106 lines
3.3 KiB
Java
Executable File
106 lines
3.3 KiB
Java
Executable File
package org.broadinstitute.sting.utils.glf;
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import org.junit.Before;
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import org.junit.Test;
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import static org.junit.Assert.assertEquals;
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import org.broadinstitute.sting.BaseTest;
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import static junit.framework.Assert.assertTrue;
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/*
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* Copyright (c) 2009 The Broad Institute
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*
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* Permission is hereby granted, free of charge, to any person
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* obtaining a copy of this software and associated documentation
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* files (the "Software"), to deal in the Software without
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* restriction, including without limitation the rights to use,
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* copy, modify, merge, publish, distribute, sublicense, and/or sell
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* copies of the Software, and to permit persons to whom the
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* Software is furnished to do so, subject to the following
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* conditions:
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*
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* The above copyright notice and this permission notice shall be
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* included in all copies or substantial portions of the Software.
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*
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* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
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* EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
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* OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
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* NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
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* HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
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* WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
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* FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR
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* OTHER DEALINGS IN THE SOFTWARE.
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*/
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/**
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* @author aaron
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* <p/>
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* Class LikelihoodObjectTest
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* <p/>
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* Tests the Likelihood object.
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*/
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public class LikelihoodObjectTest extends BaseTest {
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private LikelihoodObject mLO = null;
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@Before
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public void before() {
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mLO = new LikelihoodObject();
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}
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@Test
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public void testBlankConstruction() {
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mLO = new LikelihoodObject();
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assertTrue(mLO.likelihood.size() == LikelihoodObject.GENOTYPE.values().length);
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}
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@Test
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public void testConstructionFromArray() {
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int[] ray = new int[10];
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for (int x = 0; x < 10; x++) {
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ray[x] = ( x * 25 );
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}
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mLO = new LikelihoodObject(ray);
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assertTrue(mLO.likelihood.size() == LikelihoodObject.GENOTYPE.values().length);
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int index = 0;
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for (LikelihoodObject.GENOTYPE t : LikelihoodObject.GENOTYPE.values()) {
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assertTrue(ray[index] == mLO.likelihood.get(t));
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++index;
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}
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}
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@Test
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public void testByteArrayReturn() {
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int[] ray = new int[10];
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for (int x = 0; x < 10; x++) {
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ray[x] = ( x * 25 );
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}
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mLO = new LikelihoodObject(ray);
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assertTrue(mLO.likelihood.size() == LikelihoodObject.GENOTYPE.values().length);
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int index = 0;
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int[] ret = mLO.toByteArray();
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for (index = 0; index < ret.length; index++) {
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assertTrue(ray[index] == ret[index]);
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}
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}
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@Test
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public void testSetLikelihood() {
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mLO = new LikelihoodObject();
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for (LikelihoodObject.GENOTYPE t : LikelihoodObject.GENOTYPE.values()) {
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mLO.setLikelihood(t,0.5f);
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}
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assertTrue(mLO.likelihood.size() == LikelihoodObject.GENOTYPE.values().length);
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int index = 0;
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int[] ret = mLO.toByteArray();
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for (index = 0; index < ret.length; index++) {
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assertTrue(ret[index] == 128);
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}
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}
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}
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