66 lines
2.6 KiB
Java
66 lines
2.6 KiB
Java
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/*
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* Copyright (c) 2012 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
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* THE USE OR OTHER DEALINGS IN THE SOFTWARE.
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*/
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package org.broadinstitute.sting.utils;
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/**
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* Created by IntelliJ IDEA.
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* User: rpoplin
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* Date: 3/21/12
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*/
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import org.broadinstitute.sting.BaseTest;
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import org.testng.Assert;
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import org.testng.annotations.BeforeClass;
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import org.testng.annotations.Test;
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import java.util.*;
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/**
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* Basic unit test for QualityUtils class
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*/
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public class QualityUtilsUnitTest extends BaseTest {
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@BeforeClass
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public void init() {
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}
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@Test
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public void testQualCaches() {
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Assert.assertEquals(QualityUtils.qualToErrorProb((byte) 20), 0.01, 1e-6);
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Assert.assertEquals(QualityUtils.qualToErrorProbLog10((byte) 20), -2.0, 1e-6);
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Assert.assertEquals(QualityUtils.qualToProb((byte) 20), 0.99, 1e-6);
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Assert.assertEquals(QualityUtils.qualToProbLog10((byte) 20), -0.0043648054, 1e-6);
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Assert.assertEquals(QualityUtils.qualToErrorProb((byte) 30), 0.001, 1e-6);
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Assert.assertEquals(QualityUtils.qualToErrorProbLog10((byte) 30), -3.0, 1e-6);
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Assert.assertEquals(QualityUtils.qualToProb((byte) 30), 0.999, 1e-6);
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Assert.assertEquals(QualityUtils.qualToProbLog10((byte) 30), -0.000434511774, 1e-6);
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Assert.assertEquals(QualityUtils.qualToErrorProb((byte) 40), 0.0001, 1e-6);
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Assert.assertEquals(QualityUtils.qualToErrorProbLog10((byte) 40), -4.0, 1e-6);
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Assert.assertEquals(QualityUtils.qualToProb((byte) 40), 0.9999, 1e-6);
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Assert.assertEquals(QualityUtils.qualToProbLog10((byte) 40), -4.34316198e-5, 1e-6);
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}
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}
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