From 5d54af2638a53721b414a41356a93686a9616272 Mon Sep 17 00:00:00 2001 From: RncLsn Date: Tue, 19 May 2015 13:35:52 +0100 Subject: Backup before changes in MyQueryReasoner. --- test/uk/ac/ox/cs/hermit/HermitQueryReasoner.java | 48 +++++++----------------- test/uk/ac/ox/cs/hermit/JAIR_HermiT.java | 20 +++++----- 2 files changed, 24 insertions(+), 44 deletions(-) (limited to 'test/uk/ac/ox/cs/hermit') diff --git a/test/uk/ac/ox/cs/hermit/HermitQueryReasoner.java b/test/uk/ac/ox/cs/hermit/HermitQueryReasoner.java index f6246f8..008fcb2 100644 --- a/test/uk/ac/ox/cs/hermit/HermitQueryReasoner.java +++ b/test/uk/ac/ox/cs/hermit/HermitQueryReasoner.java @@ -1,43 +1,21 @@ package uk.ac.ox.cs.hermit; -import java.io.File; -import java.io.FileNotFoundException; -import java.io.FileOutputStream; -import java.io.IOException; -import java.io.PrintStream; -import java.util.HashSet; -import java.util.Set; -import java.util.concurrent.Callable; -import java.util.concurrent.ExecutionException; -import java.util.concurrent.ExecutorService; -import java.util.concurrent.Executors; -import java.util.concurrent.Future; -import java.util.concurrent.TimeUnit; -import java.util.concurrent.TimeoutException; - import org.semanticweb.HermiT.Reasoner; import org.semanticweb.HermiT.model.Atom; import org.semanticweb.HermiT.model.AtomicRole; -import org.semanticweb.owlapi.model.IRI; -import org.semanticweb.owlapi.model.OWLAxiom; -import org.semanticweb.owlapi.model.OWLClassExpression; -import org.semanticweb.owlapi.model.OWLDataFactory; -import org.semanticweb.owlapi.model.OWLDatatype; -import org.semanticweb.owlapi.model.OWLIndividual; -import org.semanticweb.owlapi.model.OWLNamedIndividual; -import org.semanticweb.owlapi.model.OWLObjectProperty; -import org.semanticweb.owlapi.model.OWLOntology; -import org.semanticweb.owlapi.model.OWLOntologyCreationException; -import org.semanticweb.owlapi.model.OWLOntologyManager; -import org.semanticweb.owlapi.model.OWLOntologyStorageException; +import org.semanticweb.owlapi.model.*; import org.semanticweb.owlapi.reasoner.Node; - import uk.ac.ox.cs.pagoda.owl.OWLHelper; import uk.ac.ox.cs.pagoda.owl.QueryRoller; import uk.ac.ox.cs.pagoda.query.QueryManager; import uk.ac.ox.cs.pagoda.query.QueryRecord; import uk.ac.ox.cs.pagoda.util.Timer; +import java.io.*; +import java.util.HashSet; +import java.util.Set; +import java.util.concurrent.*; + public class HermitQueryReasoner { public static void main(String... args) throws FileNotFoundException, OWLOntologyCreationException, OWLOntologyStorageException { @@ -48,11 +26,13 @@ public class HermitQueryReasoner { // args = new String[] {"/media/krr-nas-share/Yujiao/ontologies/npd/npd-all-minus-datatype.owl", "/media/krr-nas-share/Yujiao/ontologies/npd/data/npd-data-dump-minus-datatype-new.ttl", "/users/yzhou/ontologies/npd/queries/atomic.sparql"}; // args = new String[] {"/media/krr-nas-share/Yujiao/ontologies/npd/npd-all.owl", "/media/krr-nas-share/Yujiao/ontologies/npd/data/npd-data-dump-processed.ttl", "/users/yzhou/ontologies/npd/queries/atomic.sparql"}; // args = new String[] {PagodaTester.dbpedia_tbox, PagodaTester.dbpedia_abox, PagodaTester.dbpedia_query}; -// args = new String[] {"/users/yzhou/ontologies/test/unsatisfiable.owl", null, "/users/yzhou/ontologies/test/unsatisfiable_queries.sparql"}; +// args = new String[] {"/users/yzhou/ontologies/answersCorrectness/unsatisfiable.owl", null, "/users/yzhou/ontologies/answersCorrectness/unsatisfiable_queries.sparql"}; -// args = new String[] {"/media/krr-nas-share/Yujiao/ontologies/bio2rdf/chembl/cco-processed-noDPR-noDPD.ttl", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/chembl/graph sampling/sample_100.nt", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/chembl/queries/atomic_one_filtered.sparql", "../test-share/results/chembl/hermit_1p"}; - args = new String[] {"/users/yzhou/temp/uniprot_debug/core-processed-noDis.owl", "/users/yzhou/temp/uniprot_debug/sample_1_removed.nt", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/uniprot/queries/atomic_one.sparql", "../test-share/results/uniprot/hermit_1p"}; } -// args = new String[] {"imported.owl", "", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/uniprot/queries/atomic_one.sparql", "../test-share/results/uniprot/hermit_1p"}; } +// args = new String[] {"/media/krr-nas-share/Yujiao/ontologies/bio2rdf/chembl/cco-processed-noDPR-noDPD.ttl", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/chembl/graph sampling/sample_100.nt", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/chembl/queries/atomic_one_filtered.sparql", "../answersCorrectness-share/results/chembl/hermit_1p"}; + args = + new String[]{"/users/yzhou/temp/uniprot_debug/core-processed-noDis.owl", "/users/yzhou/temp/uniprot_debug/sample_1_removed.nt", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/uniprot/queries/atomic_one.sparql", "../answersCorrectness-share/results/uniprot/hermit_1p"}; + } +// args = new String[] {"imported.owl", "", "/media/krr-nas-share/Yujiao/ontologies/bio2rdf/uniprot/queries/atomic_one.sparql", "../answersCorrectness-share/results/uniprot/hermit_1p"}; } PrintStream ps = args.length < 4 ? null : new PrintStream(new File(args[3])); @@ -60,8 +40,8 @@ public class HermitQueryReasoner { if (args[i] == null || args[i].equalsIgnoreCase("null")) args[i] = ""; System.out.println("Argument " + i + ": " + args[i]); } - -// PrintStream ps = null; // new PrintStream(new File("../test-share/results/reactome/ ")); + +// PrintStream ps = null; // new PrintStream(new File("../answersCorrectness-share/results/reactome/ ")); if (ps != null) System.setOut(ps); Timer t = new Timer(); diff --git a/test/uk/ac/ox/cs/hermit/JAIR_HermiT.java b/test/uk/ac/ox/cs/hermit/JAIR_HermiT.java index a3264ba..72e7af8 100644 --- a/test/uk/ac/ox/cs/hermit/JAIR_HermiT.java +++ b/test/uk/ac/ox/cs/hermit/JAIR_HermiT.java @@ -11,8 +11,8 @@ public class JAIR_HermiT { String[] args = new String[] { TestUtil.combinePaths(ontoDir, "lubm/univ-bench.owl"), TestUtil.combinePaths(ontoDir, "lubm/data/lubm1_owl"), - TestUtil.combinePaths(ontoDir, "lubm/queries/test.sparql") -// , "/home/yzhou/java-workspace/test-share/results_new/lubm1/hermit" + TestUtil.combinePaths(ontoDir, "lubm/queries/answersCorrectness.sparql") +// , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/lubm1/hermit" }; HermitQueryReasoner.main(args); } @@ -24,7 +24,7 @@ public class JAIR_HermiT { "/home/yzhou/backup/20141212/univ-bench-queries.owl", TestUtil.combinePaths(ontoDir, "lubm/data/lubm1_owl"), TestUtil.combinePaths(ontoDir, "lubm/queries/atomic_lubm.sparql") -// , "/home/yzhou/java-workspace/test-share/results_new/lubm1/hermit_rolledUp" +// , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/lubm1/hermit_rolledUp" }; HermitQueryReasoner.main(args); } @@ -37,7 +37,7 @@ public class JAIR_HermiT { TestUtil.combinePaths(ontoDir, "uobm/data/uobm1_owl_withDeclaration"), TestUtil.combinePaths(ontoDir, "uobm/queries/standard.sparql") // , "hermit_uobm1.out" -// , "/home/yzhou/java-workspace/test-share/results_new/uobm1/hermit" +// , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/uobm1/hermit" }; HermitQueryReasoner.main(args); } @@ -50,7 +50,7 @@ public class JAIR_HermiT { TestUtil.combinePaths(ontoDir, "uobm/data/uobm1_owl_withDeclaration"), TestUtil.combinePaths(ontoDir, "uobm/queries/atomic_uobm.sparql") , "hermit_uobm1_rolledUp.out" -// , "/home/yzhou/java-workspace/test-share/results_new/uobm1/hermit_rolledUp" +// , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/uobm1/hermit_rolledUp" }; HermitQueryReasoner.main(args); } @@ -75,7 +75,7 @@ public class JAIR_HermiT { TestUtil.combinePaths(ontoDir, "npd/data/npd-data-dump-minus-datatype-new.ttl"), TestUtil.combinePaths(ontoDir, "npd/queries/atomic_ground.sparql") , "hermit_npd.out" -// , "/home/yzhou/java-workspace/test-share/results_new/npd/hermit" +// , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/npd/hermit" ); } @@ -86,7 +86,7 @@ public class JAIR_HermiT { TestUtil.combinePaths(ontoDir, "dbpedia/integratedOntology-all-in-one-minus-datatype.owl"), TestUtil.combinePaths(ontoDir, "dbpedia/data/dbpedia-minus-datatype-new.ttl"), TestUtil.combinePaths(ontoDir, "dbpedia/queries/atomic_ground.sparql") - , "/home/yzhou/java-workspace/test-share/results_new/dbpedia/hermit" + , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/dbpedia/hermit" ); } @@ -97,7 +97,7 @@ public class JAIR_HermiT { TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/biopax-level3-processed.owl"), TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/graph sampling/reactome_sample_10.ttl"), TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/queries/atomic_ground.sparql") - , "/home/yzhou/java-workspace/test-share/results_new/reactome/hermit_10p" + , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/reactome/hermit_10p" ); } @@ -110,7 +110,7 @@ public class JAIR_HermiT { TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/graph sampling/sample_1.nt"), TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/queries/atomic_ground.sparql") , "hermit_chembl.out" -// , "/home/yzhou/java-workspace/test-share/results_new/chembl/hermit_1p" +// , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/chembl/hermit_1p" ); } @@ -122,7 +122,7 @@ public class JAIR_HermiT { TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/graph sampling/sample_1.nt"), TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/queries/atomic_ground.sparql") , "hermit_uniprot.out" -// , "/home/yzhou/java-workspace/test-share/results_new/uniprot/hermit_1p" +// , "/home/yzhou/java-workspace/answersCorrectness-share/results_new/uniprot/hermit_1p" ); } -- cgit v1.2.3