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Fix bug in unit tests created by new filter in TraversalEngine. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@868 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
hanna 2009-06-01 15:50:44 +00:00
parent fc7320133c
commit b7defeae83
1 changed files with 1 additions and 1 deletions
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2
java/src/org/broadinstitute/sting/gatk/traversals/TraversalEngine.java
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@ -417,7 +417,7 @@ public abstract class TraversalEngine {
if (beSafeP != null && beSafeP && enableVerification) if (beSafeP != null && beSafeP && enableVerification)
wrappedIterator = new VerifyingSamIterator(wrappedIterator); wrappedIterator = new VerifyingSamIterator(wrappedIterator);
if ( filterZeroMappingQualityReads ) if ( filterZeroMappingQualityReads != null && filterZeroMappingQualityReads )
wrappedIterator = StingSAMIteratorAdapter.adapt(wrappedIterator.getSourceInfo(), wrappedIterator = StingSAMIteratorAdapter.adapt(wrappedIterator.getSourceInfo(),
new FilteringIterator(wrappedIterator, new ZeroMappingQualityReadFilterFunc())); new FilteringIterator(wrappedIterator, new ZeroMappingQualityReadFilterFunc()));