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Tests for downsampling related utilities in ListUtils class that didn't get checked in earlier 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1352 348d0f76-0448-11de-a6fe-93d51630548a
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andrewk 2009-07-31 00:09:35 +00:00
parent efd0fd1f0a
commit 8eeb87af2a
1 changed files with 61 additions and 0 deletions
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java/test/org/broadinstitute/sting/utils/ListUtilsTest.java 100644
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package org.broadinstitute.sting.utils;
import org.junit.Assert;
import org.junit.BeforeClass;
import org.junit.Test;
import org.broadinstitute.sting.BaseTest;
import org.broadinstitute.sting.utils.MathUtils;
import java.io.File;
import java.util.List;
import java.util.ArrayList;
import java.util.Collections;
/**
* Basic unit test for MathUtils
*/
public class ListUtilsTest extends BaseTest {
@BeforeClass
public static void init() { }
/**
* Tests that the random index selection is working correctly
*/
@Test
public void testRandomIndicesWithReplacement() {
logger.warn("Executing testRandomIndicesWithReplacement");
// Check that the size of the list returned is correct
Assert.assertTrue(ListUtils.sampleIndicesWithReplacement(0, 5).size() == 0);
Assert.assertTrue(ListUtils.sampleIndicesWithReplacement(1, 5).size() == 1);
Assert.assertTrue(ListUtils.sampleIndicesWithReplacement(5, 5).size() == 5);
Assert.assertTrue(ListUtils.sampleIndicesWithReplacement(1000, 5).size() == 1000);
// Check that the list contains only the k element range that as asked for - no more, no less
List<Integer> Five = new ArrayList<Integer>();
Collections.addAll(Five, 0, 1, 2, 3, 4);
List<Integer> BigFive = ListUtils.sampleIndicesWithReplacement(10000, 5);
Assert.assertTrue(BigFive.containsAll(Five));
Assert.assertTrue(Five.containsAll(BigFive));
}
/**
* Tests that we get the right values from the multinomial distribution
*/
@Test
public void testSliceListByIndices() {
logger.warn("Executing testSliceListByIndices");
// Check that the list contains only the k element range that as asked for - no more, no less but now
// use the index list to pull elements from another list using sliceListByIndices
List<Integer> Five = new ArrayList<Integer>();
Collections.addAll(Five, 0, 1, 2, 3, 4);
List<Character> FiveAlpha = new ArrayList<Character>();
Collections.addAll(FiveAlpha, 'a', 'b', 'c', 'd', 'e');
List<Integer> BigFive = ListUtils.sampleIndicesWithReplacement(10000, 5);
List<Character> BigFiveAlpha = ListUtils.sliceListByIndices(BigFive, FiveAlpha);
Assert.assertTrue(BigFiveAlpha.containsAll(FiveAlpha));
Assert.assertTrue(FiveAlpha.containsAll(BigFiveAlpha));
}
}