From 5be5fd3daa0d50980fb3791e904e035cdbca254f Mon Sep 17 00:00:00 2001 From: RncLsn Date: Thu, 7 May 2015 19:26:24 +0100 Subject: Making the output machine-readable (JSON). --- .../ac/ox/cs/pagoda/test_units/CostEvaluation.java | 44 ++++--- .../uk/ac/ox/cs/pagoda/test_units/JAIR_PAGOdA.java | 143 +++++++++++---------- .../ox/cs/pagoda/test_units/JAIR_Scalability.java | 33 ++--- .../ox/cs/pagoda/test_units/LightEvaluation.java | 45 ++++--- .../ac/ox/cs/pagoda/test_units/PagodaDBPedia.java | 16 +-- test/uk/ac/ox/cs/pagoda/test_units/PagodaELU.java | 10 +- test/uk/ac/ox/cs/pagoda/test_units/PagodaFLY.java | 7 +- test/uk/ac/ox/cs/pagoda/test_units/PagodaLUBM.java | 64 ++------- test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD.java | 25 ++-- .../ox/cs/pagoda/test_units/PagodaNPD_bench.java | 16 +-- test/uk/ac/ox/cs/pagoda/test_units/PagodaRLU.java | 12 +- test/uk/ac/ox/cs/pagoda/test_units/PagodaUOBM.java | 75 ++--------- .../pagoda/test_units/TestGlobalCorrectness.java | 55 ++++++++ 13 files changed, 267 insertions(+), 278 deletions(-) create mode 100644 test/uk/ac/ox/cs/pagoda/test_units/TestGlobalCorrectness.java (limited to 'test/uk/ac/ox/cs/pagoda/test_units') diff --git a/test/uk/ac/ox/cs/pagoda/test_units/CostEvaluation.java b/test/uk/ac/ox/cs/pagoda/test_units/CostEvaluation.java index 4e32297..968cf01 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/CostEvaluation.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/CostEvaluation.java @@ -1,12 +1,12 @@ package uk.ac.ox.cs.pagoda.test_units; import org.semanticweb.owlapi.model.OWLOntology; - import org.testng.annotations.Test; import uk.ac.ox.cs.pagoda.owl.OWLHelper; import uk.ac.ox.cs.pagoda.reasoner.QueryReasoner; import uk.ac.ox.cs.pagoda.reasoner.QueryReasoner.Type; import uk.ac.ox.cs.pagoda.tester.PagodaTester; +import uk.ac.ox.cs.pagoda.util.TestUtil; import uk.ac.ox.cs.pagoda.util.Timer; import uk.ac.ox.cs.pagoda.util.Utility; @@ -15,20 +15,22 @@ public class CostEvaluation { @Test public void lubm100() { int number = 1; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "lubm/univ-bench.owl", - PagodaTester.onto_dir + "lubm/data/lubm" + number + ".ttl", - PagodaTester.onto_dir + "lubm/queries/test_all_pagoda.sparql" + TestUtil.combinePaths(ontoDir, "lubm/univ-bench.owl"), + TestUtil.combinePaths(ontoDir, "lubm/data/lubm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "lubm/queries/test_all_pagoda.sparql") ); // AllTests.copy("output/log4j.log", "results-backup/jair/lubm" + number + ".out"); } public void lubm1000() { int number = 1000; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "lubm/univ-bench.owl", - PagodaTester.onto_dir + "lubm/data/lubm" + number + ".ttl", - PagodaTester.onto_dir + "lubm/queries/test_all_pagoda.sparql" + TestUtil.combinePaths(ontoDir, "lubm/univ-bench.owl"), + TestUtil.combinePaths(ontoDir, "lubm/data/lubm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "lubm/queries/test_all_pagoda.sparql") }; OWLOntology ontology = OWLHelper.loadOntology(args[0]); QueryReasoner reasoner = QueryReasoner.getInstance(Type.ELHOU, ontology, true, true); @@ -46,10 +48,11 @@ public class CostEvaluation { @Test public void uobm5() { int number = 1; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm" + number + ".ttl", - PagodaTester.onto_dir + "uobm/queries/standard_all_pagoda.sparql" + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard_all_pagoda.sparql") }; PagodaTester.main(args); // AllTests.copy("output/log4j.log", "results-backup/jair/uobm" + number + ".out"); @@ -57,10 +60,11 @@ public class CostEvaluation { public void uobm100() { int number = 200; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm" + number + ".ttl", - PagodaTester.onto_dir + "uobm/queries/standard_group3_all.sparql" + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard_group3_all.sparql") }; PagodaTester.main(args); // AllTests.copy("output/log4j.log", "results-backup/jair/uobm" + number + ".out"); @@ -68,10 +72,11 @@ public class CostEvaluation { public void uobm500() { int number = 500; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm" + number + ".ttl", - PagodaTester.onto_dir + "uobm/queries/standard_all_pagoda.sparql" + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard_all_pagoda.sparql") }; OWLOntology ontology = OWLHelper.loadOntology(args[0]); @@ -89,10 +94,11 @@ public class CostEvaluation { public static void main(String... args) { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); args = new String[] { - PagodaTester.onto_dir + "dbpedia/integratedOntology-all-in-one-minus-datatype.owl", - PagodaTester.onto_dir + "dbpedia/data/dbpedia-minus-datatype-new.ttl", - PagodaTester.onto_dir + "dbpedia/queries/atomic_ground.sparql" + 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") }; OWLOntology ontology = OWLHelper.loadOntology(args[0]); diff --git a/test/uk/ac/ox/cs/pagoda/test_units/JAIR_PAGOdA.java b/test/uk/ac/ox/cs/pagoda/test_units/JAIR_PAGOdA.java index ff616f7..10ac974 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/JAIR_PAGOdA.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/JAIR_PAGOdA.java @@ -2,7 +2,7 @@ package uk.ac.ox.cs.pagoda.test_units; import org.testng.annotations.Test; import uk.ac.ox.cs.pagoda.tester.PagodaTester; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; import java.io.IOException; @@ -10,162 +10,175 @@ public class JAIR_PAGOdA { @Test public void lubm1() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "lubm/univ-bench.owl", - PagodaTester.onto_dir + "lubm/data/lubm1.ttl", - PagodaTester.onto_dir + "lubm/queries/test.sparql" + TestUtil.combinePaths(ontoDir, "lubm/univ-bench.owl"), + TestUtil.combinePaths(ontoDir, "lubm/data/lubm1.ttl"), + TestUtil.combinePaths(ontoDir, "lubm/queries/test.sparql") }; PagodaTester.main(args); - Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda"); + TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda"); } @Test public void lubm1_conj() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "lubm/univ-bench.owl", - PagodaTester.onto_dir + "lubm/data/lubm1.ttl", - PagodaTester.onto_dir + "lubm/queries/test_pellet.sparql" + TestUtil.combinePaths(ontoDir, "lubm/univ-bench.owl"), + TestUtil.combinePaths(ontoDir, "lubm/data/lubm1.ttl"), + TestUtil.combinePaths(ontoDir, "lubm/queries/test_pellet.sparql") }; PagodaTester.main(args); - Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda_conj"); + TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda_conj"); } @Test public void lubm1_rolledUp() throws IOException { - String[] args = new String[] { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); + PagodaTester.main( "/home/yzhou/backup/20141212/univ-bench-queries.owl", - PagodaTester.onto_dir + "lubm/data/lubm1.ttl", - PagodaTester.onto_dir + "lubm/queries/atomic_lubm.sparql" - }; - PagodaTester.main(args); - Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda_rolledUp"); + TestUtil.combinePaths(ontoDir, "lubm/data/lubm1.ttl"), + TestUtil.combinePaths(ontoDir, "lubm/queries/atomic_lubm.sparql") + ); + TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda_rolledUp"); } @Test public void uobm1() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm1.ttl", - PagodaTester.onto_dir + "uobm/queries/standard.sparql" + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm1.ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard.sparql") }; PagodaTester.main(args); - Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda"); + TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda"); } @Test public void uobm1_conj() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm1.ttl", - PagodaTester.onto_dir + "uobm/queries/standard_pellet.sparql" + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm1.ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard_pellet.sparql") }; PagodaTester.main(args); - Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda_conj"); + TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda_conj"); } @Test public void uobm1_rolledUp() { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { "/home/yzhou/backup/20141212/univ-bench-dl-queries.owl", - PagodaTester.onto_dir + "uobm/data/uobm1.ttl", - PagodaTester.onto_dir + "uobm/queries/atomic_uobm.sparql" + TestUtil.combinePaths(ontoDir, "uobm/data/uobm1.ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/atomic_uobm.sparql") }; PagodaTester.main(args); -// AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda_rolledUp"); +// TestUtil.copyFile(("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda_rolledUp"); } @Test public void fly() { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl", + TestUtil.combinePaths(ontoDir, "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl"), null, - PagodaTester.onto_dir + "fly/queries/fly_pellet.sparql" + TestUtil.combinePaths(ontoDir, "fly/queries/fly_pellet.sparql") }; PagodaTester.main(args); -// AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda"); +// TestUtil.copyFile(("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda"); } @Test public void fly_conj() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl", + TestUtil.combinePaths(ontoDir, "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl"), null, - PagodaTester.onto_dir + "fly/queries/fly_pellet.sparql" + TestUtil.combinePaths(ontoDir, "fly/queries/fly_pellet.sparql") }; PagodaTester.main(args); - Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda_conj"); + TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda_conj"); } public void fly_rolledUp() { - PagodaTester.main(new String[] { -// PagodaTester.onto_dir + "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl", - PagodaTester.onto_dir + "fly/fly-all-in-one_rolledUp.owl", + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); + PagodaTester.main( +// TestUtil.combinePaths(ontoDir, "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl", + TestUtil.combinePaths(ontoDir, "fly/fly-all-in-one_rolledUp.owl"), null, - PagodaTester.onto_dir + "fly/queries/fly_atomic.sparql" - }); -// Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda_rolledUp"); + TestUtil.combinePaths(ontoDir, "fly/queries/fly_atomic.sparql") + ); +// TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda_rolledUp"); } public void dbpedia() { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "dbpedia/integratedOntology-all-in-one-minus-datatype.owl", - PagodaTester.onto_dir + "dbpedia/data/dbpedia-minus-datatype-new.ttl", - PagodaTester.onto_dir + "dbpedia/queries/atomic_ground.sparql" - , "dbpedia.ans" + 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"), + "dbpedia.ans" ); -// Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/dbpedia/pagoda"); +// TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/dbpedia/pagoda"); } public void npd() { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "npd/npd-all-minus-datatype.owl", - PagodaTester.onto_dir + "npd/data/npd-data-dump-minus-datatype-new.ttl", - PagodaTester.onto_dir + "npd/queries/atomic_ground.sparql" + TestUtil.combinePaths(ontoDir, "npd/npd-all-minus-datatype.owl"), + TestUtil.combinePaths(ontoDir, "npd/data/npd-data-dump-minus-datatype-new.ttl"), + TestUtil.combinePaths(ontoDir, "npd/queries/atomic_ground.sparql") , "npd.ans" ); -// Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/npd/pagoda"); +// TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/npd/pagoda"); } public void reactome() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "bio2rdf/reactome/biopax-level3-processed.owl", - PagodaTester.onto_dir + "bio2rdf/reactome/graph sampling/reactome_sample_10.ttl", + TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/biopax-level3-processed.owl"), + TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/graph sampling/reactome_sample_10.ttl"), // null, -// PagodaTester.onto_dir + "bio2rdf/reactome/queries/atomic_ground.sparql" - PagodaTester.onto_dir + "bio2rdf/reactome/queries/example.sparql" +// TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/queries/atomic_ground.sparql") + TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/queries/example.sparql") , "pagoda_reactome.ans" ); - Utility.copyFile("log4j.log", "output/jair/pagoda_reactome.example"); + TestUtil.copyFile("log4j.log", "output/jair/pagoda_reactome.example"); -// AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/reactome/pagoda_10p"); +// TestUtil.copyFile(("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/reactome/pagoda_10p"); } public void chembl() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "bio2rdf/chembl/cco-noDPR.ttl", - PagodaTester.onto_dir + "bio2rdf/chembl/graph sampling/sample_1.nt", -// PagodaTester.onto_dir + "bio2rdf/chembl/queries/atomic_ground.sparql" - PagodaTester.onto_dir + "bio2rdf/chembl/queries/example.sparql" + TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/cco-noDPR.ttl"), + TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/graph sampling/sample_1.nt"), +// TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/queries/atomic_ground.sparql") + TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/queries/example.sparql") , "pagoda_chembl.ans" ); - Utility.copyFile("log4j.log", "output/jair/pagoda_chembl.example"); -// Utility.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/chembl/pagoda_1p"); + TestUtil.copyFile("log4j.log", "output/jair/pagoda_chembl.example"); +// TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/chembl/pagoda_1p"); } public void uniprot() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "bio2rdf/uniprot/core-sat-processed.owl", - PagodaTester.onto_dir + "bio2rdf/uniprot/graph sampling/sample_1.nt", + TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/core-sat-processed.owl"), + TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/graph sampling/sample_1.nt"), // null, -// PagodaTester.onto_dir + "bio2rdf/uniprot/queries/atomic_ground.sparql" - PagodaTester.onto_dir + "bio2rdf/uniprot/queries/example.sparql" +// TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/queries/atomic_ground.sparql") + TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/queries/example.sparql") , "pagoda_uniprot.ans" ); - Utility.copyFile("log4j.log", "output/jair/pagoda_uniprot.example"); -// AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uniprot/pagoda_1p"); + TestUtil.copyFile("log4j.log", "output/jair/pagoda_uniprot.example"); +// TestUtil.copyFile("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uniprot/pagoda_1p"); } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/JAIR_Scalability.java b/test/uk/ac/ox/cs/pagoda/test_units/JAIR_Scalability.java index 43cb810..2cf8446 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/JAIR_Scalability.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/JAIR_Scalability.java @@ -3,7 +3,7 @@ package uk.ac.ox.cs.pagoda.test_units; import org.testng.annotations.Test; import uk.ac.ox.cs.pagoda.tester.PagodaTester; import uk.ac.ox.cs.pagoda.util.Properties; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; import java.io.IOException; @@ -27,10 +27,11 @@ public class JAIR_Scalability { } public void testReactome(int percentage, boolean save) throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "bio2rdf/reactome/biopax-level3-processed.owl", - PagodaTester.onto_dir + "bio2rdf/reactome/graph sampling/simplifed_sample_" + percentage + ".ttl", - PagodaTester.onto_dir + "bio2rdf/reactome/queries/test.sparql" + TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/biopax-level3-processed.owl"), + TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/graph sampling/simplifed_sample_" + percentage + ".ttl"), + TestUtil.combinePaths(ontoDir, "bio2rdf/reactome/queries/test.sparql") , "reactome.ans" }; if (percentage == 10) @@ -38,15 +39,16 @@ public class JAIR_Scalability { PagodaTester.main(args); if (save) - Utility.copyFile("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/reactome/pagoda_" + percentage + "p" + date); + TestUtil.copyFile("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/reactome/pagoda_" + percentage + "p" + date); } public void testChEMBL(int percentage, boolean save) throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "bio2rdf/chembl/cco-noDPR.ttl", - PagodaTester.onto_dir + "bio2rdf/chembl/sample_" + percentage + ".nt", -// PagodaTester.onto_dir + "bio2rdf/chembl/queries/atomic_ground.sparql" - PagodaTester.onto_dir + "bio2rdf/chembl/queries/test.sparql" + TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/cco-noDPR.ttl"), + TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/sample_" + percentage + ".nt"), +// TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/queries/atomic_ground.sparql") + TestUtil.combinePaths(ontoDir, "bio2rdf/chembl/queries/test.sparql") , "chembl.ans" }; if (percentage == 1 || percentage == 10 || percentage == 50) @@ -57,15 +59,16 @@ public class JAIR_Scalability { PagodaTester.main(args); if (save) - Utility.copyFile("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/chembl/pagoda_" + percentage + "p" + date); + TestUtil.copyFile("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/chembl/pagoda_" + percentage + "p" + date); } public void testUniProt(int percentage, boolean save) throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); String[] args = new String[] { - PagodaTester.onto_dir + "bio2rdf/uniprot/core-sat-processed.owl", - PagodaTester.onto_dir + "bio2rdf/uniprot/sample_" + percentage + ".nt", -// PagodaTester.onto_dir + "bio2rdf/uniprot/queries/atomic_ground.sparql" - PagodaTester.onto_dir + "bio2rdf/uniprot/queries/test.sparql" + TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/core-sat-processed.owl"), + TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/sample_" + percentage + ".nt"), +// TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/queries/atomic_ground.sparql") + TestUtil.combinePaths(ontoDir, "bio2rdf/uniprot/queries/test.sparql") , "uniprot.ans" }; @@ -77,7 +80,7 @@ public class JAIR_Scalability { PagodaTester.main(args); if (save) - Utility.copyFile("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uniprot/pagoda_" + percentage + "p" + date); + TestUtil.copyFile("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uniprot/pagoda_" + percentage + "p" + date); } public static void main(String... args) throws IOException { diff --git a/test/uk/ac/ox/cs/pagoda/test_units/LightEvaluation.java b/test/uk/ac/ox/cs/pagoda/test_units/LightEvaluation.java index 29006de..932c178 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/LightEvaluation.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/LightEvaluation.java @@ -2,7 +2,7 @@ package uk.ac.ox.cs.pagoda.test_units; import org.junit.Test; import uk.ac.ox.cs.pagoda.tester.PagodaTester; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; import java.io.IOException; @@ -11,52 +11,57 @@ public class LightEvaluation { @Test public void uobm1() throws IOException { int number = 1; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm" + number + ".ttl", - PagodaTester.onto_dir + "uobm/queries/standard.sparql" + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard.sparql") ); - Utility.copyFile("log4j.log", "output/jair/uobm1.out"); + TestUtil.copyFile("log4j.log", "output/jair/uobm1.out"); } @Test public void lubm100() throws IOException { int number = 100; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "lubm/univ-bench.owl", - PagodaTester.onto_dir + "lubm/data/lubm" + number + ".ttl", - PagodaTester.onto_dir + "lubm/queries/test.sparql" + TestUtil.combinePaths(ontoDir, "lubm/univ-bench.owl"), + TestUtil.combinePaths(ontoDir, "lubm/data/lubm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "lubm/queries/test.sparql") ); - Utility.copyFile("log4j.log", "results-backup/current/lubm100.out"); + TestUtil.copyFile("log4j.log", "results-backup/current/lubm100.out"); } @Test public void fly() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl", - PagodaTester.onto_dir + "fly/queries/fly.sparql" + TestUtil.combinePaths(ontoDir, "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl"), + TestUtil.combinePaths(ontoDir, "fly/queries/fly.sparql") ); - Utility.copyFile("log4j.log", "results-backup/current/fly.out"); + TestUtil.copyFile("log4j.log", "results-backup/current/fly.out"); } @Test public void dbpedia() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "dbpedia/integratedOntology-all-in-one-minus-datatype.owl", - PagodaTester.onto_dir + "dbpedia/data/dbpedia-minus-datatype-new.ttl", - PagodaTester.onto_dir + "dbpedia/atomic.sparql" + 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/atomic.sparql") ); - Utility.copyFile("log4j.log", "results-backup/current/dbpedia.out"); + TestUtil.copyFile("log4j.log", "results-backup/current/dbpedia.out"); } @Test public void npdWithoutDataType() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "npd/npd-all-minus-datatype.owl", - PagodaTester.onto_dir + "npd/data/npd-data-dump-minus-datatype-new.ttl", - PagodaTester.onto_dir + "npd/queries/atomic.sparql" + TestUtil.combinePaths(ontoDir, "npd/npd-all-minus-datatype.owl"), + TestUtil.combinePaths(ontoDir, "npd/data/npd-data-dump-minus-datatype-new.ttl"), + TestUtil.combinePaths(ontoDir, "npd/queries/atomic.sparql") ); - Utility.copyFile("log4j.log", "results-backup/current/npd_minus.out"); + TestUtil.copyFile("log4j.log", "results-backup/current/npd_minus.out"); } } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaDBPedia.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaDBPedia.java index aaf542e..1673179 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaDBPedia.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaDBPedia.java @@ -1,28 +1,28 @@ package uk.ac.ox.cs.pagoda.test_units; -import static org.junit.Assert.fail; - import org.junit.Test; - import uk.ac.ox.cs.pagoda.tester.PagodaTester; import uk.ac.ox.cs.pagoda.tester.Statistics; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; import java.io.IOException; +import static org.junit.Assert.fail; + public class PagodaDBPedia { @Test public void test() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "dbpedia/integratedOntology-all-in-one-minus-datatype.owl", - PagodaTester.onto_dir + "dbpedia/data/dbpedia-minus-datatype-new.ttl", - PagodaTester.onto_dir + "dbpedia/atomic.sparql" + 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/atomic.sparql") ); Statistics stat = new Statistics("output/log4j.log"); String diff = stat.diff("results-backup/benchmark/dbpedia.out"); - Utility.copyFile("output/log4j.log", "results-backup/current/dbpedia.out"); + TestUtil.copyFile("output/log4j.log", "results-backup/current/dbpedia.out"); if (!diff.isEmpty()) fail(diff); } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaELU.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaELU.java index c2fa838..70d531d 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaELU.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaELU.java @@ -2,15 +2,17 @@ package uk.ac.ox.cs.pagoda.test_units; import org.junit.Test; import uk.ac.ox.cs.pagoda.tester.PagodaTester; +import uk.ac.ox.cs.pagoda.util.TestUtil; public class PagodaELU { @Test void test() { - int number = 1; + int number = 1; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm" + number + ".ttl", - PagodaTester.onto_dir + "uobm/queries/standard.sparql" + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard.sparql") ); } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaFLY.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaFLY.java index 2fe07f0..bad533f 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaFLY.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaFLY.java @@ -1,16 +1,17 @@ package uk.ac.ox.cs.pagoda.test_units; import org.junit.Test; - import uk.ac.ox.cs.pagoda.tester.PagodaTester; +import uk.ac.ox.cs.pagoda.util.TestUtil; public class PagodaFLY { @Test public void test() { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl", - PagodaTester.onto_dir + "fly/queries/fly_pellet.sparql" + TestUtil.combinePaths(ontoDir, "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl"), + TestUtil.combinePaths(ontoDir, "fly/queries/fly_pellet.sparql") ); // Statistics stat = new Statistics("output/log4j.log"); diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaLUBM.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaLUBM.java index f40e41b..29abc87 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaLUBM.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaLUBM.java @@ -1,68 +1,24 @@ package uk.ac.ox.cs.pagoda.test_units; -import org.testng.Assert; import org.testng.annotations.Test; -import uk.ac.ox.cs.pagoda.tester.PagodaTester; -import uk.ac.ox.cs.pagoda.tester.Statistics; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; -import java.io.FileInputStream; import java.io.IOException; -import java.util.Properties; +import java.nio.file.Paths; public class PagodaLUBM { - public static final String CONFIG_FILE = "config/test.properties"; - - private static boolean isInit = false; - private static String ontoDir; - - private static void init() { - if(isInit) return; - isInit = true; - - Properties config = new Properties(); - - try(FileInputStream in = new FileInputStream(CONFIG_FILE)) { - config.load(in); - in.close(); - } catch (IOException e) { - e.printStackTrace(); - } - - ontoDir = config.getProperty("ontoDir"); - } - - private void test_all(int number) { - init(); - PagodaTester.main( - Utility.combinePaths(ontoDir, "lubm/univ-bench.owl"), - Utility.combinePaths(ontoDir, "lubm/data/lubm" + number + ".ttl"), - Utility.combinePaths(ontoDir, "lubm/queries/test.sparql") - ); - -// assertTrue(false); -// AllTests.copy("log4j.log", "output/jair/lubm" + number + ".out"); + private void testN(int number ) throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); + TestGlobalCorrectness.test(Paths.get(ontoDir, "lubm/univ-bench.owl"), + Paths.get(ontoDir, "lubm/data/lubm" + number + ".ttl"), + Paths.get(ontoDir, "lubm/queries/test.sparql"), + Paths.get(ontoDir, "lubm/lubm" + number + ".ans")); } @Test - public void test1() { - test_all(1); - } - -// @Test -// public void test() { -// int number = 100; -// test_all(number); -// } - - private void check(int number) throws IOException { - Statistics stat = new Statistics("output/log4j.log"); - // TODO insert proper file - String diff = stat.diff("results-backup/benchmark/lubm" + number + ".out"); - Utility.copyFile("output/log4j.log", "results-backup/current/lubm" + number + ".out"); - if (!diff.isEmpty()) - Assert.fail(diff); + public void test1() throws IOException { + testN(1); } } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD.java index 8fbe793..5f89162 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD.java @@ -1,43 +1,44 @@ package uk.ac.ox.cs.pagoda.test_units; -import static org.junit.Assert.fail; - import org.junit.Test; - import uk.ac.ox.cs.pagoda.tester.PagodaTester; import uk.ac.ox.cs.pagoda.tester.Statistics; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; import java.io.IOException; +import static org.junit.Assert.fail; + public class PagodaNPD { @Test public void testNPDwithoutDataType() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "npd/npd-all-minus-datatype.owl", - PagodaTester.onto_dir + "npd/data/npd-data-dump-minus-datatype-new.ttl", - PagodaTester.onto_dir + "npd/queries/atomic.sparql" + TestUtil.combinePaths(ontoDir, "npd/npd-all-minus-datatype.owl"), + TestUtil.combinePaths(ontoDir, "npd/data/npd-data-dump-minus-datatype-new.ttl"), + TestUtil.combinePaths(ontoDir, "npd/queries/atomic.sparql") ); Statistics stat = new Statistics("output/log4j.log"); String diff = stat.diff("results-backup/benchmark/npd_minus.out"); - Utility.copyFile("output/log4j.log", "results-backup/current/npd_minus.out"); + TestUtil.copyFile("output/log4j.log", "results-backup/current/npd_minus.out"); if (!diff.isEmpty()) fail(diff); } @Test public void testNPD() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "npd/npd-all.owl", - PagodaTester.onto_dir + "npd/data/npd-data-dump-processed.ttl", - PagodaTester.onto_dir + "npd/queries/atomic.sparql" + TestUtil.combinePaths(ontoDir, "npd/npd-all.owl"), + TestUtil.combinePaths(ontoDir, "npd/data/npd-data-dump-processed.ttl"), + TestUtil.combinePaths(ontoDir, "npd/queries/atomic.sparql") ); Statistics stat = new Statistics("output/log4j.log"); String diff = stat.diff("results-backup/benchmark/npd.out"); - Utility.copyFile("output/log4j.log", "results-backup/current/npd.out"); + TestUtil.copyFile("output/log4j.log", "results-backup/current/npd.out"); if (!diff.isEmpty()) fail(diff); } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD_bench.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD_bench.java index 1243180..1aca36a 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD_bench.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaNPD_bench.java @@ -1,28 +1,28 @@ package uk.ac.ox.cs.pagoda.test_units; -import static org.junit.Assert.fail; - import org.junit.Test; - import uk.ac.ox.cs.pagoda.tester.PagodaTester; import uk.ac.ox.cs.pagoda.tester.Statistics; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; import java.io.IOException; +import static org.junit.Assert.fail; + public class PagodaNPD_bench { @Test public void test() throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "npd-benchmark/npd-v2-ql_a.owl", - PagodaTester.onto_dir + "npd-benchmark/npd-v2-ql_a.ttl", - PagodaTester.onto_dir + "npd-benchmark/queries/all.sparql" + TestUtil.combinePaths(ontoDir, "npd-benchmark/npd-v2-ql_a.owl"), + TestUtil.combinePaths(ontoDir, "npd-benchmark/npd-v2-ql_a.ttl"), + TestUtil.combinePaths(ontoDir, "npd-benchmark/queries/all.sparql") ); Statistics stat = new Statistics("output/log4j.log"); String diff = stat.diff("results-backup/benchmark/npd-bench.out"); - Utility.copyFile("output/log4j.log", "results-backup/current/npd-bench.out"); + TestUtil.copyFile("output/log4j.log", "results-backup/current/npd-bench.out"); if (!diff.isEmpty()) fail(diff); } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaRLU.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaRLU.java index 8b31c99..c365196 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaRLU.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaRLU.java @@ -2,17 +2,19 @@ package uk.ac.ox.cs.pagoda.test_units; import org.junit.Test; import uk.ac.ox.cs.pagoda.tester.PagodaTester; +import uk.ac.ox.cs.pagoda.util.TestUtil; public class PagodaRLU { @Test public void testRL() { - int number = 1; + int number = 1; + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); PagodaTester.main( - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm" + number + ".ttl", - PagodaTester.onto_dir + "uobm/queries/standard.sparql" - ); + TestUtil.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), + TestUtil.combinePaths(ontoDir, "uobm/data/uobm" + number + ".ttl"), + TestUtil.combinePaths(ontoDir, "uobm/queries/standard.sparql") + ); } } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/PagodaUOBM.java b/test/uk/ac/ox/cs/pagoda/test_units/PagodaUOBM.java index 29a9056..f53ed7e 100644 --- a/test/uk/ac/ox/cs/pagoda/test_units/PagodaUOBM.java +++ b/test/uk/ac/ox/cs/pagoda/test_units/PagodaUOBM.java @@ -1,79 +1,24 @@ package uk.ac.ox.cs.pagoda.test_units; import org.testng.annotations.Test; -import uk.ac.ox.cs.pagoda.tester.PagodaTester; -import uk.ac.ox.cs.pagoda.tester.Statistics; -import uk.ac.ox.cs.pagoda.util.Utility; +import uk.ac.ox.cs.pagoda.util.TestUtil; -import java.io.FileInputStream; import java.io.IOException; -import java.util.Properties; +import java.nio.file.Paths; public class PagodaUOBM { - public static final String CONFIG_FILE = "config/test.properties"; - - private static boolean isInit = false; - private static String ontoDir; - - private static void init() { - if(isInit) return; - isInit = true; - - Properties config = new Properties(); - - try(FileInputStream in = new FileInputStream(CONFIG_FILE)) { - config.load(in); - in.close(); - } catch (IOException e) { - e.printStackTrace(); - } - - ontoDir = config.getProperty("ontoDir"); - } - - private void test_all(int number ) { - init(); - - PagodaTester.main( - Utility.combinePaths(ontoDir, "uobm/univ-bench-dl.owl"), - Utility.combinePaths(ontoDir, "uobm/data/uobm" + number + ".ttl"), - Utility.combinePaths(ontoDir, "uobm/queries/test.sparql") -// + ";" + -// Utility.combinePaths(ontoDir, "uobm/queries/standard_group3_all_less.sparql") + ";" + -// Utility.combinePaths(ontoDir, "uobm/queries/G3.sparql") + ";" + -// Utility.combinePaths(ontoDir, "uobm/queries/last.sparql") - ); - -// AllTests.copy("log4j.log", "output/jair/newuobm/uobm" + number + ".out"); - } - - private void test_upToSum(int number) { - init(); - - PagodaTester.main( - PagodaTester.onto_dir + "uobm/univ-bench-dl.owl", - PagodaTester.onto_dir + "uobm/data/uobm" + number + ".ttl", - PagodaTester.onto_dir + "uobm/queries/standard_group3_all.sparql" - ); - -// AllTests.copy("log4j.log", "output/jair/uobm" + number + ".out"); + private void testN(int number ) throws IOException { + String ontoDir = TestUtil.getConfig().getProperty("ontoDir"); + TestGlobalCorrectness.test(Paths.get(ontoDir, "uobm/univ-bench-dl.owl"), + Paths.get(ontoDir, "uobm/data/uobm" + number + ".ttl"), + Paths.get(ontoDir, "uobm/queries/test.sparql"), + Paths.get(ontoDir, "uobm/uobm" + number + ".ans")); } @Test - public void test1() { test_all(1); } - -// @Test - public void test500() { test_upToSum(500); } - -// public static void main(String... args) { -// new PagodaUOBM().test_all(1); -// } - - private void check() { - Statistics stat = new Statistics("results-backup/current/uobm1.out"); - String diff = stat.diff("results-backup/benchmark/uobm1.out"); - System.out.println(diff); + public void test1() throws IOException { + testN(1); } } diff --git a/test/uk/ac/ox/cs/pagoda/test_units/TestGlobalCorrectness.java b/test/uk/ac/ox/cs/pagoda/test_units/TestGlobalCorrectness.java new file mode 100644 index 0000000..34ec8cd --- /dev/null +++ b/test/uk/ac/ox/cs/pagoda/test_units/TestGlobalCorrectness.java @@ -0,0 +1,55 @@ +package uk.ac.ox.cs.pagoda.test_units; + +import com.google.gson.Gson; +import com.google.gson.GsonBuilder; +import com.google.gson.reflect.TypeToken; +import org.apache.log4j.Logger; +import org.testng.Assert; +import uk.ac.ox.cs.pagoda.query.AnswerTuple; +import uk.ac.ox.cs.pagoda.query.QueryRecord; +import uk.ac.ox.cs.pagoda.tester.PagodaTester; + +import java.io.BufferedReader; +import java.io.File; +import java.io.IOException; +import java.lang.reflect.Type; +import java.nio.file.Files; +import java.nio.file.Path; +import java.nio.file.Paths; +import java.util.Collection; +import java.util.Set; + +/* + * This is a unit test for TestNG. + *

+ * It tests the correctness on the final output. + * */ +public class TestGlobalCorrectness { + + public static final Logger logger = Logger.getLogger(TestGlobalCorrectness.class); + + public static void test(Path ontology, Path data, Path queries, Path givenAnswers) { + try { + Path computedAnswers = Paths.get(File.createTempFile("answers", ".tmp").getAbsolutePath()); + PagodaTester.main(ontology.toString(), data.toString(), queries.toString(), computedAnswers.toString()); + Assert.assertTrue(checkSameContent(computedAnswers, givenAnswers)); + } catch (IOException e) { + e.printStackTrace(); + } + } + + private static boolean checkSameContent(Path computedAnswersFile, Path givenAnswersFile) throws IOException { + BufferedReader computedReader = Files.newBufferedReader(computedAnswersFile); + BufferedReader givenReader = Files.newBufferedReader(givenAnswersFile); + + Gson gson = new GsonBuilder().create(); + + Type cqType = new TypeToken>() {}.getType(); + Collection computedAnswers = gson.fromJson(computedReader, cqType); + Collection givenAnswers = gson.fromJson(givenReader, cqType); + + return computedAnswers.equals(givenAnswers); + } + + +} -- cgit v1.2.3