From aeee41a7556f7d60390f03481e8ec4bdc30673dd Mon Sep 17 00:00:00 2001 From: chartl Date: Tue, 15 Feb 2011 02:19:18 +0000 Subject: [PATCH] Fix broken pipeline test (replacing PASS with .) git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5242 348d0f76-0448-11de-a6fe-93d51630548a --- .../sting/queue/library/ipf/vcf/VCFExtractSites.scala | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/scala/src/org/broadinstitute/sting/queue/library/ipf/vcf/VCFExtractSites.scala b/scala/src/org/broadinstitute/sting/queue/library/ipf/vcf/VCFExtractSites.scala index da69761a9..9fbc1e224 100755 --- a/scala/src/org/broadinstitute/sting/queue/library/ipf/vcf/VCFExtractSites.scala +++ b/scala/src/org/broadinstitute/sting/queue/library/ipf/vcf/VCFExtractSites.scala @@ -27,7 +27,7 @@ class VCFExtractSites( vcf: File, output: File) extends InProcessFunction { buf.append("\t.") } - buf.append("\t.") + buf.append("\tPASS") if ( keepInfo ) { buf.append("\t%s".format(spline(7))) @@ -71,4 +71,4 @@ class VCFExtractSites( vcf: File, output: File) extends InProcessFunction { w.close } -} \ No newline at end of file +}