From 4f37c0be381b6144ffef0e49fc8dd2963456510f Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Thu, 18 Feb 2021 11:39:29 +0100
Subject: [PATCH] macs3: fix gsize parameter
---
src/nf_modules/macs3/main.nf | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/src/nf_modules/macs3/main.nf b/src/nf_modules/macs3/main.nf
index 5806e234..10060657 100644
--- a/src/nf_modules/macs3/main.nf
+++ b/src/nf_modules/macs3/main.nf
@@ -1,7 +1,7 @@
version = "3.0.0a6"
container_url = "lbmc/macs3:${version}"
-macs3_genome_size=3e9
+params.macs_gsize=3e9
process peak_calling {
container = "${container_url}"
@@ -24,7 +24,7 @@ macs3 callpeak \
--control ${bam_control} \
--keep-dup all \
--name ${bam_ip.simpleName} \
- --gsize ${macs3_genome_size} 2> \
+ --gsize ${params.macs_gsize} 2> \
${bam_ip.simpleName}_macs3_report.txt
if grep -q "ERROR" ${bam_ip.simpleName}_macs3_report.txt; then
@@ -59,7 +59,7 @@ macs3 callpeak \
--control ${bg_control.simpleName}.bed \
--keep-dup all \
--name ${bg_ip.simpleName} \
- --gsize ${macs3_genome_size} 2> \
+ --gsize ${params.macs_gsize} 2> \
${bg_ip.simpleName}_macs3_report.txt
if grep -q "ERROR" ${bg_ip.simpleName}_macs3_report.txt; then
--
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