From e943bb118e33ffe68423e8aea2b2f886fc4c4b42 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Fri, 12 Apr 2019 15:53:57 +0200
Subject: [PATCH] kallisto: add info for in2p3 scratch
---
src/nf_modules/kallisto/indexing.config | 3 +++
1 file changed, 3 insertions(+)
diff --git a/src/nf_modules/kallisto/indexing.config b/src/nf_modules/kallisto/indexing.config
index 5a80bfb2..6a8fff03 100644
--- a/src/nf_modules/kallisto/indexing.config
+++ b/src/nf_modules/kallisto/indexing.config
@@ -37,6 +37,9 @@ profiles {
process{
withName: index_fasta {
beforeScript = "PATH=/sps/lbmc/common/nextflow/src/singularity_modules/kallisto/0.44.0/:$PATH"
+ scratch = true
+ stageInMode = "copy"
+ stageOutMode = "rsync"
executor = "sge"
clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n -S '/usr/local/bin/bash -l'"
cpus = 4
--
GitLab