/*
* The MIT License
*
* Copyright (c) 2015 The 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 picard.vcf.processor;
import org.testng.Assert;
import org.testng.annotations.Test;
import java.io.File;
/**
* @author mccowan
*/
public class ByWholeContigTest {
public final static File TEST_VCF = new File("testdata/picard/vcf/CEUTrio-indels-bad-samples.vcf");
@Test
public void test() throws Exception {
final VcfFileSegmentGenerator.ByWholeContig segmenter = VcfFileSegmentGenerator.ByWholeContig.getInstance();
int chunkCount = 0;
for (final VcfFileSegment variantContextCloseableIterator : segmenter.forVcf(TEST_VCF)) {
chunkCount++;
}
Assert.assertEquals(chunkCount, 84);
}
}