From b04822b544ccd9693d59704b4ec59ed4a6a59ec8 Mon Sep 17 00:00:00 2001
From: nfontrod <nicolas.fontrodona@ens-lyon.fr>
Date: Wed, 6 Jun 2018 13:50:41 +0000
Subject: [PATCH] Rnaseq.config : docker config for adaptor_removal process
---
src/Rnaseq.config | 26 ++++++++++++++++++++++++++
1 file changed, 26 insertions(+)
create mode 100644 src/Rnaseq.config
diff --git a/src/Rnaseq.config b/src/Rnaseq.config
new file mode 100644
index 0000000..3aae4b2
--- /dev/null
+++ b/src/Rnaseq.config
@@ -0,0 +1,26 @@
+profiles {
+ docker {
+ docker.temp = 'auto'
+ docker.enabled = true
+ process {
+ $adaptor_removal {
+ container = "cutadapt:1.14"
+ }
+ }
+ }
+ sge {
+ process{
+ $adaptor_removal {
+ beforeScript = "module purge; module load cutadapt/1.14"
+ executor = "sge"
+ cpus = 1
+ memory = "5GB"
+ time = "6h"
+ queueSize = 1000
+ pollInterval = '60sec'
+ queue = 'h6-E5-2667v4deb128'
+ penv = 'openmp8'
+ }
+ }
+ }
+}
\ No newline at end of file
--
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