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Need to rename the integration test argument -mask to -maskName

This commit is contained in:
Mark DePristo 2011-08-07 13:32:26 -04:00
parent ece8f0db5e
commit 1d8b1bae0a
1 changed files with 3 additions and 3 deletions
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6
public/java/test/org/broadinstitute/sting/gatk/walkers/filters/VariantFiltrationIntegrationTest.java
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@ -31,17 +31,17 @@ public class VariantFiltrationIntegrationTest extends WalkerTest {
@Test @Test
public void testMasks() { public void testMasks() {
WalkerTestSpec spec1 = new WalkerTestSpec( WalkerTestSpec spec1 = new WalkerTestSpec(
baseTestString() + " -mask foo --mask:VCF3 " + validationDataLocation + "vcfexample2.vcf --variants:VCF3 " + validationDataLocation + "vcfexample2.vcf -L 1:10,020,000-10,021,000", 1, baseTestString() + " -maskName foo --mask:VCF3 " + validationDataLocation + "vcfexample2.vcf --variants:VCF3 " + validationDataLocation + "vcfexample2.vcf -L 1:10,020,000-10,021,000", 1,
Arrays.asList("578f9e774784c25871678e6464fd212b")); Arrays.asList("578f9e774784c25871678e6464fd212b"));
executeTest("test mask all", spec1); executeTest("test mask all", spec1);
WalkerTestSpec spec2 = new WalkerTestSpec( WalkerTestSpec spec2 = new WalkerTestSpec(
baseTestString() + " -mask foo --mask:VCF " + validationDataLocation + "vcfMask.vcf --variants:VCF3 " + validationDataLocation + "vcfexample2.vcf -L 1:10,020,000-10,021,000", 1, baseTestString() + " -maskName foo --mask:VCF " + validationDataLocation + "vcfMask.vcf --variants:VCF3 " + validationDataLocation + "vcfexample2.vcf -L 1:10,020,000-10,021,000", 1,
Arrays.asList("bfa86a674aefca1b13d341cb14ab3c4f")); Arrays.asList("bfa86a674aefca1b13d341cb14ab3c4f"));
executeTest("test mask some", spec2); executeTest("test mask some", spec2);
WalkerTestSpec spec3 = new WalkerTestSpec( WalkerTestSpec spec3 = new WalkerTestSpec(
baseTestString() + " -mask foo -maskExtend 10 --mask:VCF " + validationDataLocation + "vcfMask.vcf --variants:VCF3 " + validationDataLocation + "vcfexample2.vcf -L 1:10,020,000-10,021,000", 1, baseTestString() + " -maskName foo -maskExtend 10 --mask:VCF " + validationDataLocation + "vcfMask.vcf --variants:VCF3 " + validationDataLocation + "vcfexample2.vcf -L 1:10,020,000-10,021,000", 1,
Arrays.asList("5939f80d14b32d88587373532d7b90e5")); Arrays.asList("5939f80d14b32d88587373532d7b90e5"));
executeTest("test mask extend", spec3); executeTest("test mask extend", spec3);
} }