From 75b6cf0e05c68f13866acf31ffa0c9d69f228d89 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent@modolo.fr>
Date: Tue, 31 Mar 2020 11:35:34 +0200
Subject: [PATCH] solution_RNASeq.config: update config file for psmn
---
src/solution_RNASeq.config | 27 ++++++++++++++-------------
1 file changed, 14 insertions(+), 13 deletions(-)
diff --git a/src/solution_RNASeq.config b/src/solution_RNASeq.config
index 69f61457..3e8ba47b 100644
--- a/src/solution_RNASeq.config
+++ b/src/solution_RNASeq.config
@@ -61,18 +61,19 @@ profiles {
cpus = 1
memory = "20GB"
time = "12h"
- queue = 'monointeldeb128,monointeldeb48,h48-E5-2670deb128,h6-E5-2667v4deb128'
+ queue = 'monointeldeb128'
}
withName: trimming {
beforeScript = "source $baseDir/.conda_psmn.sh"
conda = "$baseDir/.conda_envs/urqt_d62c1f8"
executor = "sge"
clusterOptions = "-cwd -V"
- memory = "5GB"
- cpus = 16
- time = "12h"
- queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
- penv = 'openmp16'
+ cpus = 32
+ memory = "30GB"
+ time = "24h"
+ queue = 'CLG6242deb384A,CLG6242deb384C,CLG5218deb192A,CLG5218deb192B,CLG5218deb192C,CLG5218deb192D,SLG5118deb96,SLG6142deb384A,SLG6142deb384B,SLG6142deb384C,SLG6142deb384D'
+ penv = 'openmp32'
+
}
withName: fasta_from_bed {
beforeScript = "source $baseDir/.conda_psmn.sh"
@@ -82,29 +83,29 @@ profiles {
cpus = 1
memory = "20GB"
time = "12h"
- queue = 'monointeldeb128,monointeldeb48,h48-E5-2670deb128,h6-E5-2667v4deb128'
+ queue = 'monointeldeb128'
}
withName: index_fasta {
beforeScript = "source $baseDir/.conda_psmn.sh"
conda = "$baseDir/.conda_envs/kallisto_0.44.0"
executor = "sge"
clusterOptions = "-cwd -V"
- cpus = 16
+ cpus = 32
memory = "30GB"
time = "24h"
- queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
- penv = 'openmp16'
+ queue = 'CLG6242deb384A,CLG6242deb384C,CLG5218deb192A,CLG5218deb192B,CLG5218deb192C,CLG5218deb192D,SLG5118deb96,SLG6142deb384A,SLG6142deb384B,SLG6142deb384C,SLG6142deb384D'
+ penv = 'openmp32'
}
withName: mapping_fastq {
beforeScript = "source $baseDir/.conda_psmn.sh"
conda = "$baseDir/.conda_envs/kallisto_0.44.0"
executor = "sge"
clusterOptions = "-cwd -V"
- cpus = 16
+ cpus = 32
memory = "30GB"
time = "24h"
- queue = 'E5-2670deb128A,E5-2670deb128B,E5-2670deb128C,E5-2670deb128D,E5-2670deb128E,E5-2670deb128F'
- penv = 'openmp16'
+ queue = 'CLG6242deb384A,CLG6242deb384C,CLG5218deb192A,CLG5218deb192B,CLG5218deb192C,CLG5218deb192D,SLG5118deb96,SLG6142deb384A,SLG6142deb384B,SLG6142deb384C,SLG6142deb384D'
+ penv = 'openmp32'
}
}
}
--
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