Ejemplo n.º 1
0
  public static Method create(QuerySolution qs) throws Exception {
    Resource id = (Resource) qs.get("x");
    Literal fullPath = (Literal) qs.get("fullPath");
    Literal name = (Literal) qs.get("name");
    Literal accessModifier = (Literal) qs.get("accessModifier");
    Literal lineStart = (Literal) qs.get("line_start");
    Literal lineEnd = (Literal) qs.get("line_end");
    Resource returnType = (Resource) qs.get("returnType");
    Resource hasParameter = (Resource) qs.get("hasParameter");
    Resource throwsException = (Resource) qs.get("throwsException");
    Resource belongsTo = (Resource) qs.get("belongsTo");

    Method meth = new Method(id.toString(), name.getValue().toString());
    meth.setAccessModifier(accessModifier.getValue().toString());
    meth.setFullPath(fullPath.getValue().toString());
    meth.setLineStart(lineStart.getInt());
    meth.setLineEnd(lineEnd.getInt());
    meth.setReturnType(returnType.toString());
    if (hasParameter != null) {
      meth.setHasParameter(hasParameter.toString());
    }
    if (throwsException != null) {
      meth.setThrowsException(throwsException.toString());
    }
    meth.setBelongsTo(belongsTo.toString());

    return meth;
  }
  protected String jcrMixinNameFromRdfResource(final Resource mixinResource)
      throws RepositoryException {

    final String namespace = getJcrNamespaceForRDFNamespace(mixinResource.getNameSpace());
    String namespacePrefix = null;
    final Map<String, String> streamNSMap =
        checkNotNull(stream().namespaces(), "Use an empty map of namespaces, not null!");
    if (streamNSMap.containsValue(namespace)) {
      LOGGER.debug("Found namespace: {} in stream namespace mapping.", namespace);
      for (final Map.Entry<String, String> entry : streamNSMap.entrySet()) {
        final String streamNamespace = entry.getValue();
        if (namespace.equals(streamNamespace)) {
          LOGGER.debug(
              "Found namespace: {} in stream namespace mapping with prefix: {}.",
              namespace,
              namespacePrefix);
          namespacePrefix = entry.getKey();
        }
      }
    } else {
      try {
        namespacePrefix = session().getNamespacePrefix(namespace);
        LOGGER.debug(
            "Found namespace: {} in repository namespace mapping with prefix: {}.",
            namespace,
            namespacePrefix);
      } catch (final NamespaceException e) {
        throw new MalformedRdfException(
            "Unable to resolve registered namespace for resource " + mixinResource.toString(), e);
      }
    }
    final String mixinName = namespacePrefix + ":" + mixinResource.getLocalName();
    LOGGER.debug("Constructed JCR mixin name: {}", mixinName);
    return mixinName;
  }
  /**
   * Index all the resources in a Jena Model to ES
   *
   * @param model the model to index
   * @param bulkRequest a BulkRequestBuilder
   * @param getPropLabel if set to true all URI property values will be indexed as their label. The
   *     label is taken as the value of one of the properties set in {@link #uriDescriptionList}.
   */
  private void addModelToES(Model model, BulkRequestBuilder bulkRequest, boolean getPropLabel) {
    long startTime = System.currentTimeMillis();
    long bulkLength = 0;
    HashSet<Property> properties = new HashSet<Property>();

    StmtIterator it = model.listStatements();
    while (it.hasNext()) {
      Statement st = it.nextStatement();
      Property prop = st.getPredicate();
      String property = prop.toString();

      if (rdfPropList.isEmpty()
          || (isWhitePropList && rdfPropList.contains(property))
          || (!isWhitePropList && !rdfPropList.contains(property))
          || (normalizeProp.containsKey(property))) {
        properties.add(prop);
      }
    }

    ResIterator resIt = model.listSubjects();

    while (resIt.hasNext()) {
      Resource rs = resIt.nextResource();
      Map<String, ArrayList<String>> jsonMap = getJsonMap(rs, properties, model, getPropLabel);

      bulkRequest.add(
          client.prepareIndex(indexName, typeName, rs.toString()).setSource(mapToString(jsonMap)));
      bulkLength++;

      // We want to execute the bulk for every  DEFAULT_BULK_SIZE requests
      if (bulkLength % EEASettings.DEFAULT_BULK_SIZE == 0) {
        BulkResponse bulkResponse = bulkRequest.execute().actionGet();
        // After executing, flush the BulkRequestBuilder.
        bulkRequest = client.prepareBulk();

        if (bulkResponse.hasFailures()) {
          processBulkResponseFailure(bulkResponse);
        }
      }
    }

    // Execute remaining requests
    if (bulkRequest.numberOfActions() > 0) {
      BulkResponse response = bulkRequest.execute().actionGet();
      // Handle failure by iterating through each bulk response item
      if (response.hasFailures()) {
        processBulkResponseFailure(response);
      }
    }

    // Show time taken to index the documents
    logger.info(
        "Indexed {} documents on {}/{} in {} seconds",
        bulkLength,
        indexName,
        typeName,
        (System.currentTimeMillis() - startTime) / 1000.0);
  }
  public static void main(String[] args) {

    List<String> obj = new ArrayList<String>();

    Scanner input = new Scanner(System.in);

    System.out.print("Enter URI: ");

    String userIn = input.nextLine();

    // create an empty Model
    Model model = ModelFactory.createDefaultModel();

    // read the RDF/XML file
    model.read(userIn);

    // write it to standard out
    // model.write(System.out);

    // list the statements in the Model
    StmtIterator iter = model.listStatements();

    System.out.println();

    // print out the predicate, subject and object of each statement
    while (iter.hasNext()) {
      Statement stmt = iter.nextStatement(); // get next statement
      Resource subject = stmt.getSubject(); // get the subject
      Property predicate = stmt.getPredicate(); // get the predicate
      RDFNode object = stmt.getObject(); // get the object

      System.out.print(subject.toString());
      System.out.print(" -> " + predicate.toString() + " -> ");
      if (object instanceof Resource) {
        System.out.print(object.toString() + "\n");
      } else {
        // object is a literal
        System.out.print(" \"" + object.toString() + "\"\n");
      }
    }

    /* for(int i = 0; i < (obj.size()); i++){

    	String sparqlQueryString1=
    								"SELECT ?s ?o "+
    								"WHERE {"+
    								"?s ?p ?o ."+
    								"?o <bif:contains> \""+obj.get(i)+"\" ."+
    								"}"+
    								"limit 10";

    		      Query query = QueryFactory.create(sparqlQueryString1);
    		      QueryExecution qexec = QueryExecutionFactory.sparqlService("http://pubmed.bio2rdf.org/sparql", query);

    		      ResultSet results = qexec.execSelect();
    		      System.out.println("Query: "+obj.get(i));
    		      ResultSetFormatter.out(System.out, results, query);

    		     qexec.close() ;
    } */

  }
Ejemplo n.º 5
0
  private Model execute(Model inputModel, String endpoint) {
    Model cube = createModel();

    Resource dataset;
    Calendar calendar = Calendar.getInstance(TimeZone.getDefault());
    dataset = cube.createResource(GK.uri + "Average_Surface", QB.Dataset);
    dataset.addLiteral(RDFS.comment, "Average Surface per class");
    dataset.addLiteral(DCTerms.date, cube.createTypedLiteral(calendar));
    dataset.addLiteral(DCTerms.publisher, "R & D, Unister GmbH, Geoknow");
    dataset.addProperty(QB.structure, cube.createResource(STRUCTURE));
    if (endpoint != null) {
      dataset.addProperty(DCTerms.source, endpoint);
    }

    QueryExecution qExec;
    if (inputModel != null) {
      qExec = QueryExecutionFactory.create(GET_CLASSES, inputModel);
    } else {
      qExec =
          QueryExecutionFactory.sparqlService(endpoint, GET_CLASSES, defaultGraphs, defaultGraphs);
    }
    ResultSet result = qExec.execSelect();
    int obsCount = 0;
    while (result.hasNext()) {

      double area = 0;
      int i = 0;
      Resource owlClass = result.next().get("class").asResource();

      if (!blacklist.contains(owlClass.toString())) {

        System.out.println(owlClass);
        GET_INSTANCES.setIri("class", owlClass.getURI());

        QueryExecution qexecInstances;
        if (inputModel != null) {
          qexecInstances = QueryExecutionFactory.create(GET_INSTANCES.asQuery(), inputModel);
        } else {
          qexecInstances =
              QueryExecutionFactory.sparqlService(
                  endpoint, GET_INSTANCES.asQuery(), defaultGraphs, defaultGraphs);
        }
        for (ResultSet instancesResult = qexecInstances.execSelect(); instancesResult.hasNext(); ) {

          QuerySolution next = instancesResult.next();
          String instance = next.get("instance").asResource().getURI();
          if (instance == null) {
            continue;
          }
          POLYGON.setIri("instance", instance);
          QueryExecution qexecMember;
          if (inputModel != null) {
            qexecMember = QueryExecutionFactory.create(POLYGON.asQuery(), inputModel);
          } else {
            qexecMember =
                QueryExecutionFactory.sparqlService(
                    endpoint, POLYGON.asQuery(), defaultGraphs, defaultGraphs);
          }
          StringBuilder polygonBuilder = new StringBuilder();
          firstLat = null;
          firstLong = null;
          for (ResultSet latLong = qexecMember.execSelect(); latLong.hasNext(); ) {
            processPoint(latLong.next(), polygonBuilder);
          }
          if (polygonBuilder.length() > 0) {
            area += calculateArea(polygonBuilder);
          } else {
            area = 0;
            polygonBuilder.setLength(0);
            this.firstLat = null;
            this.firstLong = null;
            MULTI_POLYGON.setIri("instance", instance);
            QueryExecution qexecMultiPolygon;
            if (inputModel != null) {
              qexecMultiPolygon = QueryExecutionFactory.create(MULTI_POLYGON.asQuery(), inputModel);
            } else {
              qexecMultiPolygon =
                  QueryExecutionFactory.sparqlService(
                      endpoint, MULTI_POLYGON.asQuery(), defaultGraphs, defaultGraphs);
            }
            String polygonName = "";
            for (ResultSet latLong = qexecMultiPolygon.execSelect(); latLong.hasNext(); ) {
              QuerySolution solution = latLong.next();
              if (!polygonName.equals(solution.get("polygon").asNode().getBlankNodeLabel())) {
                if (polygonBuilder.length() > 0) {
                  area += calculateArea(polygonBuilder);
                }
                this.firstLat = null;
                this.firstLong = null;
                polygonBuilder.setLength(0);
              }
              polygonName = solution.get("polygon").asNode().getBlankNodeLabel();
              processPoint(solution, polygonBuilder);
            }
          }
          i++;
        }
      }
      Resource obs = cube.createResource(structureUri + "/obs/" + obsCount, QB.Observation);
      double average = i == 0 ? 0 : area / i;
      obs.addProperty(GK.MEASURE.Average, cube.createTypedLiteral(average));
      obs.addProperty(GK.DIM.Class, owlClass);
      obs.addProperty(QB.dataset, dataset);
      obsCount++;
    }
    return cube;
  }
 /** @see java.lang.Object#toString() */
 public String toString() {
   return wrapped.toString();
 }
  /**
   * Get JSON map for a given resource by applying the river settings
   *
   * @param rs resource being processed
   * @param properties properties to be indexed
   * @param model model returned by the indexing query
   * @param getPropLabel if set to true all URI property values will be indexed as their label. The
   *     label is taken as the value of one of the properties set in {@link #uriDescriptionList}.
   * @return map of properties to be indexed for res
   */
  private Map<String, ArrayList<String>> getJsonMap(
      Resource rs, Set<Property> properties, Model model, boolean getPropLabel) {
    Map<String, ArrayList<String>> jsonMap = new HashMap<String, ArrayList<String>>();
    ArrayList<String> results = new ArrayList<String>();

    if (addUriForResource) {
      results.add("\"" + rs.toString() + "\"");
      jsonMap.put("http://www.w3.org/1999/02/22-rdf-syntax-ns#about", results);
    }

    Set<String> rdfLanguages = new HashSet<String>();

    for (Property prop : properties) {
      NodeIterator niter = model.listObjectsOfProperty(rs, prop);
      String property = prop.toString();
      results = new ArrayList<String>();

      String lang;
      String currValue;

      while (niter.hasNext()) {
        RDFNode node = niter.next();
        currValue = getStringForResult(node, getPropLabel);
        if (addLanguage) {
          if (node.isLiteral()) {
            lang = node.asLiteral().getLanguage();
            if (!lang.isEmpty()) {
              rdfLanguages.add("\"" + lang + "\"");
            }
          }
        }

        String shortValue = currValue;

        int currLen = currValue.length();
        // Unquote string
        if (currLen > 1) shortValue = currValue.substring(1, currLen - 1);

        // If either whiteMap does contains shortValue
        // or blackMap contains the value
        // skip adding it to the index
        boolean whiteMapCond =
            whiteMap.containsKey(property) && !whiteMap.get(property).contains(shortValue);
        boolean blackMapCond =
            blackMap.containsKey(property) && blackMap.get(property).contains(shortValue);

        if (whiteMapCond || blackMapCond) {
          continue;
        }

        if (normalizeObj.containsKey(shortValue)) {
          results.add("\"" + normalizeObj.get(shortValue) + "\"");
        } else {
          results.add(currValue);
        }
      }

      // Do not index empty properties
      if (results.isEmpty()) continue;

      if (normalizeProp.containsKey(property)) {
        property = normalizeProp.get(property);
        if (jsonMap.containsKey(property)) {
          jsonMap.get(property).addAll(results);
        } else {
          jsonMap.put(property, results);
        }
      } else {
        jsonMap.put(property, results);
      }
    }

    if (addLanguage) {
      if (rdfLanguages.isEmpty() && !language.isEmpty()) rdfLanguages.add(language);
      if (!rdfLanguages.isEmpty()) jsonMap.put("language", new ArrayList<String>(rdfLanguages));
    }

    for (Map.Entry<String, String> it : normalizeMissing.entrySet()) {
      if (!jsonMap.containsKey(it.getKey())) {
        ArrayList<String> res = new ArrayList<String>();
        res.add("\"" + it.getValue() + "\"");
        jsonMap.put(it.getKey(), res);
      }
    }

    return jsonMap;
  }