From 2992a14157e09a07adb86679a44bdfa394716c4a Mon Sep 17 00:00:00 2001
From: nfontrod <nicolas.fontrodona@ens-lyon.fr>
Date: Wed, 6 Jun 2018 13:59:20 +0000
Subject: [PATCH] Rnaseq.config : addition of trimming config
---
src/Rnaseq.config | 29 ++++++++++++++++++++++++++++-
1 file changed, 28 insertions(+), 1 deletion(-)
diff --git a/src/Rnaseq.config b/src/Rnaseq.config
index 3aae4b2b..1ea9d3bd 100644
--- a/src/Rnaseq.config
+++ b/src/Rnaseq.config
@@ -23,4 +23,31 @@ profiles {
}
}
}
-}
\ No newline at end of file
+}
+
+profiles {
+ docker {
+ docker.temp = 'auto'
+ docker.enabled = true
+ process {
+ $trimming {
+ container = "urqt:d62c1f8"
+ }
+ }
+ }
+ sge {
+ process{
+ $trimming {
+ beforeScript = "module purge; module load UrQt/d62c1f8"
+ executor = "sge"
+ cpus = 4
+ memory = "5GB"
+ time = "6h"
+ queueSize = 1000
+ pollInterval = '60sec'
+ queue = 'h6-E5-2667v4deb128'
+ penv = 'openmp8'
+ }
+ }
+ }
+}
--
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