From 68aa07a81c6b80f94331149e09b2e4033c11b8c0 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Tue, 23 Oct 2018 16:20:51 +0200
Subject: [PATCH] RSEM: nf update psmn config
---
src/nf_modules/RSEM/quantification_paired.config | 9 ++++++++-
src/nf_modules/RSEM/quantification_single.config | 9 ++++++++-
2 files changed, 16 insertions(+), 2 deletions(-)
diff --git a/src/nf_modules/RSEM/quantification_paired.config b/src/nf_modules/RSEM/quantification_paired.config
index 5c52dce..30e5a2a 100644
--- a/src/nf_modules/RSEM/quantification_paired.config
+++ b/src/nf_modules/RSEM/quantification_paired.config
@@ -11,7 +11,14 @@ profiles {
psmn {
process{
withname: mapping_fastq {
- beforeScript = "module purge; module load RSEM/1.3.0; module load SAMtools/1.7"
+ beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
+ module = "RSEM/1.3.0:SAMtools/1.7"
+ executor = "psmn"
+ cpus = 16
+ memory = "30GB"
+ time = "24h"
+ queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
+ penv = 'openmp16'
}
}
}
diff --git a/src/nf_modules/RSEM/quantification_single.config b/src/nf_modules/RSEM/quantification_single.config
index 5c52dce..30e5a2a 100644
--- a/src/nf_modules/RSEM/quantification_single.config
+++ b/src/nf_modules/RSEM/quantification_single.config
@@ -11,7 +11,14 @@ profiles {
psmn {
process{
withname: mapping_fastq {
- beforeScript = "module purge; module load RSEM/1.3.0; module load SAMtools/1.7"
+ beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
+ module = "RSEM/1.3.0:SAMtools/1.7"
+ executor = "psmn"
+ cpus = 16
+ memory = "30GB"
+ time = "24h"
+ queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
+ penv = 'openmp16'
}
}
}
--
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