/*
* #%L
* org.gitools.analysis
* %%
* Copyright (C) 2013 - 2014 Universitat Pompeu Fabra - Biomedical Genomics group
* %%
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as
* published by the Free Software Foundation, either version 3 of the
* License, or (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public
* License along with this program. If not, see
* <http://www.gnu.org/licenses/gpl-3.0.html>.
* #L%
*/
package org.gitools.analysis.overlap;
import org.gitools.analysis.AbstractProcessorTest;
import org.gitools.analysis.AnalysisException;
import org.gitools.analysis.AnalysisProcessor;
import org.gitools.analysis.AssertMatrix;
import org.gitools.analysis.overlapping.OverlappingAnalysis;
import org.gitools.analysis.overlapping.OverlappingProcessor;
import org.gitools.api.matrix.IMatrix;
import org.junit.Test;
import java.io.IOException;
import static junit.framework.Assert.assertEquals;
import static org.gitools.api.ApplicationContext.getProgressMonitor;
public class OverlapProcessorTest extends AbstractProcessorTest<OverlappingAnalysis> {
public OverlapProcessorTest() {
super(OverlappingAnalysis.class, "/overlap/analysis.overlapping");
}
@Test
public void testResourceFormat() {
assertEquals("analysis", getAnalysis().getTitle());
}
@Test
public void testAnalysisProcessor() throws IOException {
OverlappingAnalysis analysis = getAnalysis();
// Keep the correct results
IMatrix resultsOk = analysis.getCellResults().get();
analysis.setCellResults(null);
// Execute the analysis
try {
AnalysisProcessor processor = new OverlappingProcessor(analysis);
processor.run(getProgressMonitor());
} catch (AnalysisException e) {
e.printStackTrace();
}
// Test the store and load
IMatrix results = storeAndLoadMatrix(analysis.getCellResults().get());
// Compare the matrix
AssertMatrix.assertEquals(resultsOk, results);
}
}