[pagoda] Move project to Scala

This commit includes a few changes:
- The repository still uses Maven to manage dependency but it is now a
  Scala project.
- The code has been ported from OWLAPI 3.4.10 to 5.1.20
- A proof of concept program using both RSAComb and PAGOdA has been
  added.

1 files changed, 0 insertions, 109 deletions

diff --git a/src/uk/ac/ox/cs/pagoda/reasoner/light/KarmaQueryEngine.java b/src/uk/ac/ox/cs/pagoda/reasoner/light/KarmaQueryEngine.java
deleted file mode 100644
index 98f0c35..0000000
--- a/src/uk/ac/ox/cs/pagoda/reasoner/light/KarmaQueryEngine.java
+++ /dev/null
@@ -1,109 +0,0 @@
-package uk.ac.ox.cs.pagoda.reasoner.light;
-
-import org.semanticweb.karma2.MyKarma;
-import org.semanticweb.karma2.clausifier.OntologyProcesser;
-import org.semanticweb.karma2.exception.IllegalInputOntologyException;
-import org.semanticweb.karma2.model.ConjunctiveQuery;
-import org.semanticweb.owlapi.model.OWLOntology;
-import uk.ac.ox.cs.JRDFox.JRDFStoreException;
-import uk.ac.ox.cs.JRDFox.store.DataStore;
-import uk.ac.ox.cs.pagoda.query.AnswerTuple;
-import uk.ac.ox.cs.pagoda.query.AnswerTuples;
-import uk.ac.ox.cs.pagoda.query.AnswerTuplesImp;
-import uk.ac.ox.cs.pagoda.util.ConjunctiveQueryHelper;
-import uk.ac.ox.cs.pagoda.util.Utility;
-import uk.ac.ox.cs.pagoda.util.disposable.DisposedException;
-
-import java.io.File;
-import java.io.FileNotFoundException;
-import java.nio.file.Paths;
-import java.util.Set;
-
-public class KarmaQueryEngine extends RDFoxQueryEngine {
-
-    String karmaDataFile = null, karmaRuleFile = null;
-    private MyKarma reasoner = null;
-
-    public KarmaQueryEngine(String name) {
-        super(name);
-
-//              int Base = 1 << 6; 
-//              int index = (new Random().nextInt() % Base + Base) % Base;
-//              karmaDataFile = "karma_data" + index + ".ttl"; 
-//              karmaRuleFile = "karma_rule" + index + ".dlog";
-        karmaDataFile = Paths.get(Utility.getGlobalTempDirAbsolutePath(), "karma_data.ttl").toString();
-        karmaRuleFile = Paths.get(Utility.getGlobalTempDirAbsolutePath(), "karma_rule.dlog").toString();
-
-        reasoner = new MyKarma();
-    }
-
-    public MyKarma getReasoner() {
-        if(isDisposed()) throw new DisposedException();
-        return reasoner;
-    }
-
-    public void processOntology(OWLOntology elhoOntology) {
-        if(isDisposed()) throw new DisposedException();
-        try {
-            OntologyProcesser.transformOntology(elhoOntology, new File(karmaDataFile), new File(karmaRuleFile));
-        } catch(IllegalInputOntologyException e) {
-            e.printStackTrace();
-        }
-    }
-
-    @Override
-    public void dispose() {
-        super.dispose();
-        reasoner.dispose();
-    }
-
-    @Override
-    public AnswerTuples evaluate(String queryText) {
-        if(isDisposed()) throw new DisposedException();
-        return evaluate(queryText, ConjunctiveQueryHelper.getAnswerVariables(queryText)[0], null);
-    }
-
-    @Override
-    public AnswerTuples evaluate(String queryText, String[] answerVars) {
-        if(isDisposed()) throw new DisposedException();
-        return evaluate(queryText, answerVars, null);
-    }
-
-    public AnswerTuples evaluate(String queryText, AnswerTuples soundAnswerTuples) {
-        if(isDisposed()) throw new DisposedException();
-        return evaluate(queryText, ConjunctiveQueryHelper.getAnswerVariables(queryText)[0], soundAnswerTuples);
-    }
-
-    public AnswerTuples evaluate(String queryText, String[] answerVars, AnswerTuples soundAnswerTuples) {
-        if(isDisposed()) throw new DisposedException();
-        KarmaQuery karmaQuery = new KarmaQuery(queryText.replace("_:", "?"));
-        reasoner.setConcurrence(false);
-        ConjunctiveQuery cq = karmaQuery.getConjunctiveQuery();
-        if(cq == null) return null;
-        Set<AnswerTuple> answers = reasoner.answerCQ(cq, soundAnswerTuples, !queryText.contains("_:"));
-        return new AnswerTuplesImp(answerVars, answers);
-    }
-
-    @Override
-    public DataStore getDataStore() {
-        if(isDisposed()) throw new DisposedException();
-        return reasoner.getStore();
-    }
-
-    public void initialiseKarma() {
-        if(isDisposed()) throw new DisposedException();
-        try {
-            reasoner.initializeData(new File(karmaDataFile));
-            reasoner.materialise(new File(karmaRuleFile));
-
-            File tmp;
-            if(karmaDataFile != null && ((tmp = new File(karmaDataFile)).exists())) tmp.delete();
-            if(karmaRuleFile != null && ((tmp = new File(karmaRuleFile)).exists())) tmp.delete();
-        } catch(FileNotFoundException e) {
-            e.printStackTrace();
-        } catch(JRDFStoreException e) {
-            e.printStackTrace();
-        }
-    }
-
-}