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[DL-Learner SVN] SF.net SVN: dl-learner:[4231] trunk/components-core/src
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From: <lor...@us...> - 2014-02-18 09:50:54
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Revision: 4231
http://sourceforge.net/p/dl-learner/code/4231
Author: lorenz_b
Date: 2014-02-18 09:50:49 +0000 (Tue, 18 Feb 2014)
Log Message:
-----------
Small fix in eval.
Modified Paths:
--------------
trunk/components-core/src/main/java/org/dllearner/algorithms/isle/index/RelevanceMapGenerator.java
trunk/components-core/src/main/java/org/dllearner/algorithms/isle/metrics/RelevanceUtils.java
trunk/components-core/src/main/java/org/dllearner/utilities/examples/AutomaticNegativeExampleFinderSPARQL2.java
trunk/components-core/src/main/java/org/dllearner/utilities/owl/OWLAPIDescriptionConvertVisitor.java
trunk/components-core/src/test/java/org/dllearner/algorithms/isle/DBpediaExperiment.java
Modified: trunk/components-core/src/main/java/org/dllearner/algorithms/isle/index/RelevanceMapGenerator.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/algorithms/isle/index/RelevanceMapGenerator.java 2014-02-17 23:35:23 UTC (rev 4230)
+++ trunk/components-core/src/main/java/org/dllearner/algorithms/isle/index/RelevanceMapGenerator.java 2014-02-18 09:50:49 UTC (rev 4231)
@@ -38,7 +38,7 @@
private static final Logger logger = Logger.getLogger(RelevanceMapGenerator.class.getName());
public static String cacheDirectory = "cache/relevance";
- public static Map<Entity, Double> generateRelevanceMap(NamedClass cls, OWLOntology ontology, RelevanceMetric relevanceMetric, boolean cached){
+ public static synchronized Map<Entity, Double> generateRelevanceMap(NamedClass cls, OWLOntology ontology, RelevanceMetric relevanceMetric, boolean cached){
logger.info("Relevance Metric: " + relevanceMetric.getClass().getSimpleName());
Map<Entity, Double> relevanceMap = null;
File folder = new File(cacheDirectory);
Modified: trunk/components-core/src/main/java/org/dllearner/algorithms/isle/metrics/RelevanceUtils.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/algorithms/isle/metrics/RelevanceUtils.java 2014-02-17 23:35:23 UTC (rev 4230)
+++ trunk/components-core/src/main/java/org/dllearner/algorithms/isle/metrics/RelevanceUtils.java 2014-02-18 09:50:49 UTC (rev 4231)
@@ -4,6 +4,7 @@
package org.dllearner.algorithms.isle.metrics;
import java.util.ArrayList;
+import java.util.Collections;
import java.util.HashMap;
import java.util.HashSet;
import java.util.Map;
@@ -36,9 +37,9 @@
* @param metric
* @return
*/
- public static Map<Entity, Double> getRelevantEntities(final Entity entity, Set<Entity> otherEntities, final RelevanceMetric metric){
+ public static synchronized Map<Entity, Double> getRelevantEntities(final Entity entity, Set<Entity> otherEntities, final RelevanceMetric metric){
logger.info("Get relevant entities for " + entity);
- final Map<Entity, Double> relevantEntities = new HashMap<Entity, Double>();
+ final Map<Entity, Double> relevantEntities = Collections.synchronizedMap(new HashMap<Entity, Double>());
ExecutorService executor = Executors.newFixedThreadPool(maxNrOfThreads);
@@ -46,10 +47,14 @@
executor.submit(new Runnable() {
@Override
public void run() {
-// double relevance = metric.getNormalizedRelevance(entity, otherEntity);
- double relevance = metric.getRelevance(entity, otherEntity);
-// logger.info(otherEntity + ":" + relevance);
- relevantEntities.put(otherEntity, relevance);
+ try {
+// double relevance = metric.getNormalizedRelevance(entity, otherEntity);
+ double relevance = metric.getRelevance(entity, otherEntity);
+// logger.info(otherEntity + ":" + relevance);
+ relevantEntities.put(otherEntity, relevance);
+ } catch (Exception e) {
+ e.printStackTrace();
+ }
}
});
}
Modified: trunk/components-core/src/main/java/org/dllearner/utilities/examples/AutomaticNegativeExampleFinderSPARQL2.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/utilities/examples/AutomaticNegativeExampleFinderSPARQL2.java 2014-02-17 23:35:23 UTC (rev 4230)
+++ trunk/components-core/src/main/java/org/dllearner/utilities/examples/AutomaticNegativeExampleFinderSPARQL2.java 2014-02-18 09:50:49 UTC (rev 4231)
@@ -212,7 +212,7 @@
logger.info("Negative examples(" + superClassNegativeExamples.size() + "): " + superClassNegativeExamples);
negativeExamples.addAll(superClassNegativeExamples);
} else if(strategy == RANDOM){//get some random examples
- String query = "SELECT ?s WHERE {?s a ?type. FILTER NOT EXIST{?type rdfs:subClassOf* }}";
+ String query = "SELECT ?s WHERE {?s a ?type. FILTER NOT EXIST{?s a <> }} ORDER BY RAND() LIMIT " + maxNrOfReturnedInstances;
}
}
return negativeExamples;
Modified: trunk/components-core/src/main/java/org/dllearner/utilities/owl/OWLAPIDescriptionConvertVisitor.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/utilities/owl/OWLAPIDescriptionConvertVisitor.java 2014-02-17 23:35:23 UTC (rev 4230)
+++ trunk/components-core/src/main/java/org/dllearner/utilities/owl/OWLAPIDescriptionConvertVisitor.java 2014-02-18 09:50:49 UTC (rev 4231)
@@ -25,6 +25,7 @@
import org.dllearner.algorithms.gp.ADC;
import org.dllearner.core.owl.Constant;
+import org.dllearner.core.owl.DataRange;
import org.dllearner.core.owl.Datatype;
import org.dllearner.core.owl.DatatypeExactCardinalityRestriction;
import org.dllearner.core.owl.DatatypeMaxCardinalityRestriction;
@@ -312,20 +313,31 @@
// TODO: currently works only for double min/max
DatatypeProperty dp = (DatatypeProperty) description.getRestrictedPropertyExpression();
- // currently only double restrictions implemented
- SimpleDoubleDataRange dr = (SimpleDoubleDataRange) description.getDataRange();
- double value = dr.getValue();
- OWLDatatype doubleDataType = factory.getOWLDatatype(XSDVocabulary.DOUBLE.getIRI());
- OWLLiteral constant = factory.getOWLLiteral(value);
+ //convert the datarange
+ OWLDataRange owlDataRange;
+ DataRange dataRange = description.getDataRange();
+ if(dataRange.isDatatype()){
+ owlDataRange = factory.getOWLDatatype(IRI.create(dataRange.toString()));
+ } else if(dataRange instanceof SimpleDoubleDataRange){
+ // currently only double restrictions implemented
+ SimpleDoubleDataRange dr = (SimpleDoubleDataRange) description.getDataRange();
+ double value = dr.getValue();
+
+ OWLDatatype doubleDataType = factory.getOWLDatatype(XSDVocabulary.DOUBLE.getIRI());
+ OWLLiteral constant = factory.getOWLLiteral(value);
- OWLFacet facet;
- if(dr instanceof DoubleMinValue)
- facet = OWLFacet.MIN_INCLUSIVE;
- else
- facet = OWLFacet.MAX_INCLUSIVE;
-
- OWLDataRange owlDataRange = factory.getOWLDatatypeRestriction(doubleDataType, facet, constant);
+ OWLFacet facet;
+ if(dr instanceof DoubleMinValue)
+ facet = OWLFacet.MIN_INCLUSIVE;
+ else
+ facet = OWLFacet.MAX_INCLUSIVE;
+
+ owlDataRange = factory.getOWLDatatypeRestriction(doubleDataType, facet, constant);
+ } else {
+ throw new UnsupportedOperationException("Can not convert " + description);
+ }
+
OWLDataProperty odp = factory.getOWLDataProperty(IRI.create(dp.getName()));
OWLClassExpression d = factory.getOWLDataSomeValuesFrom(odp, owlDataRange);
Modified: trunk/components-core/src/test/java/org/dllearner/algorithms/isle/DBpediaExperiment.java
===================================================================
--- trunk/components-core/src/test/java/org/dllearner/algorithms/isle/DBpediaExperiment.java 2014-02-17 23:35:23 UTC (rev 4230)
+++ trunk/components-core/src/test/java/org/dllearner/algorithms/isle/DBpediaExperiment.java 2014-02-18 09:50:49 UTC (rev 4231)
@@ -12,6 +12,7 @@
import java.io.FileNotFoundException;
import java.io.IOException;
import java.io.InputStream;
+import java.io.StringWriter;
import java.io.UnsupportedEncodingException;
import java.net.MalformedURLException;
import java.net.URL;
@@ -58,11 +59,13 @@
import org.dllearner.core.ComponentInitException;
import org.dllearner.core.EvaluatedDescription;
import org.dllearner.core.KnowledgeSource;
+import org.dllearner.core.owl.Axiom;
import org.dllearner.core.owl.DataRange;
import org.dllearner.core.owl.Datatype;
import org.dllearner.core.owl.DatatypeSomeRestriction;
import org.dllearner.core.owl.Description;
import org.dllearner.core.owl.Entity;
+import org.dllearner.core.owl.EquivalentClassesAxiom;
import org.dllearner.core.owl.Individual;
import org.dllearner.core.owl.Intersection;
import org.dllearner.core.owl.NamedClass;
@@ -81,11 +84,13 @@
import org.dllearner.refinementoperators.RhoDRDown;
import org.dllearner.utilities.PrefixCCMap;
import org.dllearner.utilities.examples.AutomaticNegativeExampleFinderSPARQL2;
+import org.dllearner.utilities.owl.OWLAPIConverter;
import org.ini4j.IniPreferences;
import org.ini4j.InvalidFileFormatException;
import org.semanticweb.owlapi.apibinding.OWLManager;
import org.semanticweb.owlapi.model.AxiomType;
import org.semanticweb.owlapi.model.IRI;
+import org.semanticweb.owlapi.model.OWLAxiom;
import org.semanticweb.owlapi.model.OWLClass;
import org.semanticweb.owlapi.model.OWLDataFactory;
import org.semanticweb.owlapi.model.OWLDataPropertyRangeAxiom;
@@ -143,6 +148,7 @@
private SPARQLReasoner sparqlReasoner;
private AutomaticNegativeExampleFinderSPARQL2 negativeExampleFinder;
+ final int minNrOfPositiveExamples = 3;
final int maxNrOfPositiveExamples = 100;
final int maxNrOfNegativeExamples = 200;
boolean posOnly = false;
@@ -228,6 +234,7 @@
for (RelevanceMetric metric : relevanceMetrics) {
sql += metric.getClass().getSimpleName().replace("RelevanceMetric", "") + " DECIMAL(8,6) NOT NULL,";
}
+ sql += "axiom TEXT NOT NULL,";
sql += "PRIMARY KEY(id),"
+ "INDEX(class(200))) DEFAULT CHARSET=utf8";
st.execute(sql);
@@ -236,7 +243,8 @@
for (RelevanceMetric metric : relevanceMetrics) {
sql += "," + metric.getClass().getSimpleName().replace("RelevanceMetric", "");
}
- sql += ") VALUES(?,?,?,?,?,?";
+ sql += ",axiom";
+ sql += ") VALUES(?,?,?,?,?,?,?";
for(int i = 0 ; i < relevanceMetrics.size(); i++){
sql += ",?";
}
@@ -265,8 +273,8 @@
// new NamedClass("http://dbpedia.org/ontology/Comics"),
// new NamedClass("http://dbpedia.org/ontology/Actor"),
// new NamedClass("http://dbpedia.org/ontology/Book"));
- new SolrSyntacticIndex(schema, solrServerURL, searchField).buildIndex(classList);
- System.exit(0);
+// new SolrSyntacticIndex(schema, solrServerURL, searchField).buildIndex(classList);
+// System.exit(0);
ExecutorService executor = Executors.newFixedThreadPool(6);
@@ -303,8 +311,8 @@
//get some positive examples
SortedSet<Individual> positiveExamples = getPositiveExamples(cls);
- //we can stop if there are no positive examples
- if(positiveExamples.isEmpty()){
+ //we can stop if there are not at least x positive examples
+ if(positiveExamples.size() < minNrOfPositiveExamples){
logger.info("Empty class.");
return;
}
@@ -725,6 +733,27 @@
return classes;
}
+ /**
+ * Rewrite OWLAxiom into OWL Functional style syntax.
+ * @param axiom
+ * @return
+ */
+ private String render(Axiom dllearnerAxiom){
+ try {
+ OWLAxiom axiom = OWLAPIConverter.getOWLAPIAxiom(dllearnerAxiom);
+ OWLOntologyManager man = OWLManager.createOWLOntologyManager();
+ OWLOntology ontology = man.createOntology();
+ man.addAxiom(ontology, axiom);
+ StringWriter sw = new StringWriter();
+ org.coode.owlapi.functionalrenderer.OWLObjectRenderer r = new org.coode.owlapi.functionalrenderer.OWLObjectRenderer(man, ontology, sw);
+ axiom.accept(r);
+ return sw.toString();
+ } catch (OWLOntologyCreationException e) {
+ e.printStackTrace();
+ }
+ return null;
+ }
+
private synchronized void write2DB(FastInstanceChecker reasoner, AbstractLearningProblem lp, NamedClass cls, TreeSet<? extends EvaluatedDescription> evaluatedDescriptions, Map<RelevanceMetric, Map<Entity, Double>> entityRelevances) throws SQLException{
int position = 1;
for(EvaluatedDescription ed : evaluatedDescriptions.descendingSet()) {
@@ -747,6 +776,7 @@
double relevanceScore = getRelevanceScore(ed.getDescription(), entityRelevances.get(metric));
ps.setDouble(col++, relevanceScore);
}
+ ps.setString(col, render(new EquivalentClassesAxiom(cls, ed.getDescription())));
ps.addBatch();
}
@@ -770,8 +800,8 @@
// la.start();
long start = System.currentTimeMillis();
- new DBpediaExperiment().run();
-// new DBpediaExperiment().run(new NamedClass("http://dbpedia.org/ontology/Comics"));
+// new DBpediaExperiment().run();
+ new DBpediaExperiment().run(new NamedClass("http://dbpedia.org/ontology/Astronaut"));
long end = System.currentTimeMillis();
logger.info("Operation took " + (end - start) + "ms");
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