From 74a17359a8fcefddb5bb2e264f0dd2f5777b9871 Mon Sep 17 00:00:00 2001
From: Chris Hartl <chartl@broadinstitue.org>
Date: Fri, 29 Mar 2013 14:52:10 -0400
Subject: [PATCH] MathUtils.randomSubset() now uses Collections.shuffle()
 (indirectly, through the other methods that are tested), resulting in
 slightly different numbers of calls to the RNG, and ultimately different sets
 of selected variants.

This commits updates the md5 values for the validation site selector integration test to reflect
these new random subsets of variants that are selected.
---
 .../ValidationSiteSelectorIntegrationTest.java         | 10 +++++-----
 1 file changed, 5 insertions(+), 5 deletions(-)

diff --git a/protected/java/test/org/broadinstitute/sting/gatk/walkers/validation/ValidationSiteSelectorIntegrationTest.java b/protected/java/test/org/broadinstitute/sting/gatk/walkers/validation/ValidationSiteSelectorIntegrationTest.java
index ff9896307..a3d9121d0 100644
--- a/protected/java/test/org/broadinstitute/sting/gatk/walkers/validation/ValidationSiteSelectorIntegrationTest.java
+++ b/protected/java/test/org/broadinstitute/sting/gatk/walkers/validation/ValidationSiteSelectorIntegrationTest.java
@@ -79,7 +79,7 @@ public class ValidationSiteSelectorIntegrationTest extends WalkerTest {
         WalkerTestSpec spec = new WalkerTestSpec(
                 baseTestString(sampleNone + freqUnif + "--variant " + testfile),
                 1,
-                Arrays.asList("b8a988757ac1f206d123140da5a3e778")
+                Arrays.asList("658c70cbb93faed8ca18e51cd6dd593f")
         );
 
         executeTest("testNoSampleSelectionFreqUniform--" + testfile, spec);
@@ -91,7 +91,7 @@ public class ValidationSiteSelectorIntegrationTest extends WalkerTest {
         WalkerTestSpec spec = new WalkerTestSpec(
                 baseTestString(sampleNone + freqAF + "--variant " + testfile),
                 1,
-                Arrays.asList("542d5d5ff8c64da7b077bab4b950a9a3")
+                Arrays.asList("90411433ea42846352b767da735af53b")
         );
 
         executeTest("testNoSampleSelectionFreqAF--" + testfile, spec);
@@ -103,7 +103,7 @@ public class ValidationSiteSelectorIntegrationTest extends WalkerTest {
         WalkerTestSpec spec = new WalkerTestSpec(
                 baseTestString(sampleGT + freqUnif + "--variant " + testfile),
                 1,
-                Arrays.asList("7385b17eed7f4ff0f6e82e60c3334ce7")
+                Arrays.asList("2afabd447185cf017f60c85380902117")
         );
 
         executeTest("testPolyGTFreqUniform--" + testfile, spec);
@@ -115,7 +115,7 @@ public class ValidationSiteSelectorIntegrationTest extends WalkerTest {
         WalkerTestSpec spec = new WalkerTestSpec(
                 baseTestString(sampleGT + freqAF + "--variant " + testfile),
                 1,
-                Arrays.asList("0ee4a565a0d4f6b6942abd72a373becd")
+                Arrays.asList("381e1a2f0e1908b4d7cba5d6361cf5aa")
         );
 
         executeTest("testPolyGTFreqAF--" + testfile, spec);
@@ -127,7 +127,7 @@ public class ValidationSiteSelectorIntegrationTest extends WalkerTest {
         WalkerTestSpec spec = new WalkerTestSpec(
                 baseTestString(sampleGL + freqAF + "--variant " + testfile),
                 1,
-                Arrays.asList("0ee4a565a0d4f6b6942abd72a373becd")
+                Arrays.asList("381e1a2f0e1908b4d7cba5d6361cf5aa")
         );
 
         executeTest("testPolyGLFreqAF--" + testfile, spec);