From c95acf7862867cec72b5ceeedbfcf38023796da6 Mon Sep 17 00:00:00 2001 From: lestrada <lilia.estrada-virrueta@ens-lyon.fr> Date: Wed, 6 Jun 2018 14:42:54 +0000 Subject: [PATCH] RNA_Seq.config: add bedtools.config --- src/RNA_Seq.config | 27 +++++++++++++++++++++++++++ 1 file changed, 27 insertions(+) diff --git a/src/RNA_Seq.config b/src/RNA_Seq.config index 1ea9d3b..c63389b 100644 --- a/src/RNA_Seq.config +++ b/src/RNA_Seq.config @@ -51,3 +51,30 @@ profiles { } } } + +profiles { + docker { + docker.temp = 'auto' + docker.enabled = true + process { + $fasta_from_bed { + container = "bedtools:2.25.0" + } + } + } + sge { + process{ + $fasta_from_bed { + beforeScript = "module purge; module load BEDtools/2.25.0" + executor = "sge" + cpus = 1 + memory = "5GB" + time = "6h" + queueSize = 1000 + pollInterval = '60sec' + queue = 'h6-E5-2667v4deb128' + penv = 'openmp8' + } + } + } +} -- GitLab