package picard.illumina.parser.fakers;
import org.testng.Assert;
import org.testng.annotations.Test;
import picard.illumina.parser.readers.BclQualityEvaluationStrategy;
import picard.illumina.parser.readers.BclReader;
import java.io.File;
/**
* The MIT License
* <p/>
* Copyright (c) 2014 The Broad Institute
* <p/>
* 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:
* <p/>
* The above copyright notice and this permission notice shall be included in
* all copies or substantial portions of the Software.
* <p/>
* 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.
*/
public class BclFileFakerTest {
@Test
public void testFileLengthMatchesHeaderLength() throws Exception {
final File fakeFile = File.createTempFile("BclFileFakerTest", ".bcl");
fakeFile.deleteOnExit();
new BclFileFaker().fakeFile(fakeFile, 100000);
// .make() has a number of checks for the file
final BclReader bclReader = new BclReader(
fakeFile,
new BclQualityEvaluationStrategy(BclQualityEvaluationStrategy.ILLUMINA_ALLEGED_MINIMUM_QUALITY), false);
Assert.assertEquals(100000, BclReader.getNumberOfClusters(fakeFile));
Assert.assertEquals(BclReader.getNumberOfClusters(fakeFile), fakeFile.length() - 4);
}
@Test
public void testGZFileIsActuallyGZipped() throws Exception {
final File fakeFile = File.createTempFile("BclFileFakerTest", ".bcl.gz");
fakeFile.deleteOnExit();
new BclFileFaker().fakeFile(fakeFile, 100000);
new BclReader(
fakeFile,
new BclQualityEvaluationStrategy(BclQualityEvaluationStrategy.ILLUMINA_ALLEGED_MINIMUM_QUALITY), false);
}
}