add(profileId);
|
|
profileCriteria.setGroupIds(uuidList);
|
|
|
|
// Gets the latest version of the datasetProfile.
|
|
eu.eudat.data.entities.DatasetProfile item = databaseRepository.getDatasetProfileDao().getWithCriteria(profileCriteria).getSingle();
|
|
|
|
// Sets the latest version of dataet Profile to the Dataset in question.
|
|
dataset.setDatasetProfileDefinition(getLatestDatasetProfile(datasetEntity, item));
|
|
dataset.setProfile(item.getId());
|
|
|
|
// Now at latest version.
|
|
dataset.setIsProfileLatestVersion(true);
|
|
|
|
dataset.setTags(datasetElastic.getTags());
|
|
return dataset;
|
|
}
|
|
|
|
public PagedDatasetProfile getLatestDatasetProfile(Dataset datasetEntity, DatasetProfile profile) {
|
|
eu.eudat.models.data.user.composite.DatasetProfile datasetprofile = userManager.generateDatasetProfileModel(profile);
|
|
datasetprofile.setStatus(datasetEntity.getStatus());
|
|
if (datasetEntity.getProperties() != null) {
|
|
JSONObject jobject = new JSONObject(datasetEntity.getProperties());
|
|
Map<String, Object> properties = jobject.toMap();
|
|
datasetprofile.fromJsonObject(properties);
|
|
}
|
|
PagedDatasetProfile pagedDatasetProfile = new PagedDatasetProfile();
|
|
pagedDatasetProfile.buildPagedDatasetProfile(datasetprofile);
|
|
return pagedDatasetProfile;
|
|
}
|
|
}
|