From 47556f8765b1b922e6a7953ddaf04aeba1425597 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 13 Apr 2021 16:21:32 +0200
Subject: [PATCH] nextflow.config: add small_mem label
---
src/nextflow.config | 55 +++++++++++++++++++++++++++++++++++++++++++++
1 file changed, 55 insertions(+)
diff --git a/src/nextflow.config b/src/nextflow.config
index a30fd44f..16944c7b 100644
--- a/src/nextflow.config
+++ b/src/nextflow.config
@@ -25,6 +25,14 @@ profiles {
withLabel: big_mem_multi_cpus {
cpus = 4
}
+ withLabel: small_mem_mono_cpus {
+ cpus = 1
+ memory = '2GB'
+ }
+ withLabel: small_mem_multi_cpus {
+ cpus = 4
+ memory = '2GB'
+ }
}
}
singularity {
@@ -39,6 +47,14 @@ profiles {
withLabel: big_mem_multi_cpus {
cpus = 4
}
+ withLabel: small_mem_mono_cpus {
+ cpus = 1
+ memory = '2GB'
+ }
+ withLabel: small_mem_multi_cpus {
+ cpus = 4
+ memory = '2GB'
+ }
}
}
psmn {
@@ -66,6 +82,24 @@ profiles {
penv = "openmp32"
}
+ withLabel: small_mem_mono_cpus {
+ executor = "sge"
+ clusterOptions = "-cwd -V"
+ cpus = 1
+ memory = "16GB"
+ time = "12h"
+ queue = "monointeldeb128,monointeldeb192"
+ }
+ withLabel: small_mem_multi_cpus {
+ executor = "sge"
+ clusterOptions = "-cwd -V"
+ cpus = 32
+ memory = "16GB"
+ time = "24h"
+ queue = "CLG*,SLG*,Epyc*"
+ penv = "openmp32"
+
+ }
}
}
ccin2p3 {
@@ -96,6 +130,27 @@ profiles {
memory = "8GB"
queue = "huge"
}
+ withLabel: small_mem_mono_cpus {
+ scratch = true
+ stageInMode = "copy"
+ stageOutMode = "rsync"
+ executor = "sge"
+ clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n"
+ cpus = 1
+ memory = "8GB"
+ queue = "huge"
+ }
+ withLabel: small_mem_multi_cpus {
+ container = "lbmc/urqt:d62c1f8"
+ scratch = true
+ stageInMode = "copy"
+ stageOutMode = "rsync"
+ executor = "sge"
+ clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n"
+ cpus = 1
+ memory = "8GB"
+ queue = "huge"
+ }
}
}
}
--
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