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package eu.dnetlib.parthenos.registry;
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import java.io.BufferedOutputStream;
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import java.io.ByteArrayOutputStream;
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import java.io.IOException;
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import java.util.List;
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import java.util.Map;
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import javax.annotation.PostConstruct;
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import com.fasterxml.jackson.core.JsonEncoding;
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import com.fasterxml.jackson.core.JsonFactory;
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import com.fasterxml.jackson.core.JsonGenerator;
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import com.google.common.collect.Lists;
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import eu.dnetlib.parthenos.CRM;
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import eu.dnetlib.parthenos.CRMdig;
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import eu.dnetlib.parthenos.CRMpe;
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import eu.dnetlib.parthenos.jrr.ParthenosRegistryRel;
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import eu.dnetlib.parthenos.jrr.ParthenosRegistryResource;
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import eu.dnetlib.parthenos.publisher.ParthenosPublisherException;
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import eu.dnetlib.parthenos.rdf.ResourceReader;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.commons.logging.Log;
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import org.apache.commons.logging.LogFactory;
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import org.apache.jena.ext.com.google.common.collect.Maps;
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import org.apache.jena.rdf.model.Property;
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import org.apache.jena.rdf.model.Resource;
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import org.apache.jena.rdf.model.StmtIterator;
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import org.apache.jena.vocabulary.RDF;
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import org.gcube.common.authorization.client.Constants;
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import org.gcube.common.authorization.library.AuthorizationEntry;
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import org.gcube.common.authorization.library.provider.SecurityTokenProvider;
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import org.gcube.common.scope.api.ScopeProvider;
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import org.gcube.informationsystem.model.entity.facet.IdentifierFacet;
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import org.gcube.informationsystem.model.relation.IsIdentifiedBy;
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import org.gcube.informationsystem.resourceregistry.api.exceptions.ResourceRegistryException;
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import org.gcube.informationsystem.resourceregistry.api.exceptions.query.InvalidQueryException;
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import org.gcube.informationsystem.resourceregistry.client.ParthenosRegistryClientSetter;
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import org.gcube.informationsystem.resourceregistry.client.ResourceRegistryClient;
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import org.gcube.informationsystem.resourceregistry.client.ResourceRegistryClientFactory;
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import org.gcube.informationsystem.resourceregistry.publisher.ParthenosRegistryPublisherSetter;
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import org.gcube.informationsystem.resourceregistry.publisher.ResourceRegistryPublisher;
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import org.gcube.informationsystem.resourceregistry.publisher.ResourceRegistryPublisherFactory;
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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.stereotype.Component;
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/**
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* Created by Alessia Bardi on 26/09/2017.
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*
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* TODO: when the mappings have a definitive URI generation policy then we need to be able to "upsert" (Luca will prepare new method for me).
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* When generating relationships, it could be the case that the linked entity was generated from another file, so we have to ask
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* the registry if it already exists a resource with a given URI. We cannot do it now because different entities with the same fake UUID are
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* generated by the mappings, now. See also https://support.d4science.org/issues/9820#change-56673
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*
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* @author Alessia Bardi
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*/
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@Component
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public class GCubeResourceRegistrator {
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private static final Log log = LogFactory.getLog(GCubeResourceRegistrator.class);
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@Value("${gcube.registry.baseurl}")
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private String registryBaseURL;
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@Value("${gcube.registry.application.token}")
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private String applicationToken;
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@Autowired
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private FacetWriter facetWriter;
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@Autowired
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private RelWriter relWriter;
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@Autowired
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private ResourceReader resourceReader;
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private ResourceRegistryPublisher resourceRegistryPublisher;
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private ResourceRegistryClient resourceRegistryClient;
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@PostConstruct
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public void init() throws Exception {
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ParthenosRegistryClientSetter.forceToURL(getRegistryBaseURL());
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ParthenosRegistryPublisherSetter.forceToURL(getRegistryBaseURL());
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log.info("Registry URL forced to " + getRegistryBaseURL());
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if (StringUtils.isNotBlank(getApplicationToken())) {
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GCubeResourceRegistrator.setContext(getApplicationToken());
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log.info("GCube Context set");
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} else {
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log.fatal("GCube context cannot be configured without a value in gcube.registry.application.token");
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}
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this.resourceRegistryPublisher = ResourceRegistryPublisherFactory.create();
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this.resourceRegistryClient = ResourceRegistryClientFactory.create();
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}
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protected static String getCurrentScope(String token) throws Exception {
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AuthorizationEntry authorizationEntry = Constants.authorizationService().get(token);
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String context = authorizationEntry.getContext();
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log.info("Context of token " + token + " is: " + context);
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return context;
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}
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protected static void setContext(String token) throws Exception {
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SecurityTokenProvider.instance.set(token);
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ScopeProvider.instance.set(getCurrentScope(token));
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}
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public int unregister(final String datasourceApi) {
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//TODO: implement me
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return -1;
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}
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public void register(final Resource rdfResource, final String uuid, final Resource type) throws IOException, ResourceRegistryException, ParthenosPublisherException {
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String resURI = rdfResource.getURI();
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log.debug("Processing resource " + resURI + " for registration on JRR");
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JsonFactory jsonFactory = new JsonFactory();
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ParthenosRegistryResource prr = null;
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List<ParthenosRegistryRel> rels = Lists.newArrayList();
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switch(type.getLocalName()){
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case "E7_Activity":
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if(rdfResource.hasProperty(RDF.type, CRMpe.PE1_Service)) {
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prr = processService(rdfResource, jsonFactory, uuid);
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}
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else{
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if(rdfResource.hasProperty(RDF.type, CRMpe.PE35_Project)){
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prr = processProject(rdfResource, jsonFactory, uuid);
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}
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}
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break;
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case "E39_Actor":
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prr = processActor(rdfResource, jsonFactory, uuid);
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break;
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case "E70_Thing":
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if(rdfResource.hasProperty(RDF.type, CRMdig.D1_Digital_Object)) {
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prr = processDigitalObject(rdfResource, jsonFactory, uuid);
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}
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//TODO: include PE32_Curated_Thing and E19_PhysicalObject?
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break;
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case "E55_Type":
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if(rdfResource.hasProperty(RDF.type, CRMpe.PE36_Competency_Type)) {
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prr = processBasicResource(rdfResource, CRMpe.PE36_Competency_Type, jsonFactory, uuid);
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}
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else{
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if(rdfResource.hasProperty(RDF.type, CRMpe.PE37_Protocol_Type))
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prr = processBasicResource(rdfResource, CRMpe.PE37_Protocol_Type, jsonFactory, uuid);
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}
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//TODO: need other E55_Types?
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break;
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case "E29_Design_or_Procedure":
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prr = processBasicResource(rdfResource, CRM.E29_Design_or_Procedure, jsonFactory, uuid);
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break;
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default:
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throw new IllegalArgumentException(String.format("Type "+type.getLocalName()+" not supported"));
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}
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if(prr != null) {
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this.resourceRegistryPublisher.createResource(prr.getRegistryType(), prr.getJson());
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rels = getResourceRels(rdfResource, prr);
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int registeredRels = 0;
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for(ParthenosRegistryRel r : rels){
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//TODO: handle exception
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String res = this.resourceRegistryPublisher.createIsRelatedTo(r.getRelName(), r.getJson());
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//TODO: handle negative response
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if(StringUtils.isNotBlank(res)) registeredRels++;
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}
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log.debug(String.format("Registered %d/%d relationships for uri %s, uuid %s", registeredRels, rels.size(), resURI, uuid));
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}
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else{
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log.warn("Could not register on registry: "+resURI);
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}
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}
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protected ParthenosRegistryResource processService(final Resource res, final JsonFactory jsonFactory, final String uuid) throws IOException {
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//ensure we are not registering generic PE1_Service because the class is abstract and the registry complaints.
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//We only want specific types of services.
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if (res.hasProperty(RDF.type, CRMpe.PE8_E_Service)
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|| res.hasProperty(RDF.type, CRMpe.PE2_Hosting_Service)
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|| res.hasProperty(RDF.type, CRMpe.PE3_Curating_Service)) {
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final ByteArrayOutputStream out = new ByteArrayOutputStream();
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BufferedOutputStream bos = new BufferedOutputStream(out);
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JsonGenerator jg = jsonFactory.createGenerator(bos, JsonEncoding.UTF8);
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jg.writeStartObject();
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//it should never happen to get PE1_Service as a specific type
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String specificType = resourceReader.findSpecificType(res, CRMpe.PE1_Service).getLocalName();
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writeCommon(res, specificType, jg, uuid);
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//******THE FACETS *******//
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jg.writeArrayFieldStart("consistsOf");
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//list of facets
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writeCommonFacets(res, jg);
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facetWriter.writeEventFacet(jg);
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facetWriter.writeRightsFacet(jg, res);
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if (res.hasProperty(CRMpe.PP2_provided_by)) {
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//TODO: shouldn't this be a rel to an actor?
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Resource provider = res.getPropertyResourceValue(CRMpe.PP2_provided_by);
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facetWriter.writeContactReferenceFacet(jg, provider);
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}
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facetWriter.writeDesignatedAccessPointFacet(jg, res);
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jg.writeEndArray();
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jg.writeEndObject();
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jg.close();
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String json = out.toString("UTF-8");
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log.debug(json);
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return new ParthenosRegistryResource().setJson(json).setType(specificType).setUuid(uuid);
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}
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else{
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log.warn(String.format("Skipping resource: %s It is not an instance of a specific service"));
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return null;
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}
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}
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protected ParthenosRegistryResource processProject(final Resource res, final JsonFactory jsonFactory, final String uuid) throws IOException {
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String specificType = resourceReader.findSpecificType(res, CRMpe.PE35_Project).getLocalName();
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final ByteArrayOutputStream out = new ByteArrayOutputStream();
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BufferedOutputStream bos = new BufferedOutputStream(out);
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JsonGenerator jg = jsonFactory.createGenerator(bos, JsonEncoding.UTF8);
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jg.writeStartObject();
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writeCommon(res, specificType, jg, uuid);
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jg.writeArrayFieldStart("consistsOf");
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writeCommonFacets(res, jg);
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jg.writeEndArray();
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jg.writeEndObject();
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jg.close();
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String json = out.toString("UTF-8");
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log.debug(json);
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return new ParthenosRegistryResource().setJson(json).setType(specificType).setUuid(uuid);
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}
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protected ParthenosRegistryResource processActor(final Resource res, final JsonFactory jsonFactory, final String uuid) throws IOException {
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String specificType = resourceReader.findSpecificType(res, CRM.E39_Actor).getLocalName();
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final ByteArrayOutputStream out = new ByteArrayOutputStream();
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BufferedOutputStream bos = new BufferedOutputStream(out);
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JsonGenerator jg = jsonFactory.createGenerator(bos, JsonEncoding.UTF8);
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jg.writeStartObject();
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writeCommon(res, specificType, jg, uuid);
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//******THE FACETS *******//
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jg.writeArrayFieldStart("consistsOf");
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//list of facets
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writeCommonFacets(res, jg);
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facetWriter.writeContactReferenceFacet(jg, res);
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jg.writeEndArray();
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jg.writeEndObject();
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jg.close();
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String json = out.toString("UTF-8");
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log.debug(json);
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return new ParthenosRegistryResource().setJson(json).setType(specificType).setUuid(uuid);
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}
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protected ParthenosRegistryResource processDigitalObject(final Resource res, final JsonFactory jsonFactory, final String uuid) throws IOException {
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String specificType = resourceReader.findSpecificType(res, CRMdig.D1_Digital_Object).getLocalName();
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final ByteArrayOutputStream out = new ByteArrayOutputStream();
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BufferedOutputStream bos = new BufferedOutputStream(out);
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JsonGenerator jg = jsonFactory.createGenerator(bos, JsonEncoding.UTF8);
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jg.writeStartObject();
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writeCommon(res, specificType, jg, uuid);
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//******THE FACETS *******//
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jg.writeArrayFieldStart("consistsOf");
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//list of facets
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writeCommonFacets(res, jg);
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facetWriter.writeTemporalCoverageFacet(jg, res);
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facetWriter.writeRightsFacet(jg, res);
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jg.writeEndArray();
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jg.writeEndObject();
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jg.close();
|
270 |
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|
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|
String json = out.toString("UTF-8");
|
271 |
49324
|
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|
log.debug(json);
|
272 |
|
|
return new ParthenosRegistryResource().setUuid(uuid).setType(specificType).setJson(json);
|
273 |
|
|
}
|
274 |
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|
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|
|
275 |
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|
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|
protected ParthenosRegistryResource processBasicResource(final Resource res, final Resource basicType, final JsonFactory jsonFactory, final String uuid) throws IOException {
|
276 |
49596
|
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|
final ByteArrayOutputStream out = new ByteArrayOutputStream();
|
277 |
|
|
BufferedOutputStream bos = new BufferedOutputStream(out);
|
278 |
|
|
JsonGenerator jg = jsonFactory.createGenerator(bos, JsonEncoding.UTF8);
|
279 |
49324
|
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|
jg.writeStartObject();
|
280 |
50937
|
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|
String specificType = resourceReader.findSpecificType(res, basicType).getLocalName();
|
281 |
|
|
writeCommon(res, specificType, jg, uuid);
|
282 |
49324
|
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|
//******THE FACETS *******//
|
283 |
|
|
jg.writeArrayFieldStart("consistsOf");
|
284 |
50937
|
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|
writeCommonFacets(res, jg);
|
285 |
49324
|
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|
jg.writeEndArray();
|
286 |
|
|
jg.writeEndObject();
|
287 |
|
|
jg.close();
|
288 |
49596
|
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|
String json = out.toString("UTF-8");
|
289 |
49324
|
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|
log.debug(json);
|
290 |
|
|
return new ParthenosRegistryResource().setJson(json).setType(specificType).setUuid(uuid);
|
291 |
|
|
}
|
292 |
|
|
|
293 |
50937
|
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|
protected List<ParthenosRegistryRel> getResourceRels(final Resource resource, final ParthenosRegistryResource prr) throws IOException, ResourceRegistryException, InvalidQueryException, ParthenosPublisherException {
|
294 |
|
|
JsonFactory jsonFactory = new JsonFactory();
|
295 |
|
|
List<ParthenosRegistryRel> jsonRels = Lists.newArrayList();
|
296 |
|
|
|
297 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE1_Service)) {
|
298 |
|
|
jsonRels.addAll(getRels(resource, prr, CRM.P129_is_about, jsonFactory));
|
299 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP2_provided_by, jsonFactory));
|
300 |
|
|
//TODO: IsRelatedTo the contact person of the provider. Interpret '"Follow path of service ‘Provided by’ and switch E39 for E21: E21- >p76->E51"
|
301 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP45_has_competency, jsonFactory));
|
302 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP4_hosts_object, jsonFactory));
|
303 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP31_uses_curation_plan, jsonFactory));
|
304 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP32_curates, jsonFactory));
|
305 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP6_hosts_digital_object, jsonFactory));
|
306 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP7_hosts_software_object, jsonFactory));
|
307 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP8_hosts_dataset, jsonFactory));
|
308 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP29_uses_access_protocol, jsonFactory));
|
309 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP47_has_protocol_type, jsonFactory));
|
310 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP46_brokers_access_to, jsonFactory));
|
311 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP11_curates_volatile_digital_object, jsonFactory));
|
312 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP12_curates_volatile_software, jsonFactory));
|
313 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP13_curates_volatile_dataset, jsonFactory));
|
314 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP15_delivers_on_request, jsonFactory));
|
315 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP45_has_competency, jsonFactory));
|
316 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP1i_is_currently_offered_by, CRMpe.PP1_currently_offers, jsonFactory));
|
317 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP46i_has_access_brokered_by, CRMpe.PP46_brokers_access_to, jsonFactory));
|
318 |
|
|
}
|
319 |
|
|
if(resource.hasProperty(RDF.type, CRMdig.D1_Digital_Object)){
|
320 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP6i_is_digital_object_hosted_by, CRMpe.PP6_hosts_digital_object, jsonFactory));
|
321 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP18i_is_digital_object_part_of, CRMpe.PP18_has_digital_object_part, jsonFactory));
|
322 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP39i_has_metadata, CRMpe.PP39_is_metadata_for, jsonFactory));
|
323 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP41i_is_indexed_by, CRMpe.PP41_is_index_of, jsonFactory));
|
324 |
|
|
}
|
325 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE18_Dataset)) {
|
326 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP23i_is_dataset_part_of, CRMpe.PP23_has_dataset_part, jsonFactory));
|
327 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP8i_is_dataset_hosted_by, CRMpe.PP8_hosts_dataset, jsonFactory));
|
328 |
|
|
}
|
329 |
|
|
if(resource.hasProperty(RDF.type, CRMdig.D14_Software)) {
|
330 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP14i_is_run_by, CRMpe.PP14_runs_on_request, jsonFactory));
|
331 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP15i_is_delivered_by, CRMpe.PP15_delivers_on_request, jsonFactory));
|
332 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP21i_is_software_part_of, CRMpe.PP21_has_software_part, jsonFactory));
|
333 |
|
|
//TODO: is this correct? Service --> uses access protocol --> Software ?
|
334 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP29i_is_access_protocol_used_by, CRMpe.PP29_uses_access_protocol, jsonFactory));
|
335 |
|
|
}
|
336 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE19_Persistent_Digital_Object)) {
|
337 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP16_has_persistent_digital_object_part, jsonFactory));
|
338 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP16i_is_persistent_digital_object_part_of, CRMpe.PP16_has_persistent_digital_object_part, jsonFactory));
|
339 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP17i_is_snapshot_of, CRMpe.PP17_has_snapshot, jsonFactory));
|
340 |
|
|
}
|
341 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE20_Volatile_Digital_Object)) {
|
342 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP17_has_snapshot, jsonFactory));
|
343 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP18_has_digital_object_part, jsonFactory));
|
344 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP11i_is_volatile_digital_object_curated_by, CRMpe.PP11_curates_volatile_digital_object, jsonFactory));
|
345 |
|
|
}
|
346 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE21_Persistent_Software)) {
|
347 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP19_has_persistent_software_part, jsonFactory));
|
348 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP19i_is_persistent_software_part_of, CRMpe.PP19_has_persistent_software_part, jsonFactory));
|
349 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP22i_is_release_of, CRMpe.PP22_has_release, jsonFactory));
|
350 |
|
|
}
|
351 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE22_Persistent_Dataset)) {
|
352 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP20_has_persistent_dataset_part, jsonFactory));
|
353 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP39_is_metadata_for, jsonFactory));
|
354 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP20i_is_persistent_dataset_part_of, CRMpe.PP20_has_persistent_dataset_part, jsonFactory));
|
355 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP24i_is_dataset_snapshot_of, CRMpe.PP24_has_dataset_snapshot, jsonFactory));
|
356 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP40i_is_deprecated_by, CRMpe.PP40_created_successor_of, jsonFactory));
|
357 |
|
|
}
|
358 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE23_Volatile_Software)) {
|
359 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP21_has_software_part, jsonFactory));
|
360 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP22_has_release, jsonFactory));
|
361 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP12i_is_volatile_software_curated_by, CRMpe.PP12_curates_volatile_software, jsonFactory));
|
362 |
|
|
}
|
363 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE24_Volatile_Dataset)) {
|
364 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP23_has_dataset_part, jsonFactory));
|
365 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP24_has_dataset_snapshot, jsonFactory));
|
366 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP41_is_index_of, jsonFactory));
|
367 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP13i_is_volatile_dataset_curated_by, CRMpe.PP13_curates_volatile_dataset, jsonFactory));
|
368 |
|
|
}
|
369 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE26_RI_Project)) {
|
370 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP25_has_maintaining_RI, jsonFactory));
|
371 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP1_currently_offers, jsonFactory));
|
372 |
|
|
}
|
373 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE35_Project)) {
|
374 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP43_supported_project_activity, jsonFactory));
|
375 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP44_has_maintaining_team, jsonFactory));
|
376 |
|
|
}
|
377 |
|
|
if(resource.hasProperty(RDF.type, CRM.E39_Actor)) {
|
378 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP2i_provides, CRMpe.PP2_provided_by, jsonFactory));
|
379 |
|
|
}
|
380 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE34_Team)) {
|
381 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP44i_is_maintaining_team_of, CRMpe.PP44_has_maintaining_team, jsonFactory));
|
382 |
|
|
}
|
383 |
|
|
if(resource.hasProperty(RDF.type, CRM.E70_Thing)) {
|
384 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP4i_is_object_hosted_by, CRMpe.PP4_hosts_object, jsonFactory));
|
385 |
|
|
}
|
386 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE25_RI_Consortium)) {
|
387 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP25i_is_maintaining_RI_of, CRMpe.PP25_has_maintaining_RI, jsonFactory));
|
388 |
|
|
}
|
389 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE28_Curation_Plan)) {
|
390 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP31i_is_curation_plan_used_by, CRMpe.PP31_uses_curation_plan, jsonFactory));
|
391 |
|
|
}
|
392 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE32_Curated_Thing)) {
|
393 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP32i_is_curated_by, CRMpe.PP32_curates, jsonFactory));
|
394 |
|
|
}
|
395 |
|
|
if(resource.hasProperty(RDF.type, CRM.E65_Creation)) {
|
396 |
|
|
jsonRels.addAll(getRels(resource, prr, CRMpe.PP40_created_successor_of, jsonFactory));
|
397 |
|
|
}
|
398 |
|
|
if(resource.hasProperty(RDF.type, CRM.E7_Activity)) {
|
399 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP43i_is_project_activity_supported_by, CRMpe.PP43_supported_project_activity, jsonFactory));
|
400 |
|
|
}
|
401 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE36_Competency_Type)) {
|
402 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP45i_is_competency_of, CRMpe.PP45_has_competency, jsonFactory));
|
403 |
|
|
}
|
404 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE37_Protocol_Type)) {
|
405 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP47i_is_protocol_type_of, CRMpe.PP47_has_protocol_type, jsonFactory));
|
406 |
|
|
}
|
407 |
|
|
if(resource.hasProperty(RDF.type, CRMpe.PE38_Schema)) {
|
408 |
|
|
jsonRels.addAll(getInverseRels(resource, prr, CRMpe.PP47i_is_protocol_type_of, CRMpe.PP47_has_protocol_type, jsonFactory));
|
409 |
|
|
}
|
410 |
|
|
return jsonRels;
|
411 |
|
|
}
|
412 |
|
|
|
413 |
|
|
protected List<ParthenosRegistryRel> getRels(final Resource subject, final ParthenosRegistryResource subjectPrr, final Property rel, final JsonFactory jsonFactory) throws IOException, InvalidQueryException, ParthenosPublisherException, ResourceRegistryException {
|
414 |
|
|
List<ParthenosRegistryRel> rels = Lists.newArrayList();
|
415 |
|
|
StmtIterator it = subject.listProperties(rel);
|
416 |
|
|
while (it.hasNext()) {
|
417 |
|
|
Resource obj = it.nextStatement().getResource();
|
418 |
|
|
if (obj == null) throw new ParthenosPublisherException(String.format("No target resource available for %s --> %s", subject.getURI(), rel.getURI()));
|
419 |
|
|
ParthenosRegistryResource target = findInRegistry(obj.getURI());
|
420 |
|
|
if(target == null){
|
421 |
|
|
log.debug(String.format("Rel: %s - %s - %s: target is not yet registered", subject.getURI(), rel.getLocalName(), obj.getURI()));
|
422 |
49200
|
alessia.ba
|
}
|
423 |
50937
|
alessia.ba
|
else{
|
424 |
|
|
rels.add(getRel(subjectPrr, rel, target, jsonFactory));
|
425 |
|
|
}
|
426 |
49200
|
alessia.ba
|
}
|
427 |
50937
|
alessia.ba
|
return rels;
|
428 |
49180
|
alessia.ba
|
}
|
429 |
49145
|
alessia.ba
|
|
430 |
50937
|
alessia.ba
|
protected ParthenosRegistryRel getRel(final ParthenosRegistryResource subjectPrr, final Property rel, final ParthenosRegistryResource targetPrr, final JsonFactory jsonFactory ) throws IOException {
|
431 |
|
|
String relJson = relWriter.writeRelationship(jsonFactory, rel.getLocalName(), subjectPrr.getUuid(), subjectPrr.getRegistryType(), targetPrr.getUuid(), targetPrr.getRegistryType());
|
432 |
|
|
return new ParthenosRegistryRel().json(relJson).relName(rel.getLocalName());
|
433 |
|
|
}
|
434 |
49200
|
alessia.ba
|
|
435 |
50937
|
alessia.ba
|
protected List<ParthenosRegistryRel> getInverseRels(final Resource resource, final ParthenosRegistryResource resourcePRR, final Property rel, final Property inverseRel, final JsonFactory jsonFactory) throws IOException, InvalidQueryException, ResourceRegistryException {
|
436 |
|
|
List<ParthenosRegistryRel> rels = Lists.newArrayList();
|
437 |
|
|
StmtIterator it = resource.listProperties(rel);
|
438 |
|
|
while (it.hasNext()) {
|
439 |
|
|
Resource obj = it.nextStatement().getResource();
|
440 |
|
|
String objURI = obj.getURI();
|
441 |
|
|
ParthenosRegistryResource registryRes = findInRegistry(objURI);
|
442 |
|
|
if (registryRes != null) {
|
443 |
|
|
rels.add(getRel(registryRes, inverseRel, resourcePRR, jsonFactory));
|
444 |
|
|
}
|
445 |
|
|
}
|
446 |
|
|
return rels;
|
447 |
|
|
}
|
448 |
49200
|
alessia.ba
|
|
449 |
50937
|
alessia.ba
|
/**
|
450 |
|
|
* Write the common properties: header, class for all resources
|
451 |
|
|
*
|
452 |
|
|
* @param resource input Resource.
|
453 |
|
|
* @param className name of the class for the registry
|
454 |
|
|
* @param jg JsonGenerator to write with.
|
455 |
|
|
* @param uuid uuid of the resource
|
456 |
|
|
*/
|
457 |
|
|
protected void writeCommon(final Resource resource, final String className, final JsonGenerator jg, final String uuid)
|
458 |
|
|
throws IOException {
|
459 |
|
|
jg.writeObjectFieldStart("header");
|
460 |
|
|
jg.writeStringField("uuid", uuid);
|
461 |
49324
|
alessia.ba
|
jg.writeEndObject();
|
462 |
50937
|
alessia.ba
|
jg.writeStringField("@class", StringUtils.remove(className, '-'));
|
463 |
49324
|
alessia.ba
|
}
|
464 |
49200
|
alessia.ba
|
|
465 |
50937
|
alessia.ba
|
/**
|
466 |
|
|
* Write the common facets: identifier and info facets
|
467 |
|
|
*
|
468 |
|
|
* @param res
|
469 |
|
|
* @param jg
|
470 |
|
|
*/
|
471 |
|
|
protected void writeCommonFacets(final Resource res, final JsonGenerator jg) throws IOException {
|
472 |
|
|
facetWriter.writeIdentifierFacet(jg, res.getURI());
|
473 |
|
|
facetWriter.writeP1Facets(jg, res);
|
474 |
|
|
facetWriter.writeInfoFacet(jg, res);
|
475 |
|
|
}
|
476 |
49145
|
alessia.ba
|
|
477 |
51065
|
alessia.ba
|
public ParthenosRegistryResource findInRegistry(final String uri) throws ResourceRegistryException {
|
478 |
51063
|
alessia.ba
|
Map<String, Object> queryMap = Maps.newHashMap();
|
479 |
|
|
queryMap.put("value", uri);
|
480 |
51065
|
alessia.ba
|
List<org.gcube.informationsystem.model.entity.Resource> resources = resourceRegistryClient.getFilteredResources(
|
481 |
|
|
org.gcube.informationsystem.model.entity.Resource.class, IsIdentifiedBy.class, IdentifierFacet.class, true, queryMap);
|
482 |
51063
|
alessia.ba
|
if(resources.isEmpty()) return null;
|
483 |
|
|
org.gcube.informationsystem.model.entity.Resource resource = resources.get(0);
|
484 |
|
|
if(resources.size() > 1){
|
485 |
|
|
log.warn("More than one resource in registry with uri "+uri+" -- considering the first, with uuid: "+resource.getHeader().getUUID());
|
486 |
|
|
}
|
487 |
|
|
//build PRR from res, need to have type and uuid
|
488 |
|
|
//TODO: check the type is what we want
|
489 |
|
|
ParthenosRegistryResource prr = new ParthenosRegistryResource().setUuid(resource.getHeader().getUUID().toString()).setType(resource.getClass().getSimpleName())
|
490 |
|
|
log.debug(prr.toString());
|
491 |
50937
|
alessia.ba
|
return prr;
|
492 |
|
|
}
|
493 |
50098
|
alessia.ba
|
|
494 |
50937
|
alessia.ba
|
|
495 |
49189
|
alessia.ba
|
public FacetWriter getFacetWriter() {
|
496 |
|
|
return facetWriter;
|
497 |
49145
|
alessia.ba
|
}
|
498 |
|
|
|
499 |
49189
|
alessia.ba
|
public void setFacetWriter(final FacetWriter facetWriter) {
|
500 |
|
|
this.facetWriter = facetWriter;
|
501 |
49180
|
alessia.ba
|
}
|
502 |
49396
|
alessia.ba
|
|
503 |
|
|
public String getApplicationToken() {
|
504 |
|
|
return applicationToken;
|
505 |
|
|
}
|
506 |
|
|
|
507 |
|
|
public void setApplicationToken(final String applicationToken) {
|
508 |
|
|
this.applicationToken = applicationToken;
|
509 |
|
|
}
|
510 |
|
|
|
511 |
|
|
public String getRegistryBaseURL() {
|
512 |
|
|
return registryBaseURL;
|
513 |
|
|
}
|
514 |
|
|
|
515 |
|
|
public void setRegistryBaseURL(final String registryBaseURL) {
|
516 |
|
|
this.registryBaseURL = registryBaseURL;
|
517 |
|
|
}
|
518 |
49403
|
alessia.ba
|
|
519 |
|
|
public RelWriter getRelWriter() {
|
520 |
|
|
return relWriter;
|
521 |
|
|
}
|
522 |
|
|
|
523 |
|
|
public void setRelWriter(final RelWriter relWriter) {
|
524 |
|
|
this.relWriter = relWriter;
|
525 |
|
|
}
|
526 |
|
|
|
527 |
|
|
public ResourceRegistryPublisher getResourceRegistryPublisher() {
|
528 |
|
|
return resourceRegistryPublisher;
|
529 |
|
|
}
|
530 |
|
|
|
531 |
|
|
public void setResourceRegistryPublisher(final ResourceRegistryPublisher resourceRegistryPublisher) {
|
532 |
|
|
this.resourceRegistryPublisher = resourceRegistryPublisher;
|
533 |
|
|
}
|
534 |
|
|
|
535 |
|
|
public ResourceRegistryClient getResourceRegistryClient() {
|
536 |
|
|
return resourceRegistryClient;
|
537 |
|
|
}
|
538 |
|
|
|
539 |
|
|
public void setResourceRegistryClient(final ResourceRegistryClient resourceRegistryClient) {
|
540 |
|
|
this.resourceRegistryClient = resourceRegistryClient;
|
541 |
|
|
}
|
542 |
|
|
|
543 |
50099
|
alessia.ba
|
public ResourceReader getResourceReader() {
|
544 |
|
|
return resourceReader;
|
545 |
|
|
}
|
546 |
|
|
|
547 |
|
|
public void setResourceReader(final ResourceReader resourceReader) {
|
548 |
|
|
this.resourceReader = resourceReader;
|
549 |
|
|
}
|
550 |
49145
|
alessia.ba
|
}
|