From e491cdc770b060574c5f4c7272a920f83a38670b Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 28 May 2019 16:57:08 +0200
Subject: [PATCH] fastqdump: fix singularity image name
---
src/nf_modules/sratoolkit/fastqdump.config | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/src/nf_modules/sratoolkit/fastqdump.config b/src/nf_modules/sratoolkit/fastqdump.config
index 0d5acb9f..ee6ed1fa 100644
--- a/src/nf_modules/sratoolkit/fastqdump.config
+++ b/src/nf_modules/sratoolkit/fastqdump.config
@@ -13,7 +13,7 @@ profiles {
singularity.enabled = true
process {
withName: split_bam {
- container = "file://bin/sambamba:0.6.7.img"
+ container = "file://bin/sratoolkit:2.8.2.img"
cpus = 1
}
}
@@ -53,7 +53,7 @@ profiles {
singularity.runOptions = "--bind /pbs,/sps,/scratch"
process{
withName: fastq_dump {
- container = "/sps/lbmc/common/singularity/sambamba:0.6.7.img"
+ container = "/sps/lbmc/common/singularity/sratoolkit:2.8.2.img"
scratch = true
stageInMode = "copy"
stageOutMode = "rsync"
--
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