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Fix busted performance test (-outputBam has been deprecated in the BQ recalibrator in favor of -o) 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4201 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
ebanks 2010-09-03 12:51:53 +00:00
parent 70bb480939
commit b59d62927e
1 changed files with 2 additions and 2 deletions
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4
java/test/org/broadinstitute/sting/gatk/walkers/recalibration/RecalibrationWalkersPerformanceTest.java
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@ -55,7 +55,7 @@ public class RecalibrationWalkersPerformanceTest extends WalkerTest {
" -L chr1:1-50,000,000" + " -L chr1:1-50,000,000" +
" -OQ" + " -OQ" +
" -recalFile " + evaluationDataLocation + "NA12878.GAII.chr1.50MB.recal.csv" + " -recalFile " + evaluationDataLocation + "NA12878.GAII.chr1.50MB.recal.csv" +
" -outputBam /dev/null", " -o /dev/null",
0, 0,
new ArrayList<String>(0)); new ArrayList<String>(0));
executeTest("testTableRecalibratorWholeGenome", spec); executeTest("testTableRecalibratorWholeGenome", spec);
@ -70,7 +70,7 @@ public class RecalibrationWalkersPerformanceTest extends WalkerTest {
" -L " + evaluationDataLocation + "whole_exome_agilent_designed_120.targets.chr1.interval_list" + " -L " + evaluationDataLocation + "whole_exome_agilent_designed_120.targets.chr1.interval_list" +
" -OQ" + " -OQ" +
" -recalFile " + evaluationDataLocation + "NA12878.ESP.WEx.chr1.recal.csv" + " -recalFile " + evaluationDataLocation + "NA12878.ESP.WEx.chr1.recal.csv" +
" -outputBam /dev/null", " -o /dev/null",
0, 0,
new ArrayList<String>(0)); new ArrayList<String>(0));
executeTest("testTableRecalibratorWholeExome", spec); executeTest("testTableRecalibratorWholeExome", spec);