From d51c969a17f129892b30410e7af020b9bbf68148 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Fri, 29 Mar 2019 14:06:26 +0100
Subject: [PATCH] update psmn module and hisat2 config
---
src/nf_modules/hisat2/mapping_paired.config | 2 +-
src/nf_modules/hisat2/mapping_single.config | 2 +-
src/psmn_modules | 2 +-
3 files changed, 3 insertions(+), 3 deletions(-)
diff --git a/src/nf_modules/hisat2/mapping_paired.config b/src/nf_modules/hisat2/mapping_paired.config
index 6f3aa47b..e23abd8a 100644
--- a/src/nf_modules/hisat2/mapping_paired.config
+++ b/src/nf_modules/hisat2/mapping_paired.config
@@ -22,7 +22,7 @@ profiles {
process{
withName: mapping_fastq {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
- module = "hisat2/2.0.0"
+ module = "hisat2/2.0.0:samtools/1.7"
executor = "sge"
clusterOptions = "-cwd -V"
memory = "20GB"
diff --git a/src/nf_modules/hisat2/mapping_single.config b/src/nf_modules/hisat2/mapping_single.config
index 6f3aa47b..e23abd8a 100644
--- a/src/nf_modules/hisat2/mapping_single.config
+++ b/src/nf_modules/hisat2/mapping_single.config
@@ -22,7 +22,7 @@ profiles {
process{
withName: mapping_fastq {
beforeScript = "source /usr/share/lmod/lmod/init/bash; module use ~/privatemodules"
- module = "hisat2/2.0.0"
+ module = "hisat2/2.0.0:samtools/1.7"
executor = "sge"
clusterOptions = "-cwd -V"
memory = "20GB"
diff --git a/src/psmn_modules b/src/psmn_modules
index 5d8170aa..9ae41bf7 160000
--- a/src/psmn_modules
+++ b/src/psmn_modules
@@ -1 +1 @@
-Subproject commit 5d8170aa039744a50c6cf967aabb3c2196efa7d9
+Subproject commit 9ae41bf72d4f536d73a76dfd13e375bca7d4f48e
--
GitLab