72 lines
3.0 KiB
Java
72 lines
3.0 KiB
Java
/*
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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 net.sf.samtools;
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import org.testng.Assert;
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import org.testng.annotations.Test;
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/**
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* Test basic functionality of the GATK chunk, giving informative size capabilities, etc.
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*/
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public class GATKChunkUnitTest {
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private static final int FULL_BLOCK_COMPRESSED_SIZE = 25559;
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private static final int FULL_BLOCK_UNCOMPRESSED_SIZE = 65536;
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private static final int HALF_BLOCK_UNCOMPRESSED_SIZE = FULL_BLOCK_UNCOMPRESSED_SIZE/2;
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@Test
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public void testSizeOfEmptyChunk() {
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GATKChunk chunk = new GATKChunk(0,0);
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Assert.assertEquals(chunk.size(),0,"Empty chunk's size is not equal to 0.");
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}
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@Test
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public void testSizeOfChunkWithinSingleBlock() {
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GATKChunk chunk = new GATKChunk(0,FULL_BLOCK_UNCOMPRESSED_SIZE-1);
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Assert.assertEquals(chunk.size(),FULL_BLOCK_UNCOMPRESSED_SIZE-1,"Chunk spanning limits of block is returning wrong size.");
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chunk = new GATKChunk(0,HALF_BLOCK_UNCOMPRESSED_SIZE);
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Assert.assertEquals(chunk.size(),HALF_BLOCK_UNCOMPRESSED_SIZE,"Chunk spanning 1/2 block is returning the wrong size.");
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}
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@Test
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public void testSizeOfSingleBlock() {
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GATKChunk chunk = new GATKChunk(0,FULL_BLOCK_COMPRESSED_SIZE<<16);
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Assert.assertEquals(chunk.size(),FULL_BLOCK_UNCOMPRESSED_SIZE,"Chunk spanning complete block returns incorrect size.");
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}
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@Test
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public void testSizeOfBlockAndAHalf() {
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GATKChunk chunk = new GATKChunk(0,(FULL_BLOCK_COMPRESSED_SIZE<<16)+HALF_BLOCK_UNCOMPRESSED_SIZE);
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Assert.assertEquals(chunk.size(),FULL_BLOCK_UNCOMPRESSED_SIZE+HALF_BLOCK_UNCOMPRESSED_SIZE,"Chunk spanning 1.5 blocks returns incorrect size.");
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}
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@Test
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public void testSizeOfHalfBlock() {
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GATKChunk chunk = new GATKChunk(HALF_BLOCK_UNCOMPRESSED_SIZE,FULL_BLOCK_COMPRESSED_SIZE<<16);
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Assert.assertEquals(chunk.size(),HALF_BLOCK_UNCOMPRESSED_SIZE,"Chunk spanning 0.5 blocks returns incorrect size.");
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}
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}
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