From 90c86fc349d7c31c3709a50eb87be7a9a505a26a Mon Sep 17 00:00:00 2001
From: xgrand <xavier.grand@ens-lyon.fr>
Date: Tue, 21 Nov 2023 13:26:28 +0100
Subject: [PATCH] bind /scratch to pollux profile in nextflow.config
---
src/nextflow.config | 39 +--------------------------------------
1 file changed, 1 insertion(+), 38 deletions(-)
diff --git a/src/nextflow.config b/src/nextflow.config
index 0211a1b..b96e811 100755
--- a/src/nextflow.config
+++ b/src/nextflow.config
@@ -72,43 +72,6 @@ profiles {
}
}
}
-
- pollux {
- singularity.enabled = true
- singularity.cacheDir = "./bin/"
- singularity.runOptions = "--bind /data,/home,/scratch"
- process {
- errorStrategy = 'finish'
- memory = '256GB'
- withLabel: big_mem_mono_cpus {
- cpus = 1
- }
- withLabel: big_mem_multi_cpus {
- cpus = 16
- }
- withLabel: small_mem_mono_cpus {
- cpus = 1
- memory = '2GB'
- }
- withLabel: small_mem_multi_cpus {
- cpus = 8
- memory = '2GB'
- }
- withLabel: mid_mem_mono_cpus {
- cpus = 1
- memory = '8GB'
- }
- withLabel: mid_mem_multi_cpus {
- cpus = 8
- memory = '8GB'
- }
- withLabel: gpus {
- maxForks = 1
- containerOptions = '--nv'
- }
- }
- }
-
singularity {
singularity.enabled = true
singularity.cacheDir = "./bin/"
@@ -143,7 +106,7 @@ profiles {
pollux {
singularity.enabled = true
singularity.cacheDir = "./bin/"
- singularity.runOptions = "--bind /data,/home"
+ singularity.runOptions = "--bind /data,/home,/scratch"
process {
errorStrategy = 'finish'
memory = '32GB'
--
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