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/*
* The MIT License (MIT)
*
* Copyright (c) 2007-2015 Broad Institute
*
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
*
* The above copyright notice and this permission notice shall be included in
* all copies or substantial portions of the Software.
*
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
* AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
* LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
* OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
* THE SOFTWARE.
*/
package org.broad.igv.tools.parsers;
import org.broad.igv.AbstractHeadlessTest;
import org.broad.igv.tools.converters.GCTtoIGVConverter;
import org.broad.igv.util.ResourceLocator;
import org.broad.igv.util.TestUtils;
import org.junit.Ignore;
import org.junit.Test;
import java.io.File;
import java.io.IOException;
/**
* @author jrobinso
* @date Oct 9, 2010
*/
public class GCTtoIGVConverterTest extends AbstractHeadlessTest {
@Test
public void testDescriptionMapping() throws IOException {
String gctFile = TestUtils.DATA_DIR + "gct/igv_test2.gct";
File igvFile = new File(TestUtils.DATA_DIR + "gct/igv_test2.gct.igv");
igvFile.deleteOnExit();
ResourceLocator locator = new ResourceLocator(gctFile);
GCTtoIGVConverter.convert(locator, igvFile, null, 50000, null, genome);
}
@Ignore("No network access")
@Test
public void testAffyMapping() throws IOException {
String gctFile = TestUtils.DATA_DIR + "gct/affy_human.gct";
File igvFile = new File(TestUtils.DATA_DIR + "gct/affy_human.gct.igv");
igvFile.deleteOnExit();
ResourceLocator locator = new ResourceLocator(gctFile);
GCTtoIGVConverter.convert(locator, igvFile, null, 50000, null, genome);
}
}
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