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package eu.dnetlib.repo.manager.service.controllers;
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import com.fasterxml.jackson.core.JsonProcessingException;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import com.fasterxml.jackson.databind.SerializationFeature;
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import eu.dnetlib.domain.data.Repository;
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import eu.dnetlib.domain.data.RepositoryInterface;
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import eu.dnetlib.domain.enabling.Vocabulary;
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import eu.dnetlib.repo.manager.service.domain.RequestFilter;
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import eu.dnetlib.repo.manager.service.exception.ResourceNotFoundException;
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import eu.dnetlib.repo.manager.service.utils.Converter;
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import eu.dnetlib.repo.manager.shared.*;
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import gr.uoa.di.driver.enabling.vocabulary.VocabularyLoader;
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import org.apache.commons.codec.digest.DigestUtils;
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import org.apache.log4j.Logger;
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import org.json.JSONArray;
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import org.json.JSONException;
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import org.json.JSONObject;
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import org.springframework.beans.factory.annotation.Autowired;
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import org.springframework.beans.factory.annotation.Value;
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import org.springframework.core.ParameterizedTypeReference;
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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.ResponseEntity;
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import org.springframework.http.converter.json.MappingJackson2HttpMessageConverter;
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import org.springframework.security.access.annotation.Secured;
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import org.springframework.security.access.prepost.PostAuthorize;
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import org.springframework.security.access.prepost.PreAuthorize;
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import org.springframework.stereotype.Component;
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import org.springframework.web.bind.annotation.PathVariable;
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import org.springframework.web.bind.annotation.RequestBody;
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import org.springframework.web.bind.annotation.RequestParam;
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import org.springframework.web.client.RestClientException;
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import org.springframework.web.client.RestTemplate;
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import org.springframework.web.util.UriComponents;
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import org.springframework.web.util.UriComponentsBuilder;
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import javax.annotation.PostConstruct;
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import java.sql.Timestamp;
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import java.util.*;
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import java.util.concurrent.ConcurrentHashMap;
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import java.util.function.Function;
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import java.util.stream.Collectors;
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@Component
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public class RepositoryApiImpl implements RepositoryApi {
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@Value("${api.baseAddress}")
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private String baseAddress;
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private RestTemplate restTemplate = null;
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private HttpHeaders httpHeaders;
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private final String[] vocabularyNames = {"dnet:countries", "dnet:datasource_typologies", "dnet:compatibilityLevel"};
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private static final Logger LOGGER = Logger.getLogger(RepositoryApiImpl.class);
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@Value("${services.repomanager.usageStatisticsDiagramsBaseURL}")
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private String usageStatisticsDiagramsBaseURL;
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@Value("${services.repomanager.usageStatisticsNumbersBaseURL}")
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private String usageStatisticsNumbersBaseURL;
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@Autowired
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private VocabularyLoader vocabularyLoader;
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@Autowired
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private PiWikApi piWikApi;
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@Autowired
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private EmailUtils emailUtils;
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private Map<String, Vocabulary> vocabularyMap = new ConcurrentHashMap<String, Vocabulary>();
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private Map<String, String> countriesMap = new HashMap<>();
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private Map<String, String> inverseCountriesMap = new HashMap<>();
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private static Map<String,List<String>> dataSourceClass = new HashMap<String,List<String>>(){{
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put("opendoar",new ArrayList<String>(){{ add("pubsrepository::institutional");
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add("pubsrepository::thematic");
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add("pubsrepository::unknown");
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add("pubsrepository::mock");
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}});
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put("re3data",new ArrayList<String>(){{ add("datarepository::unknown");
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}});
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put("journal",new ArrayList<String>(){{ add("pubsrepository::journal");
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}});
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put("aggregator",new ArrayList<String>(){{ add("aggregator::pubsrepository::institutional");
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add("aggregator::pubsrepository::journals");
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add("aggregator::datarepository");
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add("aggregator::pubsrepository::unknown");
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}});
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}};
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private static Map<String,String> invertedDataSourceClass = new HashMap<String,String>(){{
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put("pubsrepository::institutional","opendoar");
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put("pubsrepository::thematic","opendoar");
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put("pubsrepository::unknown","opendoar");
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put("pubsrepository::mock","opendoar");
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put("datarepository::unknown","re3data");
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put("pubsrepository::journal","journal");
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put("aggregator::pubsrepository::institutional","aggregator");
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put("aggregator::pubsrepository::journals","aggregator");
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put("aggregator::datarepository","aggregator");
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put("aggregator::pubsrepository::unknown","aggregator");
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}};
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@PostConstruct
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private void init() {
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LOGGER.debug("Initialization method of repository api!");
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restTemplate = new RestTemplate();
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restTemplate.getMessageConverters().add(new MappingJackson2HttpMessageConverter());
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httpHeaders = new HttpHeaders();
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httpHeaders.set("Content-Type", "application/json");
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for (String vocName : vocabularyNames) {
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vocabularyMap.put(vocName, vocabularyLoader.getVocabulary(vocName, Locale.ENGLISH, Locale.ROOT));
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}
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Country[] countries = getCountries();
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for (Country c : countries) {
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countriesMap.put(c.getName(), c.getCode());
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inverseCountriesMap.put(c.getCode(), c.getName());
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}
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}
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@Override
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public Country[] getCountries() {
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UriComponents uriComponents = UriComponentsBuilder
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.fromHttpUrl(baseAddress + "/ds/countries")
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.build().encode();
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return restTemplate.getForObject(uriComponents.toUri(), Country[].class);
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}
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@Override
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public List<Repository> getRepositoriesByCountry(@PathVariable("country") String country,
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@PathVariable("mode") String mode,
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@RequestParam(value = "managed",required=false) Boolean managed) throws JSONException {
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LOGGER.debug("Getting repositories by country!");
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int page = 0;
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int size = 100;
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List<Repository> resultSet = new ArrayList<>();
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String countryCode = countriesMap.get(country);
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String filterKey = "UNKNOWN";
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if (mode.equalsIgnoreCase("opendoar"))
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filterKey = "openaire____::opendoar";
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else if (mode.equalsIgnoreCase("re3data"))
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filterKey = "openaire____::re3data";
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LOGGER.debug("Country code equals : " + countryCode);
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LOGGER.debug("Filter mode equals : " + filterKey);
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UriComponents uriComponents = searchDatasource(String.valueOf(page),String.valueOf(size));
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RequestFilter requestFilter = new RequestFilter();
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requestFilter.setCountry(countryCode);
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try{
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String rs = restTemplate.postForObject(uriComponents.toUri(),requestFilter, String.class);
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JSONArray jsonArray = (JSONArray) new JSONObject(rs).get("datasourceInfo");
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while (jsonArray.length() > 0 ) {
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resultSet.addAll(this.getRepositoriesByMode(filterKey, Converter.jsonToRepositoryList(new JSONObject(rs))));
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page += 1;
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uriComponents = searchDatasource(String.valueOf(page),String.valueOf(size));
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rs = restTemplate.postForObject(uriComponents.toUri(),requestFilter, String.class);
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jsonArray = (JSONArray) new JSONObject(rs).get("datasourceInfo");
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}
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for (Repository r : resultSet)
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this.updateRepositoryInfo(r);
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return resultSet;
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}catch (Exception e){
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LOGGER.debug("Exception on getRepositoriesByCountry" , e);
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emailUtils.reportException(e);
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throw e;
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}
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}
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private Repository updateRepositoryInfo(Repository r) throws JSONException {
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/*
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* from datasource class
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* we get the datasource type form the inverted map
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* */
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r.setDatasourceType(getRepositoryType(r.getDatasourceClass()));
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r.setInterfaces(this.getRepositoryInterface(r.getId()));
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r.setPiwikInfo(piWikApi.getPiwikSiteForRepo(r.getId()));
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r.setCountryName(getCountryName(r.getCountryCode()));
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return r;
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}
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private Collection<Repository> getRepositoriesByMode(String mode, List<Repository> rs) {
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List<Repository> reps = new ArrayList<>();
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for (Repository r : rs) {
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if (r.getCollectedFrom() != null && r.getCollectedFrom().equals(mode))
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reps.add(r);
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}
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return reps;
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}
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@Override
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@PreAuthorize("hasRole('ROLE_USER')")
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public List<Repository> getRepositoriesOfUser(@PathVariable("userEmail") String userEmail,
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@PathVariable("page") String page,
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@PathVariable("size") String size) throws JSONException {
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| 226 |
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LOGGER.debug("Retreiving repositories of user : " + userEmail );
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| 228 |
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UriComponents uriComponents = searchDatasource(page,size);
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| 229 |
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RequestFilter requestFilter = new RequestFilter();
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requestFilter.setRegisteredby(userEmail);
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try{
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String rs = restTemplate.postForObject(uriComponents.toUri(),requestFilter, String.class);
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| 234 |
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List<Repository> repos = Converter.jsonToRepositoryList(new JSONObject(rs));
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for (Repository r : repos)
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this.updateRepositoryInfo(r);
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| 238 |
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|
| 239 |
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return repos;
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| 240 |
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}catch (Exception e){
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| 241 |
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LOGGER.debug("Exception on getRepositoriesOfUser" , e);
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| 242 |
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emailUtils.reportException(e);
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| 243 |
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throw e;
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| 244 |
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}
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| 245 |
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}
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| 246 |
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| 247 |
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@Override
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| 248 |
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public Repository getRepositoryById(@PathVariable("id") String id) throws JSONException,ResourceNotFoundException {
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| 249 |
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| 250 |
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LOGGER.debug("Retreiving repositories with id : " + id );
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| 251 |
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Repository repo = null;
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| 252 |
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UriComponents uriComponents = searchDatasource("0","100");
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| 253 |
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RequestFilter requestFilter = new RequestFilter();
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| 254 |
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requestFilter.setId(id);
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| 255 |
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|
| 256 |
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try{
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| 257 |
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String rs = restTemplate.postForObject(uriComponents.toUri(),requestFilter, String.class);
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| 258 |
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JSONArray jsonArray = (JSONArray) new JSONObject(rs).get("datasourceInfo");
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| 259 |
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| 260 |
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if(jsonArray.length() == 0)
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| 261 |
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throw new ResourceNotFoundException();
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| 262 |
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| 263 |
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repo = Converter.jsonToRepositoryObject(jsonArray.getJSONObject(0));
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| 264 |
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return updateRepositoryInfo(repo);
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| 265 |
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}catch (JSONException e){
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| 266 |
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LOGGER.debug("Exception on getRepositoryById" , e);
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| 267 |
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emailUtils.reportException(e);
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| 268 |
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throw e;
|
| 269 |
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}
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| 270 |
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| 271 |
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}
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| 272 |
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| 273 |
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|
| 274 |
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@Override
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| 275 |
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public List<AggregationDetails> getRepositoryAggregations(@PathVariable("id") String id) throws JSONException {
|
| 276 |
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|
| 277 |
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LOGGER.debug("Retreiving aggregations for repository with id : " + id );
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| 278 |
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UriComponents uriComponents = searchDatasource("0","100");
|
| 279 |
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RequestFilter requestFilter = new RequestFilter();
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| 280 |
|
|
requestFilter.setId(id);
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| 281 |
49935
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|
| 282 |
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panagiotis
|
List<AggregationDetails> aggregationHistory = new ArrayList<>();
|
| 283 |
|
|
|
| 284 |
49960
|
panagiotis
|
try {
|
| 285 |
51831
|
panagiotis
|
String rs = restTemplate.postForObject(uriComponents.toUri(),requestFilter, String.class);
|
| 286 |
|
|
JSONObject repository = new JSONObject(rs);
|
| 287 |
52781
|
panagiotis
|
aggregationHistory.addAll(Converter.getAggregationHistoryFromJson(repository.getJSONArray("datasourceInfo").getJSONObject(0)));
|
| 288 |
|
|
return aggregationHistory.size() == 0? aggregationHistory : aggregationHistory.stream()
|
| 289 |
|
|
.sorted(Comparator.comparing(AggregationDetails::getDate).reversed())
|
| 290 |
|
|
.limit(20)
|
| 291 |
|
|
.collect(Collectors.toList());
|
| 292 |
|
|
} catch (JSONException e) {
|
| 293 |
|
|
LOGGER.debug("Exception on getRepositoryAggregations" , e);
|
| 294 |
|
|
emailUtils.reportException(e);
|
| 295 |
|
|
throw e;
|
| 296 |
|
|
}
|
| 297 |
51831
|
panagiotis
|
|
| 298 |
52781
|
panagiotis
|
}
|
| 299 |
|
|
|
| 300 |
|
|
@Override
|
| 301 |
|
|
public Map<String, List<AggregationDetails>> getRepositoryAggregationsByYear(@PathVariable("id") String id) throws JSONException {
|
| 302 |
|
|
LOGGER.debug("Retreiving aggregations (by year) for repository with id : " + id );
|
| 303 |
|
|
UriComponents uriComponents = searchDatasource("0","100");
|
| 304 |
|
|
RequestFilter requestFilter = new RequestFilter();
|
| 305 |
|
|
requestFilter.setId(id);
|
| 306 |
|
|
|
| 307 |
|
|
List<AggregationDetails> aggregationHistory = new ArrayList<>();
|
| 308 |
|
|
Map<String, List<AggregationDetails>> aggregationByYear = new HashMap<>();
|
| 309 |
|
|
try {
|
| 310 |
|
|
String rs = restTemplate.postForObject(uriComponents.toUri(),requestFilter, String.class);
|
| 311 |
|
|
JSONObject repository = new JSONObject(rs);
|
| 312 |
|
|
aggregationHistory.addAll(Converter.getAggregationHistoryFromJson(repository.getJSONArray("datasourceInfo").getJSONObject(0)));
|
| 313 |
|
|
return aggregationHistory.size() == 0? aggregationByYear:createYearMap(aggregationHistory);
|
| 314 |
|
|
|
| 315 |
49960
|
panagiotis
|
} catch (JSONException e) {
|
| 316 |
51831
|
panagiotis
|
LOGGER.debug("Exception on getRepositoryAggregations" , e);
|
| 317 |
|
|
emailUtils.reportException(e);
|
| 318 |
49935
|
panagiotis
|
throw e;
|
| 319 |
|
|
}
|
| 320 |
52781
|
panagiotis
|
}
|
| 321 |
49935
|
panagiotis
|
|
| 322 |
52781
|
panagiotis
|
private Map<String,List<AggregationDetails>> createYearMap(List<AggregationDetails> aggregationHistory) {
|
| 323 |
|
|
Map<String, List<AggregationDetails>> aggregationByYear;
|
| 324 |
|
|
aggregationHistory = aggregationHistory.stream()
|
| 325 |
|
|
.sorted(Comparator.comparing(AggregationDetails::getDate).reversed())
|
| 326 |
|
|
.collect(Collectors.toList());
|
| 327 |
|
|
|
| 328 |
|
|
return aggregationHistory.stream()
|
| 329 |
|
|
.collect(Collectors.groupingBy(AggregationDetails::getYear));
|
| 330 |
49763
|
panagiotis
|
}
|
| 331 |
|
|
|
| 332 |
52781
|
panagiotis
|
|
| 333 |
49763
|
panagiotis
|
@Override
|
| 334 |
49236
|
panagiotis
|
public List<Repository> getRepositoriesByName(@PathVariable("name") String name,
|
| 335 |
|
|
@PathVariable("page") String page,
|
| 336 |
49362
|
panagiotis
|
@PathVariable("size") String size) throws JSONException {
|
| 337 |
49397
|
panagiotis
|
|
| 338 |
50845
|
panagiotis
|
LOGGER.debug("Retreiving repositories with official name : " + name );
|
| 339 |
|
|
UriComponents uriComponents = searchDatasource("0","100");
|
| 340 |
|
|
RequestFilter requestFilter = new RequestFilter();
|
| 341 |
|
|
requestFilter.setOfficialname(name);
|
| 342 |
|
|
|
| 343 |
51831
|
panagiotis
|
try{
|
| 344 |
|
|
String rs = restTemplate.postForObject(uriComponents.toUri(),requestFilter, String.class);
|
| 345 |
|
|
List<Repository> repos = Converter.jsonToRepositoryList(new JSONObject(rs));
|
| 346 |
|
|
for (Repository r : repos)
|
| 347 |
52781
|
panagiotis
|
updateRepositoryInfo(r);
|
| 348 |
51831
|
panagiotis
|
return repos;
|
| 349 |
|
|
}catch (Exception e){
|
| 350 |
|
|
LOGGER.debug("Exception on getRepositoriesByName" , e);
|
| 351 |
|
|
emailUtils.reportException(e);
|
| 352 |
|
|
throw e;
|
| 353 |
|
|
}
|
| 354 |
|
|
|
| 355 |
49236
|
panagiotis
|
}
|
| 356 |
|
|
|
| 357 |
|
|
@Override
|
| 358 |
49988
|
panagiotis
|
public List<RepositoryInterface> getRepositoryInterface(@PathVariable("id") String id) throws JSONException {
|
| 359 |
49397
|
panagiotis
|
|
| 360 |
|
|
UriComponents uriComponents = UriComponentsBuilder
|
| 361 |
49813
|
panagiotis
|
.fromHttpUrl(baseAddress + "/ds/api/")
|
| 362 |
51330
|
panagiotis
|
.path("/{id}")
|
| 363 |
49397
|
panagiotis
|
.build().expand(id).encode();
|
| 364 |
|
|
|
| 365 |
51831
|
panagiotis
|
try{
|
| 366 |
|
|
String rs = restTemplate.getForObject(uriComponents.toUri(), String.class);
|
| 367 |
|
|
return Converter.jsonToRepositoryInterfaceList(new JSONObject(rs));
|
| 368 |
|
|
}catch (Exception e ){
|
| 369 |
|
|
LOGGER.debug("Exception on getRepositoryInterface" , e);
|
| 370 |
|
|
emailUtils.reportException(e);
|
| 371 |
|
|
throw e;
|
| 372 |
|
|
}
|
| 373 |
|
|
|
| 374 |
49236
|
panagiotis
|
}
|
| 375 |
|
|
|
| 376 |
|
|
@Override
|
| 377 |
52781
|
panagiotis
|
@PreAuthorize("hasRole('ROLE_USER') and #repository.registeredBy == authentication.userInfo.email")
|
| 378 |
50945
|
panagiotis
|
public Repository addRepository(@RequestParam("datatype") String datatype,
|
| 379 |
|
|
@RequestBody Repository repository) throws Exception {
|
| 380 |
49898
|
panagiotis
|
|
| 381 |
49963
|
panagiotis
|
repository = this.setRepositoryFeatures(datatype,repository);
|
| 382 |
49960
|
panagiotis
|
LOGGER.debug("storing " + datatype + " repository with id: " + repository.getId());
|
| 383 |
51525
|
panagiotis
|
this.storeRepository(repository);
|
| 384 |
50945
|
panagiotis
|
return repository;
|
| 385 |
49963
|
panagiotis
|
}
|
| 386 |
49960
|
panagiotis
|
|
| 387 |
51239
|
panagiotis
|
@Override
|
| 388 |
52781
|
panagiotis
|
@PreAuthorize("hasRole('ROLE_USER') and #repository.registeredBy == authentication.userInfo.email")
|
| 389 |
51330
|
panagiotis
|
public Repository updateRepository(@RequestBody Repository repository) throws JSONException {
|
| 390 |
|
|
UriComponents uriComponents = UriComponentsBuilder
|
| 391 |
51239
|
panagiotis
|
.fromHttpUrl(baseAddress + "/ds/update/")
|
| 392 |
|
|
.build()
|
| 393 |
51330
|
panagiotis
|
.encode();
|
| 394 |
51586
|
panagiotis
|
|
| 395 |
51831
|
panagiotis
|
try {
|
| 396 |
|
|
String json_repository = Converter.repositoryObjectToJson(repository);
|
| 397 |
|
|
HttpEntity<String> httpEntity = new HttpEntity <String> (json_repository,httpHeaders);
|
| 398 |
|
|
restTemplate.postForObject(uriComponents.toUri(),httpEntity,String.class);
|
| 399 |
|
|
return repository;
|
| 400 |
|
|
}catch (Exception e){
|
| 401 |
|
|
LOGGER.debug("Exception on updateRepository" , e);
|
| 402 |
|
|
emailUtils.reportException(e);
|
| 403 |
|
|
throw e;
|
| 404 |
|
|
}
|
| 405 |
51586
|
panagiotis
|
|
| 406 |
50075
|
panagiotis
|
}
|
| 407 |
|
|
|
| 408 |
49963
|
panagiotis
|
private Repository setRepositoryFeatures(String datatype, Repository repository) {
|
| 409 |
49960
|
panagiotis
|
|
| 410 |
49963
|
panagiotis
|
//TODO update map
|
| 411 |
|
|
repository.setCountryCode(countriesMap.get(repository.getCountryName()));
|
| 412 |
|
|
repository.setActivationId(UUID.randomUUID().toString());
|
| 413 |
51549
|
panagiotis
|
repository.setCollectedFrom("infrastruct_::openaire");
|
| 414 |
49963
|
panagiotis
|
|
| 415 |
51549
|
panagiotis
|
if (datatype.equals("journal")) {
|
| 416 |
49963
|
panagiotis
|
repository.setId("openaire____::issn" + repository.getIssn());
|
| 417 |
|
|
repository.setNamespacePrefix("issn" + repository.getIssn());
|
| 418 |
51549
|
panagiotis
|
}else if (datatype.equals("aggregator")) {
|
| 419 |
49963
|
panagiotis
|
repository.setId("openaire____::" + com.unboundid.util.Base64.encode(repository.getOfficialName()));
|
| 420 |
51549
|
panagiotis
|
repository.setNamespacePrefix(DigestUtils.md5Hex(repository.getOfficialName()).substring(0,12));
|
| 421 |
49960
|
panagiotis
|
}
|
| 422 |
51549
|
panagiotis
|
|
| 423 |
49963
|
panagiotis
|
return repository;
|
| 424 |
49960
|
panagiotis
|
}
|
| 425 |
|
|
|
| 426 |
49963
|
panagiotis
|
private void updateInterface(String datatype,RepositoryInterface iFace) {
|
| 427 |
|
|
//TODO call update base url
|
| 428 |
|
|
//((DatasourceManagerService) this.dmService.getService()).updateBaseUrl(repo.getId(), iFace.getId(), iFace.getBaseUrl());
|
| 429 |
|
|
if (!iFace.getAccessSet().isEmpty()) {
|
| 430 |
|
|
LOGGER.debug("set not empty: " + iFace.getAccessSet());
|
| 431 |
|
|
//TODO call update method for access params
|
| 432 |
|
|
// ((DatasourceManagerService) this.dmService.getService()).updateAccessParam(repo.getId(), iFace.getId(), "set", iFace.getAccessSet(), false);
|
| 433 |
|
|
} else {
|
| 434 |
|
|
//TODO call deleteAccessParamOrExtraField
|
| 435 |
|
|
//((DatasourceManagerService) this.dmService.getService()).deleteAccessParamOrExtraField(repo.getId(), iFace.getId(), "set");
|
| 436 |
|
|
}
|
| 437 |
|
|
//TODO update content description
|
| 438 |
|
|
//((DatasourceManagerService) this.dmService.getService()).updateContentDescription(repo.getId(), iFace.getId(), "metadata");
|
| 439 |
|
|
if (datatype.equals("re3data")) {
|
| 440 |
|
|
//TODO call update access params
|
| 441 |
|
|
// ((DatasourceManagerService) this.dmService.getService()).updateAccessParam(repo.getId(), iFace.getId(), "format", "oai_datacite", false);
|
| 442 |
|
|
iFace.setAccessFormat("oai_datacite");
|
| 443 |
|
|
} else {
|
| 444 |
|
|
//TODO call update access params
|
| 445 |
|
|
//((DatasourceManagerService) this.dmService.getService()).updateAccessParam(repo.getId(), iFace.getId(), "format", "oai_dc", false);
|
| 446 |
|
|
iFace.setAccessFormat("oai_dc");
|
| 447 |
|
|
}
|
| 448 |
|
|
|
| 449 |
|
|
}
|
| 450 |
|
|
|
| 451 |
49960
|
panagiotis
|
private void storeRepository(Repository repository) throws JSONException {
|
| 452 |
|
|
|
| 453 |
49963
|
panagiotis
|
Date utilDate = new Date();
|
| 454 |
|
|
Timestamp date = new Timestamp(utilDate.getTime());
|
| 455 |
|
|
repository.setDateOfCollection(date);
|
| 456 |
|
|
repository.setAggregator("OPENAIRE");
|
| 457 |
51525
|
panagiotis
|
repository.setCountryCode(countriesMap.get(repository.getCountryName()));
|
| 458 |
49963
|
panagiotis
|
|
| 459 |
49397
|
panagiotis
|
UriComponents uriComponents = UriComponentsBuilder
|
| 460 |
|
|
.fromHttpUrl(baseAddress + "/ds/add/")
|
| 461 |
|
|
.build()
|
| 462 |
|
|
.encode();
|
| 463 |
50051
|
panagiotis
|
String json_repository = Converter.repositoryObjectToJson(repository);
|
| 464 |
51549
|
panagiotis
|
|
| 465 |
|
|
ObjectMapper mapper = new ObjectMapper();
|
| 466 |
|
|
mapper.enable(SerializationFeature.INDENT_OUTPUT);
|
| 467 |
|
|
try {
|
| 468 |
|
|
LOGGER.debug(mapper.writeValueAsString(json_repository));
|
| 469 |
|
|
} catch (JsonProcessingException e) {
|
| 470 |
|
|
e.printStackTrace();
|
| 471 |
|
|
}
|
| 472 |
|
|
|
| 473 |
50051
|
panagiotis
|
HttpEntity<String> httpEntity = new HttpEntity <String> (json_repository,httpHeaders);
|
| 474 |
|
|
restTemplate.postForObject(uriComponents.toUri(),httpEntity,String.class);
|
| 475 |
49236
|
panagiotis
|
}
|
| 476 |
|
|
|
| 477 |
|
|
@Override
|
| 478 |
52781
|
panagiotis
|
@PreAuthorize("hasRole('ROLE_USER') and #registeredBy == authentication.userInfo.email")
|
| 479 |
|
|
public void deleteRepositoryInterface(@RequestParam("id") String id ,
|
| 480 |
|
|
@RequestParam("registeredBy") String registeredBy){
|
| 481 |
49397
|
panagiotis
|
UriComponents uriComponents = UriComponentsBuilder
|
| 482 |
49813
|
panagiotis
|
.fromHttpUrl(baseAddress + "/ds/api/")
|
| 483 |
51525
|
panagiotis
|
.path("/{id}")
|
| 484 |
49813
|
panagiotis
|
.build().expand(id).encode();
|
| 485 |
51525
|
panagiotis
|
LOGGER.debug(uriComponents.toUri());
|
| 486 |
49813
|
panagiotis
|
restTemplate.delete(uriComponents.toUri());
|
| 487 |
|
|
}
|
| 488 |
|
|
|
| 489 |
|
|
@Override
|
| 490 |
52781
|
panagiotis
|
@PreAuthorize("hasRole('ROLE_USER') and #registeredBy == authentication.userInfo.email")
|
| 491 |
50075
|
panagiotis
|
public RepositoryInterface addRepositoryInterface(@RequestParam("datatype") String datatype,
|
| 492 |
|
|
@RequestParam("repoId") String repoId,
|
| 493 |
52781
|
panagiotis
|
@RequestParam("registeredBy") String registeredBy,
|
| 494 |
|
|
@RequestBody RepositoryInterface repositoryInterface) throws JSONException,ResourceNotFoundException {
|
| 495 |
49963
|
panagiotis
|
try {
|
| 496 |
51525
|
panagiotis
|
Repository e = this.getRepositoryById(repoId);
|
| 497 |
|
|
repositoryInterface = createRepositoryInterface(e,repositoryInterface,datatype);
|
| 498 |
|
|
String json_interface = Converter.repositoryInterfaceObjectToJson(e,repositoryInterface);
|
| 499 |
49963
|
panagiotis
|
|
| 500 |
|
|
UriComponents uriComponents = UriComponentsBuilder
|
| 501 |
|
|
.fromHttpUrl(baseAddress + "/ds/api/add/")
|
| 502 |
|
|
.build()
|
| 503 |
|
|
.encode();
|
| 504 |
|
|
|
| 505 |
50051
|
panagiotis
|
HttpEntity<String> httpEntity = new HttpEntity <String> (json_interface,httpHeaders);
|
| 506 |
|
|
restTemplate.postForObject(uriComponents.toUri(),httpEntity,String.class);
|
| 507 |
51525
|
panagiotis
|
return repositoryInterface;
|
| 508 |
50051
|
panagiotis
|
|
| 509 |
51831
|
panagiotis
|
} catch (JSONException e) {
|
| 510 |
|
|
LOGGER.debug("Exception on addRepositoryInterface" , e);
|
| 511 |
|
|
emailUtils.reportException(e);
|
| 512 |
|
|
throw e;
|
| 513 |
49963
|
panagiotis
|
}
|
| 514 |
|
|
}
|
| 515 |
|
|
|
| 516 |
51525
|
panagiotis
|
private RepositoryInterface createRepositoryInterface(Repository repo, RepositoryInterface iFace, String datatype) {
|
| 517 |
|
|
|
| 518 |
|
|
iFace.setContentDescription("metadata");
|
| 519 |
|
|
iFace.setCompliance("UNKNOWN");
|
| 520 |
|
|
|
| 521 |
|
|
if (datatype.equals("re3data"))
|
| 522 |
|
|
iFace.setAccessFormat("oai_datacite");
|
| 523 |
|
|
else
|
| 524 |
|
|
iFace.setAccessFormat("oai_dc");
|
| 525 |
|
|
|
| 526 |
|
|
|
| 527 |
|
|
if (repo.getDatasourceClass() != null && !repo.getDatasourceClass().isEmpty())
|
| 528 |
|
|
iFace.setTypology(repo.getDatasourceClass());
|
| 529 |
|
|
else if (datatype.equalsIgnoreCase("journal"))
|
| 530 |
|
|
iFace.setTypology("pubsrepository::journal");
|
| 531 |
|
|
else if (datatype.equalsIgnoreCase("aggregator"))
|
| 532 |
|
|
iFace.setTypology("aggregator::pubsrepository::unknown");
|
| 533 |
|
|
else if (datatype.equalsIgnoreCase("opendoar"))
|
| 534 |
|
|
iFace.setTypology("pubsrepository::unknown");
|
| 535 |
|
|
else if (datatype.equalsIgnoreCase("re3data"))
|
| 536 |
|
|
iFace.setTypology("datarepository::unknown");
|
| 537 |
|
|
|
| 538 |
|
|
iFace.setRemovable(true);
|
| 539 |
|
|
iFace.setAccessProtocol("oai");
|
| 540 |
|
|
iFace.setMetadataIdentifierPath("//*[local-name()='header']/*[local-name()='identifier']");
|
| 541 |
|
|
iFace.setId("api_________::" + repo.getId() + "::" + UUID.randomUUID().toString().substring(0, 8));
|
| 542 |
|
|
if (iFace.getAccessSet().isEmpty()) {
|
| 543 |
|
|
LOGGER.debug("set is empty: " + iFace.getAccessSet());
|
| 544 |
|
|
iFace.removeAccessSet();
|
| 545 |
|
|
}
|
| 546 |
|
|
return iFace;
|
| 547 |
|
|
}
|
| 548 |
|
|
|
| 549 |
49236
|
panagiotis
|
@Override
|
| 550 |
|
|
public List<String> getDnetCountries() {
|
| 551 |
49770
|
panagiotis
|
LOGGER.debug("Getting dnet-countries!");
|
| 552 |
49236
|
panagiotis
|
return Converter.readFile("countries.txt");
|
| 553 |
|
|
}
|
| 554 |
|
|
|
| 555 |
|
|
@Override
|
| 556 |
|
|
public List<String> getTypologies() {
|
| 557 |
|
|
return Converter.readFile("typologies.txt");
|
| 558 |
|
|
}
|
| 559 |
|
|
|
| 560 |
|
|
@Override
|
| 561 |
49763
|
panagiotis
|
public List<Timezone> getTimezones() {
|
| 562 |
|
|
List<String> timezones = Converter.readFile("timezones.txt");
|
| 563 |
|
|
return Converter.toTimezones(timezones);
|
| 564 |
49236
|
panagiotis
|
}
|
| 565 |
|
|
|
| 566 |
|
|
@Override
|
| 567 |
51656
|
panagiotis
|
@PreAuthorize("hasRole('ROLE_USER')")
|
| 568 |
50614
|
panagiotis
|
public List<String> getUrlsOfUserRepos(@PathVariable("user_email") String userEmail,
|
| 569 |
49763
|
panagiotis
|
@PathVariable("page") String page,
|
| 570 |
|
|
@PathVariable("size") String size) throws JSONException {
|
| 571 |
|
|
UriComponents uriComponents = UriComponentsBuilder
|
| 572 |
|
|
.fromHttpUrl(baseAddress + "/api/baseurl/")
|
| 573 |
|
|
.path("/{page}/{size}")
|
| 574 |
|
|
.build().expand(page,size).encode();
|
| 575 |
50614
|
panagiotis
|
|
| 576 |
51831
|
panagiotis
|
try{
|
| 577 |
|
|
RequestFilter requestFilter = new RequestFilter();
|
| 578 |
|
|
requestFilter.setRegisteredby(userEmail);
|
| 579 |
|
|
return Arrays.asList(restTemplate.postForObject(uriComponents.toUri(),requestFilter, String[].class));
|
| 580 |
|
|
}catch (Exception e){
|
| 581 |
|
|
LOGGER.debug("Exception on addRepositoryInterface" , e);
|
| 582 |
|
|
emailUtils.reportException(e);
|
| 583 |
|
|
throw e;
|
| 584 |
|
|
}
|
| 585 |
49236
|
panagiotis
|
}
|
| 586 |
|
|
|
| 587 |
49450
|
panagiotis
|
@Override
|
| 588 |
|
|
public List<String> getDatasourceVocabularies(@PathVariable("mode") String mode) {
|
| 589 |
|
|
|
| 590 |
|
|
List<String> resultSet = new ArrayList<>();
|
| 591 |
|
|
for (Map.Entry<String, String> entry : this.getVocabulary("dnet:datasource_typologies").getAsMap().entrySet()) {
|
| 592 |
|
|
if (mode.equalsIgnoreCase("aggregator")) {
|
| 593 |
|
|
if (entry.getKey().contains("aggregator"))
|
| 594 |
|
|
resultSet.add(entry.getValue());
|
| 595 |
|
|
} else if (mode.equalsIgnoreCase("journal")) {
|
| 596 |
|
|
if (entry.getKey().contains("journal"))
|
| 597 |
|
|
resultSet.add(entry.getValue());
|
| 598 |
|
|
} else if (mode.equalsIgnoreCase("opendoar")) {
|
| 599 |
|
|
if (entry.getKey().contains("pubsrepository"))
|
| 600 |
|
|
resultSet.add(entry.getValue());
|
| 601 |
|
|
} else if (mode.equalsIgnoreCase("re3data")) {
|
| 602 |
|
|
if (entry.getKey().contains("datarepository"))
|
| 603 |
|
|
resultSet.add(entry.getValue());
|
| 604 |
|
|
}
|
| 605 |
|
|
}
|
| 606 |
|
|
|
| 607 |
|
|
|
| 608 |
|
|
return resultSet;
|
| 609 |
|
|
}
|
| 610 |
|
|
|
| 611 |
|
|
private Vocabulary getVocabulary(String vocName) {
|
| 612 |
|
|
|
| 613 |
|
|
if (!vocabularyMap.containsKey(vocName)) {
|
| 614 |
|
|
vocabularyMap.put(vocName, vocabularyLoader.getVocabulary(vocName, Locale.ENGLISH, Locale.ROOT));
|
| 615 |
|
|
}
|
| 616 |
|
|
return vocabularyMap.get(vocName);
|
| 617 |
|
|
}
|
| 618 |
|
|
|
| 619 |
49790
|
panagiotis
|
|
| 620 |
|
|
@Override
|
| 621 |
|
|
public Map<String, String> getCompatibilityClasses(@PathVariable("mode") String mode) {
|
| 622 |
|
|
|
| 623 |
|
|
LOGGER.debug("Getting compatibility classes for mode: " + mode);
|
| 624 |
|
|
Map<String, String> retMap = new HashMap<String, String>();
|
| 625 |
|
|
|
| 626 |
|
|
Map<String, String> compatibilityClasses = this.getVocabulary("dnet:compatibilityLevel").getAsMap();
|
| 627 |
|
|
boolean foundData = false;
|
| 628 |
|
|
for (Map.Entry<String, String> entry : compatibilityClasses.entrySet()) {
|
| 629 |
|
|
if (mode.equalsIgnoreCase(Constants.REPOSITORY_MODE_ALL))
|
| 630 |
|
|
return compatibilityClasses;
|
| 631 |
|
|
else if (mode.equalsIgnoreCase(Constants.REPOSITORY_MODE_RE3DATA)) {
|
| 632 |
|
|
if (entry.getKey().matches("^openaire[1-9].0_data$")) {
|
| 633 |
|
|
retMap.put(entry.getKey(), entry.getValue());
|
| 634 |
|
|
foundData = true;
|
| 635 |
|
|
}
|
| 636 |
|
|
} else {
|
| 637 |
|
|
if (entry.getKey().matches("^openaire[1-9].0$") || entry.getKey().equals("driver"))
|
| 638 |
|
|
retMap.put(entry.getKey(), entry.getValue());
|
| 639 |
|
|
}
|
| 640 |
|
|
}
|
| 641 |
|
|
|
| 642 |
|
|
//TODO TO BE REMOVED WHEN VOCABULARIES ARE UPDATED
|
| 643 |
|
|
if (mode.equalsIgnoreCase(Constants.REPOSITORY_MODE_RE3DATA) && !foundData)
|
| 644 |
|
|
retMap.put("openaire2.0_data", "OpenAIRE Data (funded, referenced datasets)");
|
| 645 |
|
|
|
| 646 |
|
|
return retMap;
|
| 647 |
|
|
}
|
| 648 |
|
|
|
| 649 |
|
|
@Override
|
| 650 |
|
|
public Map<String, String> getDatasourceClasses(@PathVariable("mode") String mode) {
|
| 651 |
|
|
|
| 652 |
|
|
LOGGER.debug("Getting datasource classes for mode: " + mode);
|
| 653 |
|
|
|
| 654 |
|
|
Map<String, String> retMap = new HashMap<String, String>();
|
| 655 |
|
|
|
| 656 |
|
|
for (Map.Entry<String, String> entry : this.getVocabulary("dnet:datasource_typologies").getAsMap().entrySet()) {
|
| 657 |
|
|
if (mode.equalsIgnoreCase("aggregator")) {
|
| 658 |
|
|
if (entry.getKey().contains("aggregator"))
|
| 659 |
|
|
retMap.put(entry.getKey(), entry.getValue());
|
| 660 |
|
|
} else if (mode.equalsIgnoreCase("journal")) {
|
| 661 |
|
|
if (entry.getKey().contains("journal"))
|
| 662 |
|
|
retMap.put(entry.getKey(), entry.getValue());
|
| 663 |
|
|
} else if (mode.equalsIgnoreCase("opendoar")) {
|
| 664 |
|
|
if (entry.getKey().contains("pubsrepository"))
|
| 665 |
|
|
retMap.put(entry.getKey(), entry.getValue());
|
| 666 |
|
|
} else if (mode.equalsIgnoreCase("re3data")) {
|
| 667 |
|
|
if (entry.getKey().contains("datarepository"))
|
| 668 |
|
|
retMap.put(entry.getKey(), entry.getValue());
|
| 669 |
|
|
}
|
| 670 |
|
|
}
|
| 671 |
51549
|
panagiotis
|
return filterResults(retMap,mode);
|
| 672 |
49790
|
panagiotis
|
|
| 673 |
|
|
}
|
| 674 |
|
|
|
| 675 |
51549
|
panagiotis
|
private Map<String,String> filterResults(Map<String, String> map,String mode) {
|
| 676 |
|
|
|
| 677 |
|
|
HashMap<String,String> filteredMap = new HashMap<>();
|
| 678 |
|
|
for(String key:map.keySet())
|
| 679 |
|
|
if(dataSourceClass.get(mode).contains(key))
|
| 680 |
|
|
filteredMap.put(key,map.get(key));
|
| 681 |
|
|
|
| 682 |
|
|
return filteredMap;
|
| 683 |
|
|
}
|
| 684 |
|
|
|
| 685 |
49898
|
panagiotis
|
@Override
|
| 686 |
|
|
public String getCountryName(String countryCode) {
|
| 687 |
|
|
return inverseCountriesMap.get(countryCode);
|
| 688 |
|
|
}
|
| 689 |
|
|
|
| 690 |
50570
|
panagiotis
|
@Override
|
| 691 |
|
|
public MetricsInfo getMetricsInfoForRepository(@PathVariable("repoId") String repoId) throws RepositoryServiceException {
|
| 692 |
|
|
try {
|
| 693 |
|
|
|
| 694 |
|
|
MetricsInfo metricsInfo = new MetricsInfo();
|
| 695 |
|
|
metricsInfo.setDiagramsBaseURL(this.usageStatisticsDiagramsBaseURL);
|
| 696 |
|
|
metricsInfo.setMetricsNumbers(getMetricsNumbers(getOpenAIREId(repoId)));
|
| 697 |
|
|
return metricsInfo;
|
| 698 |
|
|
|
| 699 |
|
|
} catch (Exception e) {
|
| 700 |
|
|
LOGGER.error("Error while getting metrics info for repository: ", e);
|
| 701 |
51831
|
panagiotis
|
emailUtils.reportException(e);
|
| 702 |
50570
|
panagiotis
|
throw new RepositoryServiceException("General error", RepositoryServiceException.ErrorCode.GENERAL_ERROR);
|
| 703 |
|
|
}
|
| 704 |
|
|
}
|
| 705 |
|
|
|
| 706 |
51330
|
panagiotis
|
@Override
|
| 707 |
|
|
public Map<String, String> getListLatestUpdate(@PathVariable("mode") String mode) throws JSONException {
|
| 708 |
|
|
if(mode.equals("opendoar"))
|
| 709 |
|
|
return Collections.singletonMap("lastCollectionDate", getRepositoryInterface("openaire____::"+mode).get(0).getLastCollectionDate());
|
| 710 |
|
|
else
|
| 711 |
|
|
/*
|
| 712 |
|
|
* first api of re3data has null value on collection date
|
| 713 |
|
|
* */
|
| 714 |
|
|
return Collections.singletonMap("lastCollectionDate", getRepositoryInterface("openaire____::"+mode).get(1).getLastCollectionDate());
|
| 715 |
|
|
}
|
| 716 |
|
|
|
| 717 |
51525
|
panagiotis
|
@Override
|
| 718 |
52781
|
panagiotis
|
@PreAuthorize("hasRole('ROLE_USER') and #registeredBy == authentication.userInfo.email")
|
| 719 |
51525
|
panagiotis
|
public RepositoryInterface updateRepositoryInterface(@RequestParam("repoId") String repoId,
|
| 720 |
52781
|
panagiotis
|
@RequestParam("registeredBy") String registeredBy,
|
| 721 |
51525
|
panagiotis
|
@RequestBody RepositoryInterface repositoryInterface) throws JSONException {
|
| 722 |
|
|
|
| 723 |
|
|
this.updateBaseUrl(repoId,repositoryInterface.getId(),repositoryInterface.getBaseUrl());
|
| 724 |
|
|
this.updateCompliance(repoId,repositoryInterface.getId(),repositoryInterface.getCompliance());
|
| 725 |
51549
|
panagiotis
|
this.updateValidationSet(repoId,repositoryInterface.getId(),repositoryInterface.getAccessSet());
|
| 726 |
51525
|
panagiotis
|
return repositoryInterface;
|
| 727 |
|
|
}
|
| 728 |
|
|
|
| 729 |
51549
|
panagiotis
|
private void updateValidationSet(String repositoryId, String repositoryInterfaceId, String validationSet) {
|
| 730 |
|
|
UriComponents uriComponents = UriComponentsBuilder
|
| 731 |
|
|
.fromHttpUrl(baseAddress + "/ds/api/oaiset")
|
| 732 |
|
|
.queryParam("dsId",repositoryId)
|
| 733 |
|
|
.queryParam("apiId",repositoryInterfaceId)
|
| 734 |
|
|
.queryParam("oaiSet",validationSet)
|
| 735 |
|
|
.build().encode();
|
| 736 |
|
|
restTemplate.postForObject(uriComponents.toUri(),null,String.class);
|
| 737 |
|
|
}
|
| 738 |
51525
|
panagiotis
|
|
| 739 |
51549
|
panagiotis
|
|
| 740 |
51525
|
panagiotis
|
private void updateBaseUrl(String repositoryId, String repositoryInterfaceId, String baseUrl) {
|
| 741 |
|
|
UriComponents uriComponents = UriComponentsBuilder
|
| 742 |
|
|
.fromHttpUrl(baseAddress + "/ds/api/baseurl")
|
| 743 |
|
|
.queryParam("dsId",repositoryId)
|
| 744 |
|
|
.queryParam("apiId",repositoryInterfaceId)
|
| 745 |
|
|
.queryParam("baseUrl",baseUrl)
|
| 746 |
|
|
.build().encode();
|
| 747 |
|
|
restTemplate.postForObject(uriComponents.toUri(),null,String.class);
|
| 748 |
|
|
}
|
| 749 |
|
|
|
| 750 |
|
|
private void updateCompliance(String repositoryId, String repositoryInterfaceId,String compliance) {
|
| 751 |
|
|
UriComponents uriComponents = UriComponentsBuilder
|
| 752 |
|
|
.fromHttpUrl(baseAddress + "/ds/api/compliance")
|
| 753 |
|
|
.queryParam("dsId",repositoryId)
|
| 754 |
|
|
.queryParam("apiId",repositoryInterfaceId)
|
| 755 |
|
|
.queryParam("compliance",compliance)
|
| 756 |
|
|
.build().encode();
|
| 757 |
|
|
restTemplate.postForObject(uriComponents.toUri(),null,String.class);
|
| 758 |
|
|
}
|
| 759 |
|
|
|
| 760 |
50570
|
panagiotis
|
private MetricsNumbers getMetricsNumbers(String openAIREID) throws BrokerException {
|
| 761 |
|
|
|
| 762 |
|
|
//build the uri params
|
| 763 |
|
|
UriComponentsBuilder builder = UriComponentsBuilder.fromHttpUrl(this.usageStatisticsNumbersBaseURL + openAIREID + "/clicks");
|
| 764 |
|
|
|
| 765 |
|
|
//create new template engine
|
| 766 |
|
|
RestTemplate template = new RestTemplate();
|
| 767 |
|
|
template.getMessageConverters().add(new MappingJackson2HttpMessageConverter());
|
| 768 |
|
|
ResponseEntity<MetricsNumbers> resp;
|
| 769 |
|
|
try {
|
| 770 |
|
|
//communicate with endpoint
|
| 771 |
|
|
resp = template.exchange(
|
| 772 |
|
|
builder.build().encode().toUri(),
|
| 773 |
|
|
HttpMethod.GET,
|
| 774 |
|
|
null,
|
| 775 |
|
|
new ParameterizedTypeReference<MetricsNumbers>() {
|
| 776 |
|
|
});
|
| 777 |
|
|
} catch (RestClientException e) {
|
| 778 |
51831
|
panagiotis
|
LOGGER.debug("Exception on getMetricsNumbers" , e);
|
| 779 |
|
|
emailUtils.reportException(e);
|
| 780 |
50570
|
panagiotis
|
throw e;
|
| 781 |
|
|
}
|
| 782 |
|
|
|
| 783 |
|
|
return resp.getBody();
|
| 784 |
|
|
}
|
| 785 |
|
|
|
| 786 |
|
|
private String getOpenAIREId(String repoId) {
|
| 787 |
|
|
|
| 788 |
|
|
if (repoId != null && repoId.contains("::")) {
|
| 789 |
|
|
return repoId.split("::")[0] + "::" + DigestUtils.md5Hex(repoId.split("::")[1]);
|
| 790 |
|
|
}
|
| 791 |
|
|
|
| 792 |
|
|
return null;
|
| 793 |
|
|
}
|
| 794 |
|
|
|
| 795 |
50631
|
panagiotis
|
private UriComponents searchDatasource(String page,String size){
|
| 796 |
50570
|
panagiotis
|
|
| 797 |
50631
|
panagiotis
|
return UriComponentsBuilder
|
| 798 |
|
|
.fromHttpUrl(baseAddress + "/ds/search/")
|
| 799 |
|
|
.path("/{page}/{size}/")
|
| 800 |
|
|
.queryParam("requestSortBy","id")
|
| 801 |
|
|
.queryParam("order","ASCENDING")
|
| 802 |
|
|
.build().expand(page, size).encode();
|
| 803 |
|
|
}
|
| 804 |
|
|
|
| 805 |
51549
|
panagiotis
|
private String getRepositoryType(String typology){
|
| 806 |
|
|
return invertedDataSourceClass.get(typology);
|
| 807 |
|
|
}
|
| 808 |
50631
|
panagiotis
|
|
| 809 |
51549
|
panagiotis
|
|
| 810 |
49236
|
panagiotis
|
}
|