From d1a7babc7df2795f52e71d3017879b3952248ba0 Mon Sep 17 00:00:00 2001 From: Laurent Modolo <laurent.modolo@ens-lyon.fr> Date: Wed, 29 Sep 2021 16:44:06 +0200 Subject: [PATCH] uscc: add bigwig_to_wig process --- src/nf_modules/ucsc/main.nf | 23 +++++++++++++++++++++++ 1 file changed, 23 insertions(+) diff --git a/src/nf_modules/ucsc/main.nf b/src/nf_modules/ucsc/main.nf index bba18343..7adf6a81 100644 --- a/src/nf_modules/ucsc/main.nf +++ b/src/nf_modules/ucsc/main.nf @@ -31,3 +31,26 @@ sort -T ./ -k1,1 -k2,2n ${bg} > \ """ } +params.bigwig_to_wig = "" +params.bigwig_to_wig_out = "" +process bigwig_to_wig { + container = "${container_url}" + label "big_mem_mono_cpus" + tag "${file_id}" + if (params.bigwig_to_wig_out != "") { + publishDir "results/${params.bigwig_to_wig_out}", mode: 'copy' + } + + input: + tuple val(file_id) path(bg) + + output: + tuple val(file_id), path("*.wig"), emit: wig + + script: +""" +bigWigToWig ${params.bigwig_to_wig} - \ + ${bg} \ + ${bg.simpleName}.wig +""" +} \ No newline at end of file -- GitLab