From edde1ee64dffd02a922a78c1fba54f0a74fb4281 Mon Sep 17 00:00:00 2001
From: MaxUlysse <max.u.garcia@gmail.com>
Date: Wed, 20 Nov 2019 16:03:27 +0100
Subject: [PATCH] fix container/module collision

---
 conf/pipeline/sarek/munin.config | 12 +++++++-----
 1 file changed, 7 insertions(+), 5 deletions(-)

diff --git a/conf/pipeline/sarek/munin.config b/conf/pipeline/sarek/munin.config
index eccd147..b7b92f2 100644
--- a/conf/pipeline/sarek/munin.config
+++ b/conf/pipeline/sarek/munin.config
@@ -18,8 +18,10 @@ params {
   vep_cache = '/data1/cache/VEP/'
 }
 
-// Specific nf-core/sarek configuration
-withLabel:sentieon {
-  module = {params.sentieon ? 'sentieon/201808.05' : ''}
-  if (params.sentieon) container = ''
-}
+// Specific nf-core/sarek process configuration
+process {
+  withLabel:sentieon {
+    beforeScript = {params.sentieon ? 'module load sentieon/201808.05' : ''}
+    container = {params.sentieon ? '' : 'nfcore/sarek:dev'}
+  }
+}
\ No newline at end of file