From e8805ca1826e03a26aa1aa425252a59d905075d2 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Tue, 23 Oct 2018 15:26:34 +0200
Subject: [PATCH] UrQt: update nf config file for the PSMN
---
src/nf_modules/UrQt/trimming_paired.config | 18 +++++++++---------
src/nf_modules/UrQt/trimming_single.config | 18 +++++++++---------
2 files changed, 18 insertions(+), 18 deletions(-)
diff --git a/src/nf_modules/UrQt/trimming_paired.config b/src/nf_modules/UrQt/trimming_paired.config
index 46a86729..c34e6d4e 100644
--- a/src/nf_modules/UrQt/trimming_paired.config
+++ b/src/nf_modules/UrQt/trimming_paired.config
@@ -3,24 +3,24 @@ profiles {
docker.temp = 'auto'
docker.enabled = true
process {
- $trimming {
+ withName: trimming {
container = "urqt:d62c1f8"
}
}
}
sge {
process{
- $trimming {
- beforeScript = "module purge; module load UrQt/d62c1f8"
+ withName: trimming {
+ beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
+ module = "UrQt/d62c1f8"
executor = "sge"
- cpus = 4
+ cpus = 16
memory = "5GB"
- time = "6h"
- queueSize = 1000
- pollInterval = '60sec'
- queue = 'h6-E5-2667v4deb128'
- penv = 'openmp8'
+ time = "12h"
+ queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
+ penv = 'openmp16'
}
}
}
}
+
diff --git a/src/nf_modules/UrQt/trimming_single.config b/src/nf_modules/UrQt/trimming_single.config
index 46a86729..c34e6d4e 100644
--- a/src/nf_modules/UrQt/trimming_single.config
+++ b/src/nf_modules/UrQt/trimming_single.config
@@ -3,24 +3,24 @@ profiles {
docker.temp = 'auto'
docker.enabled = true
process {
- $trimming {
+ withName: trimming {
container = "urqt:d62c1f8"
}
}
}
sge {
process{
- $trimming {
- beforeScript = "module purge; module load UrQt/d62c1f8"
+ withName: trimming {
+ beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
+ module = "UrQt/d62c1f8"
executor = "sge"
- cpus = 4
+ cpus = 16
memory = "5GB"
- time = "6h"
- queueSize = 1000
- pollInterval = '60sec'
- queue = 'h6-E5-2667v4deb128'
- penv = 'openmp8'
+ time = "12h"
+ queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
+ penv = 'openmp16'
}
}
}
}
+
--
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