From b567ed8793ad4af875e4ef4aab41c5ef89352fb5 Mon Sep 17 00:00:00 2001 From: Christopher Hartl Date: Wed, 1 Feb 2012 12:35:18 -0500 Subject: [PATCH] Use the right reference path :( --- .../org/broadinstitute/sting/queue/qscripts/lib/VcfToPed.scala | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/public/scala/qscript/org/broadinstitute/sting/queue/qscripts/lib/VcfToPed.scala b/public/scala/qscript/org/broadinstitute/sting/queue/qscripts/lib/VcfToPed.scala index 1c2620441..30b5cb084 100644 --- a/public/scala/qscript/org/broadinstitute/sting/queue/qscripts/lib/VcfToPed.scala +++ b/public/scala/qscript/org/broadinstitute/sting/queue/qscripts/lib/VcfToPed.scala @@ -31,7 +31,7 @@ class VcfToPed extends QScript { var intervals : File = _ @Argument(shortName="R",fullName="Ref",required=false,doc="Reference file") - var ref : File = new File("/humgen/1kg/references/human_g1k_v37.fasta") + var ref : File = new File("/humgen/1kg/reference/human_g1k_v37.fasta") @Argument(shortName="D",fullName="dbsnp",required=false,doc="dbsnp file") var dbsnp : File = new File("/humgen/gsa-hpprojects/GATK/data/dbsnp_129_b37.vcf")