package uk.ac.ox.cs.pagoda.junit;

import org.junit.Test;

import uk.ac.ox.cs.pagoda.tester.PagodaTester;

public class JAIR_PAGOdA {

	public void lubm1() {
		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" 
		};
		PagodaTester.main(args);
		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda"); 
	}
	
	
	public void lubm1_conj() {
		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" 
		};
		PagodaTester.main(args);
		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda_conj"); 
	}
	
	
	public void lubm1_rolledUp() {
		String[] args = new String[] {
				"/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);
		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/lubm1/pagoda_rolledUp"); 
	}
	
	
	public void uobm1() {
		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" 
		};
		PagodaTester.main(args);
		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda"); 
	}
	
	
	public void uobm1_conj() {
		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" 
		};
		PagodaTester.main(args);
		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda_conj"); 
	}

	
	public void uobm1_rolledUp() {
		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" 
		};
		PagodaTester.main(args);
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uobm1/pagoda_rolledUp"); 
	}
	
	
	public void fly() {
		String[] args = new String[] {
				PagodaTester.onto_dir + "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl",
				null, 
				PagodaTester.onto_dir + "fly/queries/fly_pellet.sparql" 
		};
		PagodaTester.main(args);
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda"); 
	}
	
	@Test
	public void fly_conj() {
		String[] args = new String[] {
				PagodaTester.onto_dir + "fly/fly_anatomy_XP_with_GJ_FC_individuals.owl",
				null, 
				PagodaTester.onto_dir + "fly/queries/fly_pellet.sparql" 
		};
		PagodaTester.main(args);
		AllTests.copy("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",
				null, 
				PagodaTester.onto_dir + "fly/queries/fly_atomic.sparql" 
		});
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/fly/pagoda_rolledUp"); 
	}
	
	public void dbpedia() {
		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"
		);
		
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/dbpedia/pagoda"); 
	}

	public void npd() {
		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"
				, "npd.ans"
		); 
		
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/npd/pagoda"); 
	}

	public void reactome() {
		PagodaTester.main(
				PagodaTester.onto_dir + "bio2rdf/reactome/biopax-level3-processed.owl", 
				PagodaTester.onto_dir + "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"
				, "pagoda_reactome.ans"
		);
		AllTests.copy("log4j.log", "output/jair/pagoda_reactome.example");
		
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/reactome/pagoda_10p"); 
	}
	
	public void chembl() {
		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"
				, "pagoda_chembl.ans"
		); 
		AllTests.copy("log4j.log", "output/jair/pagoda_chembl.example"); 
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/chembl/pagoda_1p"); 
	}

	public void uniprot() {
		PagodaTester.main(
				PagodaTester.onto_dir + "bio2rdf/uniprot/core-sat-processed.owl", 
				PagodaTester.onto_dir + "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"
				, "pagoda_uniprot.ans"
		); 
		AllTests.copy("log4j.log", "output/jair/pagoda_uniprot.example"); 
//		AllTests.copy("output/log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uniprot/pagoda_1p"); 
	}

	
	public static void main(String... args) {
		new JAIR_PAGOdA().fly();
	}

}