From ce051e4e9a2c5dd4e98c510a7e90426d258254ea Mon Sep 17 00:00:00 2001 From: ebanks Date: Sun, 28 Nov 2010 06:19:26 +0000 Subject: [PATCH] Write to sdout when no -o is provided git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4743 348d0f76-0448-11de-a6fe-93d51630548a --- .../sting/gatk/walkers/genotyper/BatchedCallsMerger.java | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/BatchedCallsMerger.java b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/BatchedCallsMerger.java index e9fb6e875..9ceff6f7c 100755 --- a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/BatchedCallsMerger.java +++ b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/BatchedCallsMerger.java @@ -54,7 +54,7 @@ import net.sf.samtools.SAMReadGroupRecord; public class BatchedCallsMerger extends LocusWalker implements TreeReducible { @ArgumentCollection private UnifiedArgumentCollection UAC = new UnifiedArgumentCollection(); - @Argument(doc = "VCF file to which variants should be written", required = false) + @Argument(doc = "VCF file to which variants should be written", required = true) public VCFWriter writer = null; @Argument(fullName="rod_list", shortName="rods", doc="A comma-separated string describing the rod names representing individual call batches", required=true)