43 lines
1.4 KiB
Java
Executable File
43 lines
1.4 KiB
Java
Executable File
package org.broadinstitute.sting.gatk.walkers;
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import org.broadinstitute.sting.WalkerTest;
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import org.testng.annotations.DataProvider;
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import org.testng.annotations.Test;
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import java.util.Arrays;
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import java.util.HashMap;
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public class PrintReadsIntegrationTest extends WalkerTest {
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private static class PRTest {
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final static String REF = hg18Reference;
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final static String BAM = validationDataLocation + "HiSeq.1mb.bam";
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String args;
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String md5;
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private PRTest(String args, String md5) {
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this.args = args;
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this.md5 = md5;
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}
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}
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@DataProvider(name = "PRTest")
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public Object[][] createData1() {
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return new Object[][]{
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{new PRTest("", "dc8e5451dd29757c336013146010f73a")},
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{new PRTest(" -compress 0", "fde82269c78c9e91e57286433531b4af")},
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{new PRTest(" -simplifyBAM", "0531717b32a7e21c0de70b1526b0751f")} };
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}
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@Test(dataProvider = "PRTest")
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public void testPrintReads(PRTest params) {
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WalkerTestSpec spec = new WalkerTestSpec(
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"-T PrintReads -R " + params.REF +
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" -I " + params.BAM +
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params.args +
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" -o %s",
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Arrays.asList(params.md5));
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executeTest("testVariantRecalibrator-"+params.args, spec).getFirst();
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}
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}
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