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package uk.ac.ox.cs.pagoda.junit;
import org.junit.Test;
import uk.ac.ox.cs.pagoda.tester.PagodaTester;
import uk.ac.ox.cs.pagoda.util.Properties;
public class JAIR_Scalability {
private static final String date = "_0123";
@Test
public void reactome() {
testReactome(10, false);
}
@Test
public void chembl() {
testChEMBL(1, false);
}
@Test
public void uniprot() {
testUniProt(1, false);
}
public void testReactome(int percentage, boolean save) {
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"
, "reactome.ans"
};
if (percentage == 10)
args[1] = args[1].replace("simplifed", "reactome");
PagodaTester.main(args);
if (save)
AllTests.copy("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/reactome/pagoda_" + percentage + "p" + date);
}
public void testChEMBL(int percentage, boolean save) {
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"
, "chembl.ans"
};
if (percentage == 1 || percentage == 10 || percentage == 50)
args[1] = args[1].replace("chembl", "chembl/graph sampling");
else
if (percentage == 100)
args[1] = "/home/yzhou/RDFData/ChEMBL/facts/ChEMBL.ttl";
PagodaTester.main(args);
if (save)
AllTests.copy("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/chembl/pagoda_" + percentage + "p" + date);
}
public void testUniProt(int percentage, boolean save) {
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"
, "uniprot.ans"
};
if (percentage == 1 || percentage == 10 || percentage == 50)
args[1] = args[1].replace("uniprot", "uniprot/graph sampling");
else
if (percentage == 100)
args[1] = "/home/yzhou/krr-nas-share/Yujiao/ontologies/bio2rdf/uniprot/data/uniprot_cleaned.nt";
PagodaTester.main(args);
if (save)
AllTests.copy("log4j.log", "/home/yzhou/java-workspace/test-share/results_new/uniprot/pagoda_" + percentage + "p" + date);
}
public static void main(String... args) {
Properties.ShellModeDefault = true;
new JAIR_Scalability().testUniProt(50, false);
}
}
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