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Merged bug fix from Stable into Unstable

This commit is contained in:
Eric Banks 2013-01-11 09:20:13 -05:00
parent e7906713d9 67fafbb625
commit 79b93f659c
1 changed files with 2 additions and 1 deletions
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3
protected/java/src/org/broadinstitute/sting/gatk/walkers/compression/reducereads/SingleSampleCompressor.java
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@ -50,6 +50,7 @@ import org.broadinstitute.sting.utils.collections.Pair;
import org.broadinstitute.sting.utils.sam.AlignmentStartWithNoTiesComparator; import org.broadinstitute.sting.utils.sam.AlignmentStartWithNoTiesComparator;
import org.broadinstitute.sting.utils.sam.GATKSAMRecord; import org.broadinstitute.sting.utils.sam.GATKSAMRecord;
import java.util.Collections;
import java.util.Set; import java.util.Set;
import java.util.TreeSet; import java.util.TreeSet;
@ -126,7 +127,7 @@ public class SingleSampleCompressor {
} }
public Set<GATKSAMRecord> closeVariantRegions(CompressionStash regions) { public Set<GATKSAMRecord> closeVariantRegions(CompressionStash regions) {
return slidingWindow.closeVariantRegions(regions); return slidingWindow == null ? Collections.<GATKSAMRecord>emptySet() : slidingWindow.closeVariantRegions(regions);
} }
} }