From 1aeb887aaa1f1250149ed7c16bf91c453a16ed0c Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 19 Oct 2021 09:50:03 +0200
Subject: [PATCH] ucsc: add wig2_to_bedgraph2
---
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 6ce54f0d..c3b5ee05 100644
--- a/src/nf_modules/ucsc/main.nf
+++ b/src/nf_modules/ucsc/main.nf
@@ -57,6 +57,29 @@ wigToBedGraph ${wig} ${wig.simpleName}.bg
"""
}
+params.wig2_to_bedgraph2 = ""
+params.wig2_to_bedgraph2_out = ""
+process wig2_to_bedgraph2 {
+ container = "${container_url}"
+ label "big_mem_mono_cpus"
+ tag "${file_id}"
+ if (params.wig2_to_bedgraph2_out != "") {
+ publishDir "results/${params.wig2_to_bedgraph2_out}", mode: 'copy'
+ }
+
+ input:
+ tuple val(file_id), path(wig_a), path(wig_b)
+
+ output:
+ tuple val(file_id), path("${wig_a.simpleName}.wig"), path("${wig_b.simpleName}.wig"), emit: wig
+
+ script:
+"""
+wigToBedGraph ${wig_a} ${wig_a.simpleName}.bg
+wigToBedGraph ${wig_b} ${wig_b.simpleName}.bg
+"""
+}
+
params.bigwig_to_wig = ""
params.bigwig_to_wig_out = ""
process bigwig_to_wig {
--
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