diff --git a/pipeline.wdl b/pipeline.wdl index 56e9876..4998d8a 100644 --- a/pipeline.wdl +++ b/pipeline.wdl @@ -25,13 +25,18 @@ workflow pipeline { String project String cancer - String bed="$WORKFLOW/${probe}.bed" + String bed="$WORKFLOW/codes/public/${probe}.bed" String ref = "/home/install/ref/hg19/hg19.fa" String workdir="${output_dir}" Map[String, Boolean] catecode + # call mytask.create_dir as create_dir { + # input: + # workdir=workdir + # } + call qc.qc as qc { input: run=catecode['addQc'],