/**
* 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);
}
private static ResultSetRewindable unique(ResultSetRewindable results) {
// VERY crude. Utilises the fact that bindings have value equality.
List<Binding> x = new ArrayList<Binding>();
Set<Binding> seen = new HashSet<Binding>();
for (; results.hasNext(); ) {
Binding b = results.nextBinding();
if (seen.contains(b)) continue;
seen.add(b);
x.add(b);
}
QueryIterator qIter = new QueryIterPlainWrapper(x.iterator());
ResultSet rs =
new ResultSetStream(results.getResultVars(), ModelFactory.createDefaultModel(), qIter);
return ResultSetFactory.makeRewindable(rs);
}
private void LoadQueriesBtnMouseClicked(
java.awt.event.MouseEvent evt) { // GEN-FIRST:event_LoadQueriesBtnMouseClicked
// Algorithm
/*
* Goto queries' directory and load all queryfile.query to Combobox
* Change local directory to repository diretory
* List all file there
* Try to load all file and add to combobox
*
*
*/
String sQueryRepositoryPath = "/home/natuan/Documents/OntologyMysql/QueriesRepository/";
File dir = new File(sQueryRepositoryPath);
String[] children = dir.list();
if (children == null) {
// Either dir does not exist or is not a directory
} else {
System.out.println("list files");
for (int i = 0; i < children.length; i++) {
// Get filename of file or directory
String filename = children[i];
String sContent = ReadWholeFileToString(sQueryRepositoryPath + filename);
queryList.add(sContent);
QueriesCmb.addItem(filename);
SparqlTxtArea.setText(sContent);
// System.out.println(filename);
}
QueriesCmb.setSelectedIndex(children.length - 1);
}
} // GEN-LAST:event_LoadQueriesBtnMouseClicked
/** Starts the harvester for queries and/or URLs */
public boolean runIndexAll() {
logger.info(
"Starting RDF harvester: endpoint [{}], queries [{}],"
+ "URIs [{}], index name [{}], typeName [{}]",
rdfEndpoint,
rdfQueries,
rdfUris,
indexName,
typeName);
while (true) {
if (this.closed) {
logger.info(
"Ended harvest for endpoint [{}], queries [{}],"
+ "URIs [{}], index name {}, type name {}",
rdfEndpoint,
rdfQueries,
rdfUris,
indexName,
typeName);
return true;
}
/** Harvest from a SPARQL endpoint */
if (!rdfQueries.isEmpty()) {
harvestFromEndpoint();
}
/** Harvest from RDF dumps */
harvestFromDumps();
closed = true;
}
}
private ResultSetRewindable convertToStrings(ResultSetRewindable resultsActual) {
List<Binding> bindings = new ArrayList<Binding>();
while (resultsActual.hasNext()) {
Binding b = resultsActual.nextBinding();
BindingMap b2 = BindingFactory.create();
for (String vn : resultsActual.getResultVars()) {
Var v = Var.alloc(vn);
Node n = b.get(v);
String s;
if (n == null) s = "";
else if (n.isBlank()) s = "_:" + n.getBlankNodeLabel();
else s = NodeFunctions.str(n);
b2.add(v, NodeFactory.createLiteral(s));
}
bindings.add(b2);
}
ResultSet rs =
new ResultSetStream(
resultsActual.getResultVars(), null, new QueryIterPlainWrapper(bindings.iterator()));
return ResultSetFactory.makeRewindable(rs);
}
private void QueriesCmbItemStateChanged(
java.awt.event.ItemEvent evt) { // GEN-FIRST:event_QueriesCmbItemStateChanged
// TODO add your handling code here:
int iQueryNumber = QueriesCmb.getSelectedIndex();
SparqlTxtArea.setText(queryList.get(iQueryNumber).toString());
} // GEN-LAST:event_QueriesCmbItemStateChanged
/**
* Build a query returning all triples in which members of uris are the subjects of the triplets.
*
* <p>If toDescribeURIs is true the query will automatically add logic to retrieve the labels
* directly from the SPARQL endpoint.
*
* @param uris URIs for queried resources
* @return a CONSTRUCT query string
*/
private String getSyncQueryStr(Iterable<String> uris) {
StringBuilder uriSetStrBuilder = new StringBuilder();
String delimiter = "";
uriSetStrBuilder.append("(");
for (String uri : uris) {
uriSetStrBuilder.append(delimiter).append(String.format("<%s>", uri));
delimiter = ", ";
}
uriSetStrBuilder.append(")");
String uriSet = uriSetStrBuilder.toString();
/* Get base triplets having any element from uris as subject */
StringBuilder queryBuilder = new StringBuilder();
queryBuilder
.append("CONSTRUCT { ?s ?p ?o } WHERE {")
.append("{?s ?p ?o")
.append(String.format(" . FILTER (?s in %s )", uriSet));
/* Perform uri label resolution only if desired */
if (uriDescriptionList.isEmpty()) {
queryBuilder.append("}}");
return queryBuilder.toString();
}
/* Filter out properties having a label */
int index = 0;
for (String prop : uriDescriptionList) {
index++;
String filterTemplate = " . OPTIONAL { ?o <%s> ?o%d } " + " . FILTER(!BOUND(?o%d))";
queryBuilder.append(String.format(filterTemplate, prop, index, index));
}
queryBuilder.append("}");
/* We need this redundant clause as UNION queries can't handle sub-selects
* without a prior clause.
*/
String redundantClause =
"<http://www.w3.org/2000/01/rdf-schema#Class> "
+ "a <http://www.w3.org/2000/01/rdf-schema#Class>";
/* Add labels for filtered out properties */
for (String prop : uriDescriptionList) {
/* Resolve ?o as str(?label) for the resource ?res
* label is taken as being ?res <prop> ?label
*
* We need to take str(?label) in order to drop
* language references of the terms so that the document
* is indexed with a language present only in it's top-level
* properties.
*
* As some Virtuoso versions do not allow the usage
* of BIND so we have to create a sub-select in order to bind
* ?o to str(?label)
*
* The sub-select works only with a prior clause.
* We are using a redundant clause that is always true
*/
String partQueryTemplate =
" UNION "
+ "{ "
+ redundantClause
+ " . "
+ "{ SELECT ?s ?p (str(?label) as ?o) { "
+ " ?s ?p ?res"
+ " . FILTER (?s in %s)"
+ " . ?res <%s> ?label }}}";
queryBuilder.append(String.format(partQueryTemplate, uriSet, prop));
}
queryBuilder.append("}");
return queryBuilder.toString();
}
/**
* Sets the {@link Harvester}'s {@link #rdfPropList} parameter
*
* @param list - a list of properties names that are either required in the object description, or
* undesired, depending on its {@link #isWhitePropList}
* @return the same {@link Harvester} with the {@link #rdfPropList} parameter set
*/
public Harvester rdfPropList(List<String> list) {
if (!list.isEmpty()) {
rdfPropList = new ArrayList<String>(list);
}
return this;
}