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/*
* BioJava development code
*
* This code may be freely distributed and modified under the
* terms of the GNU Lesser General Public Licence. This should
* be distributed with the code. If you do not have a copy,
* see:
*
* http://www.gnu.org/copyleft/lesser.html
*
* Copyright for this code is held jointly by the individual
* authors. These should be listed in @author doc comments.
*
* For more information on the BioJava project and its aims,
* or to join the biojava-l mailing list, visit the home page
* at:
*
* http://www.biojava.org/
*
*/
package org.biojava.bio.program.phred;
import junit.framework.TestCase;
import org.biojava.bio.seq.DNATools;
import org.biojava.bio.symbol.IllegalSymbolException;
import org.biojava.bio.symbol.IntegerAlphabet;
import org.biojava.utils.AssertionFailure;
/**
* @author Matthew Pocock
*/
public class PhredToolsTest
extends TestCase {
public PhredToolsTest(String name) {
super(name);
}
public void testGetPhredSymbol() {
try {
PhredTools.getPhredSymbol(DNATools.a(), IntegerAlphabet.getInstance().getSymbol(1));
PhredTools.getPhredSymbol(DNATools.g(), IntegerAlphabet.getInstance().getSymbol(2));
PhredTools.getPhredSymbol(DNATools.c(), IntegerAlphabet.getInstance().getSymbol(3));
PhredTools.getPhredSymbol(DNATools.t(), IntegerAlphabet.getInstance().getSymbol(4));
} catch (IllegalSymbolException ise) {
throw new AssertionFailure(ise);
}
}
public void testGetPhredSymbolAmbiguous() {
try {
PhredTools.getPhredSymbol(DNATools.n(), IntegerAlphabet.getInstance().getSymbol(5));
} catch (IllegalSymbolException ise) {
throw new AssertionFailure(ise);
}
}
}
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