From 7acd9cf7df3a88347ddf6765cfcafe8712085c59 Mon Sep 17 00:00:00 2001
From: Martin Proks <mproksik@gmail.com>
Date: Fri, 11 Jan 2019 15:28:10 +0100
Subject: [PATCH] Updating suggested changes

---
 conf/munin.config | 9 ++++++++-
 docs/munin.md     | 8 ++++++++
 2 files changed, 16 insertions(+), 1 deletion(-)

diff --git a/conf/munin.config b/conf/munin.config
index e31aa71..a24929e 100644
--- a/conf/munin.config
+++ b/conf/munin.config
@@ -10,11 +10,18 @@ process {
   executor = 'local'
 }
 
-sngularity {
+singularity {
   enabled = true
   autoMounts = true
 }
 
+// To use docker instead of singularity, use nextflow run -profile munin,docker
+docker {
+  enabled = false
+  mountFlags = 'z'
+  fixOwnership = true
+}
+
 params {
   saveReference = true
 
diff --git a/docs/munin.md b/docs/munin.md
index b03687d..bc617f7 100644
--- a/docs/munin.md
+++ b/docs/munin.md
@@ -4,6 +4,14 @@ All nf-core pipelines have been successfully configured for use on the MUNIN clu
 
 To use, run the pipeline with `-profile munin`. This will download and launch the [`munin.config`](../conf/munin.config) which has been pre-configured with a setup suitable for the MUNIN cluster. Using this profile, Nextflow will download singularity image with all of the required software before execution of the pipeline.
 
+Example: `nextflow run -profile munin`
+
+## Docker
+
+It is also possible to execute pipeline using Docker.
+
+Example: `nextflow run -profile munin,docker`
+
 ## Below are non-mandatory information on iGenomes specific configuration
 
 A local copy of the iGenomes resource has been made available on MUNIN cluster so you should be able to run the pipeline against any reference available in the `igenomes.config` specific to the nf-core pipeline.