From 3a4977c75e9689f015e48f74744bd204ffb77e31 Mon Sep 17 00:00:00 2001 From: chartl Date: Mon, 16 Aug 2010 18:19:47 +0000 Subject: [PATCH] Re-add the 1KG trigger as a comp as well git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4045 348d0f76-0448-11de-a6fe-93d51630548a --- scala/qscript/fullCallingPipeline.q | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/scala/qscript/fullCallingPipeline.q b/scala/qscript/fullCallingPipeline.q index 0e390911c..7ff956665 100755 --- a/scala/qscript/fullCallingPipeline.q +++ b/scala/qscript/fullCallingPipeline.q @@ -111,8 +111,8 @@ def endToEnd(base: String, bamFiles: List[File]) = { snps.rodBind :+= RodBind( "comp1KG_CEU", "VCF", new File("/humgen/gsa-hpprojects/GATK/data/Comparisons/Unvalidated/1kg_pilot1_projectCalls/CEU.low_coverage.2010_07.sites.hg18.vcf.gz") ) - // TODO: what is the 1KG_ALL track? - //snps.rodBind :+= RodBind( "comp1KG_ALL", "VCF", qscript.trigger ) + // TODO: what is the 1KG_ALL track? -- same as trigger -- just makes sure the field is propagated :: chartl + snps.rodBind :+= RodBind( "comp1KG_ALL", "VCF", qscript.trigger ) snps.scatterCount = 100