private static boolean hasPermission(
String userPrefix, String username, String uri, Property[] permissions) {
Set<Property> permissionSet = new HashSet<Property>();
Resource resource = configModel.createResource(uri);
Resource user;
if (username == null) user = PERM.Public;
else user = configModel.createResource(userPrefix + username);
for (Property permission : permissions) {
if (configModel.contains(user, permission, resource)) return true;
permissionSet.add(permission);
}
StmtIterator stmts = user.listProperties();
while (stmts.hasNext()) {
Statement stmt = stmts.next();
if (!permissionSet.contains(stmt.getPredicate())) continue;
RDFNode resourceMatch = stmt.getObject();
if (!(resourceMatch.isResource()
&& configModel.contains((Resource) resourceMatch, RDF.type, PERM.ResourceMatch)))
continue;
RDFNode matchRegex = ((Resource) resourceMatch).getProperty(PERM.matchExpression).getObject();
if (matchRegex == null || !matchRegex.isLiteral()) continue;
try {
if (uri.matches(((Literal) matchRegex).getString())) return true;
} catch (PatternSyntaxException e) {
}
}
if (username != null) return hasPermission(userPrefix, null, uri, permissions);
else return false;
}
/**
* Builds a String result for Elastic Search from an RDFNode
*
* @param node An RDFNode representing the value of a property for a given resource
* @return If the RDFNode has a Literal value, among Boolean, Byte, Double, Float, Integer Long,
* Short, this value is returned, converted to String
* <p>If the RDFNode has a String Literal value, this value will be returned, surrounded by
* double quotes
* <p>If the RDFNode has a Resource value (URI) and toDescribeURIs is set to true, the value
* of @getLabelForUri for the resource is returned, surrounded by double quotes. Otherwise,
* the URI will be returned
*/
private String getStringForResult(RDFNode node, boolean getNodeLabel) {
String result = "";
boolean quote = false;
if (node.isLiteral()) {
Object literalValue = node.asLiteral().getValue();
try {
Class<?> literalJavaClass = node.asLiteral().getDatatype().getJavaClass();
if (literalJavaClass.equals(Boolean.class)
|| Number.class.isAssignableFrom(literalJavaClass)) {
result += literalValue;
} else {
result = EEASettings.parseForJson(node.asLiteral().getLexicalForm());
quote = true;
}
} catch (java.lang.NullPointerException npe) {
result = EEASettings.parseForJson(node.asLiteral().getLexicalForm());
quote = true;
}
} else if (node.isResource()) {
result = node.asResource().getURI();
if (getNodeLabel) {
result = getLabelForUri(result);
}
quote = true;
}
if (quote) {
result = "\"" + result + "\"";
}
return result;
}
/**
* Answer the string described by the value of the unique optional <code>classProperty</code>
* property of <code>root</code>, or null if there's no such property. The value may be a URI, in
* which case it must be a <b>java:</b> URI with content the class name; or it may be a literal,
* in which case its lexical form is its class name; otherwise, BOOM.
*/
public static String getOptionalClassName(Resource root, Property classProperty) {
RDFNode classNode = getUnique(root, classProperty);
return classNode == null
? null
: classNode.isLiteral()
? classNode.asNode().getLiteralLexicalForm()
: classNode.isResource() ? mustBeJava(classNode.asNode().getURI()) : null;
}
/**
* Equals rdf.
*
* @param object the object
* @return true, if successful
*/
public boolean equalsRDF(RDFNode object) {
// URI resources & properties
if (object.isResource() && ((Resource) object).isURIResource()) {
if (rdfNode.isResource() && ((Resource) rdfNode).isURIResource()) {
if (((Resource) rdfNode).getURI().equals(((Resource) object).getURI())) return true;
else return false;
}
}
// bnode
if (object.isAnon() && rdfNode.isAnon()) {
if (((Resource) rdfNode).getId().equals(((Resource) object).getId())) return true;
else return false;
}
// literal
if (object.isLiteral() && rdfNode.isLiteral()) {
if (((Literal) object).equals((rdfNode))
|| (((Literal) object).sameValueAs((Literal) rdfNode))) return true;
}
return false;
}
protected static void addRangeTypes(Model result, Model schema) {
Model toAdd = ModelFactory.createDefaultModel();
for (StmtIterator it = schema.listStatements(ANY, RDFS.range, ANY); it.hasNext(); ) {
Statement s = it.nextStatement();
RDFNode type = s.getObject();
Property property = s.getSubject().as(Property.class);
for (StmtIterator x = result.listStatements(ANY, property, ANY); x.hasNext(); ) {
RDFNode ob = x.nextStatement().getObject();
if (ob.isResource()) toAdd.add((Resource) ob, RDF.type, type);
}
}
result.add(toAdd);
}
/**
* Create a JCR value from an RDF node with the given JCR type
*
* @param valueFactory
* @param data
* @param type
* @return
* @throws RepositoryException
*/
public Value createValue(final ValueFactory valueFactory, final RDFNode data, final int type)
throws RepositoryException {
assert (valueFactory != null);
if (data.isURIResource() && (type == REFERENCE || type == WEAKREFERENCE)) {
// reference to another node (by path)
final Node nodeFromGraphSubject =
session.getNode(graphSubjects.getPathFromSubject(data.asResource()));
return valueFactory.createValue(nodeFromGraphSubject, type == WEAKREFERENCE);
} else if (data.isURIResource() || type == URI) {
// some random opaque URI
return valueFactory.createValue(data.toString(), PropertyType.URI);
} else if (data.isResource()) {
// a non-URI resource (e.g. a blank node)
return valueFactory.createValue(data.toString(), UNDEFINED);
} else if (data.isLiteral() && type == UNDEFINED) {
// the JCR schema doesn't know what this should be; so introspect
// the RDF and try to figure it out
final Literal literal = data.asLiteral();
final RDFDatatype dataType = literal.getDatatype();
final Object rdfValue = literal.getValue();
if (rdfValue instanceof Boolean) {
return valueFactory.createValue((Boolean) rdfValue);
} else if (rdfValue instanceof Byte
|| (dataType != null && dataType.getJavaClass() == Byte.class)) {
return valueFactory.createValue(literal.getByte());
} else if (rdfValue instanceof Double) {
return valueFactory.createValue((Double) rdfValue);
} else if (rdfValue instanceof Float) {
return valueFactory.createValue((Float) rdfValue);
} else if (rdfValue instanceof Long
|| (dataType != null && dataType.getJavaClass() == Long.class)) {
return valueFactory.createValue(literal.getLong());
} else if (rdfValue instanceof Short
|| (dataType != null && dataType.getJavaClass() == Short.class)) {
return valueFactory.createValue(literal.getShort());
} else if (rdfValue instanceof Integer) {
return valueFactory.createValue((Integer) rdfValue);
} else if (rdfValue instanceof XSDDateTime) {
return valueFactory.createValue(((XSDDateTime) rdfValue).asCalendar());
} else {
return valueFactory.createValue(literal.getString(), STRING);
}
} else {
LOGGER.debug("Using default JCR value creation for RDF literal: {}", data);
return valueFactory.createValue(data.asLiteral().getString(), type);
}
}
protected Set<ValueFactory> getValueFactory(RDFNode valueNode, OntModel displayOntModel) {
// maybe use jenabean or owl2java for this?
if (valueNode.isResource()) {
Resource res = (Resource) valueNode.as(Resource.class);
Statement stmt = res.getProperty(DisplayVocabulary.JAVA_CLASS_NAME);
if (stmt == null || !stmt.getObject().isLiteral()) {
log.debug("Cannot build value factory: java class was " + stmt.getObject());
return Collections.emptySet();
}
String javaClassName = ((Literal) stmt.getObject().as(Literal.class)).getLexicalForm();
if (javaClassName == null || javaClassName.length() == 0) {
log.debug("Cannot build value factory: no java class was set.");
return Collections.emptySet();
}
Class<?> clazz;
Object newObj;
try {
clazz = Class.forName(javaClassName);
} catch (ClassNotFoundException e) {
log.debug("Cannot build value factory: no class found for " + javaClassName);
return Collections.emptySet();
}
try {
newObj = clazz.newInstance();
} catch (Exception e) {
log.debug(
"Cannot build value factory: exception while creating object of java class "
+ javaClassName
+ " "
+ e.getMessage());
return Collections.emptySet();
}
if (newObj instanceof ValueFactory) {
ValueFactory valueFactory = (ValueFactory) newObj;
return Collections.singleton(valueFactory);
} else {
log.debug(
"Cannot build value factory: "
+ javaClassName
+ " does not implement "
+ ValueFactory.class.getName());
return Collections.emptySet();
}
} else {
log.debug("Cannot build value factory for " + valueNode);
return Collections.emptySet();
}
}
@Override
public Iterable<Vertex> getVertices() {
final Set<Vertex> vertices = new HashSet<Vertex>();
final StmtIterator statements = model.listStatements();
while (statements.hasNext()) {
final Statement statement = statements.next();
final Resource resource = statement.getSubject();
if (resource.isResource()) {
vertices.add(new JenaVertex(model, resource));
}
final RDFNode object = statement.getObject();
if (object.isResource()) {
vertices.add(new JenaVertex(model, object));
}
}
return vertices;
}
@SuppressWarnings("unchecked")
public Set<S> getNegativeExamples(EvaluatedAxiom<T> axiom) {
ResultSet rs = executeSelectQuery(negExamplesQueryTemplate.toString());
Set<OWLObject> negExamples = new TreeSet<OWLObject>();
while (rs.hasNext()) {
RDFNode node = rs.next().get("s");
if (node.isResource()) {
negExamples.add(df.getOWLNamedIndividual(IRI.create(node.asResource().getURI())));
} else if (node.isLiteral()) {
negExamples.add(convertLiteral(node.asLiteral()));
}
}
return (Set<S>) negExamples;
// throw new UnsupportedOperationException("Getting negative examples is not possible.");
}
@Override
public void nextTuple() {
try {
if (numOfReports < maxReports) {
currTime = System.nanoTime();
LOG.info(
"startTime: "
+ startTime
+ " currTime: "
+ currTime
+ " interval: "
+ ((currTime - startTime) * 1e-6));
if (((currTime - startTime) * 1e-6) >= interval) {
if (query == null) query = QueryFactory.create(queryString);
Store store = StoreFactory.getJenaHBaseStore(configFile, iri, isReified);
int solnCount = 0;
ResultSet rs = store.executeSelectQuery(query);
List<Var> listVars = query.getProject().getVars();
while (rs.hasNext()) {
solnCount++;
QuerySolution qs = rs.next();
Object[] results = new String[listVars.size() + 1];
if (solnCount == 1) results[0] = "new";
else results[0] = "cont";
for (int i = 1; i <= listVars.size(); i++) {
Var var = listVars.get(i - 1);
RDFNode value = qs.get(var.toString());
if (value.isResource() || value.isAnon()) results[i] = value.asResource().toString();
else if (value.isLiteral()) results[i] = value.asLiteral().toString();
}
collector.emit(new Values(results));
}
numOfReports += 1;
startTime = currTime;
}
Thread.sleep(30000);
}
} catch (Exception e) {
throw new TopologyException("Exception in query spout:: ", e);
}
}
/**
* Checks if a given RDFNode represents a template call. It either needs to be an instance of an
* instance of sh:Template, or be a typeless blank node that has an incoming edge via a property
* such as sh:property, that has a declared sh:defaultType.
*
* @param node the node to check
* @return true if node is a template call
*/
public static boolean isTemplateCall(RDFNode node) {
if (node != null && node.isResource()) {
Resource resource = (Resource) node;
// Return true if this has sh:Template as its metaclass
for (Resource type : JenaUtil.getTypes(resource)) {
if (JenaUtil.hasIndirectType(type, SH.Template)) {
return true;
}
}
// If this is a typeless blank node, check for defaultType of incoming references
if (resource.isAnon() && !resource.hasProperty(RDF.type)) {
Resource dt = SHACLUtil.getDefaultTemplateType(resource);
if (dt != null
&& !SH.NativeConstraint.equals(dt)
&& !SH.NativeScope.equals(dt)
&& !SH.NativeRule.equals(dt)) {
return true;
}
}
}
return false;
}
/**
* Gets the string.
*
* @param rdfNode the rdf node
* @return the string
*/
public static String getString(RDFNode rdfNode) {
if (rdfNode.isURIResource())
// return ((Resource)rdfNode).getURI();
return ((Resource) rdfNode).getLocalName();
else if (rdfNode.isResource()) return " ";
// ((Resource) rdfNode).getId().toString(); //
else if (rdfNode.isLiteral()) {
String label = ((Literal) rdfNode).toString();
// if(label.length() > 10){ // TODO come back to this
// label = "";
// String[] split = label.split(" ");
// for(int i=0;i<split.length;i++){
// label = label + split[i] + " ";
// if(label.length()>25) continue;
// if(label.length() % 8 == 0) label = label +"\n";
// }
// }
if (label.length() > 10) {
label = label.substring(0, 9);
}
return label;
}
return null;
}
/** Answer the resource at the end of the path, if defined, or null */
public Resource getTerminalResource() {
RDFNode n = getTerminal();
return (n != null && n.isResource()) ? (Resource) n : null;
}
private void tryRestriction(
OntClass theClass,
VClassDao vcDao,
ObjectPropertyDao opDao,
IndividualDao iDao,
ArrayList results,
String vClassURI) {
if (theClass.isRestriction()) {
Restriction rest = (Restriction) theClass.as(Restriction.class);
try {
results.add("XX");
Property onProperty = rest.getOnProperty();
ObjectProperty op = opDao.getObjectPropertyByURI(onProperty.getURI());
results.add(op.getLocalNameWithPrefix());
if (rest.isAllValuesFromRestriction()) {
results.add("all values from");
AllValuesFromRestriction avfrest =
(AllValuesFromRestriction) rest.as(AllValuesFromRestriction.class);
Resource allValuesFrom = avfrest.getAllValuesFrom();
results.add(printAsClass(vcDao, allValuesFrom));
} else if (rest.isSomeValuesFromRestriction()) {
results.add("some values from");
SomeValuesFromRestriction svfrest =
(SomeValuesFromRestriction) rest.as(SomeValuesFromRestriction.class);
Resource someValuesFrom = svfrest.getSomeValuesFrom();
results.add(printAsClass(vcDao, someValuesFrom));
} else if (rest.isHasValueRestriction()) {
results.add("has value");
HasValueRestriction hvrest = (HasValueRestriction) rest.as(HasValueRestriction.class);
RDFNode hasValue = hvrest.getHasValue();
if (hasValue.isResource()) {
Resource hasValueRes = (Resource) hasValue.as(Resource.class);
try {
if (hasValueRes.getURI() != null) {
Individual ind = iDao.getIndividualByURI(hasValueRes.getURI());
if (ind.getName() != null) {
results.add(ind.getName());
}
}
} catch (Exception e) {
results.add("???");
}
}
} else if (rest.isMinCardinalityRestriction()) {
MinCardinalityRestriction crest =
(MinCardinalityRestriction) rest.as(MinCardinalityRestriction.class);
results.add("at least " + crest.getMinCardinality());
results.add(LAMBDA);
} else if (rest.isMaxCardinalityRestriction()) {
MaxCardinalityRestriction crest =
(MaxCardinalityRestriction) rest.as(MaxCardinalityRestriction.class);
results.add("at most " + crest.getMaxCardinality());
results.add(LAMBDA);
} else if (rest.isCardinalityRestriction()) {
CardinalityRestriction crest =
(CardinalityRestriction) rest.as(CardinalityRestriction.class);
results.add("exactly " + crest.getCardinality());
results.add(LAMBDA);
}
results.add(
"<form action=\"addRestriction\" method=\"post\">"
+ "<input type=\"hidden\" name=\"_action\" value=\"delete\"/>"
+ "<input type=\"submit\" value=\"Delete\"/>"
+ "<input type=\"hidden\" name=\"_epoKey\" value=\""
+ epo.getKey()
+ "\"/>"
+ "<input type=\"hidden\" name=\"classUri\" value=\""
+ vClassURI
+ "\"/>"
+ "<input type=\"hidden\" name=\"restrictionId\" value=\""
+ ((rest.getId() != null) ? rest.getId() : rest.getURI())
+ "\"/>"
+ "</form>");
} catch (Exception e) {
e.printStackTrace(); // results.add("unknown property");
}
}
}
/**
* Gets the uRI.
*
* @return the uRI
*/
public String getURI() {
if (rdfNode.isResource()) return ((Resource) rdfNode).getURI();
return null;
}
/* (non-Javadoc)
* @see com.hp.hpl.jena.rdf.model.RDFNode#isResource()
*/
@Override
public boolean isResource() {
return rdfNode.isResource();
}