From 62cbf7ae299d16727aeb1a48aba27af9f77a3073 Mon Sep 17 00:00:00 2001 From: Sarah Wait Zaranek Date: Fri, 3 Jul 2020 13:10:27 +0000 Subject: [PATCH] Updating yml files Arvados-DCO-1.1-Signed-off-by: Sarah Wait Zaranek no issue # --- .../cwl/helper/gatk-haplotypecaller-with-interval.cwl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/WGS-processing/cwl/helper/gatk-haplotypecaller-with-interval.cwl b/WGS-processing/cwl/helper/gatk-haplotypecaller-with-interval.cwl index 53d7ee2..4b3d1a7 100644 --- a/WGS-processing/cwl/helper/gatk-haplotypecaller-with-interval.cwl +++ b/WGS-processing/cwl/helper/gatk-haplotypecaller-with-interval.cwl @@ -68,7 +68,7 @@ arguments: - prefix: "-L" valueFrom: $(inputs.intervallist) - prefix: "-O" - valueFrom: $(runtime.outdir)/$(inputs.sample)-$(inputs.intervallist.nameroot).gatk.g.vcf.gz + valueFrom: $(inputs.sample)-$(inputs.intervallist.nameroot).gatk.g.vcf.gz - prefix: "-ERC" valueFrom: "GVCF" - prefix: "-GQB" -- 2.30.2