From b0f45d9268f9ac32de477b6e749d5a7238a90878 Mon Sep 17 00:00:00 2001
From: Emmanuel Labaronne <emmanuel.labaronne@ens-lyon.fr>
Date: Wed, 19 Feb 2020 16:44:25 +0100
Subject: [PATCH] RNAseq.config : switch to conda load module for hisat2
---
src/RNAseq.config | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/src/RNAseq.config b/src/RNAseq.config
index 33976912..db5a6c95 100644
--- a/src/RNAseq.config
+++ b/src/RNAseq.config
@@ -23,8 +23,8 @@ profiles {
penv = 'openmp16'
}
withName: hisat2_human {
- beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
- module = "hisat2/2.1.0:samtools/1.7"
+ beforeScript = "source $baseDir/.conda_psmn.sh"
+ module = "$baseDir/.conda_envs/hisat2_2.1.0"
executor = "sge"
clusterOptions = "-cwd -V"
memory = "20GB"
--
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