From 332ba0dadb93b0813ac36c9b937c4d8b24fc0b48 Mon Sep 17 00:00:00 2001
From: MaxUlysse <max.u.garcia@gmail.com>
Date: Wed, 7 Aug 2019 11:10:48 +0200
Subject: [PATCH] fix: update and rearrange munin configuration file and docs

---
 conf/munin.config | 20 +++++++++++---------
 docs/munin.md     |  6 ++++--
 2 files changed, 15 insertions(+), 11 deletions(-)

diff --git a/conf/munin.config b/conf/munin.config
index bca56f7..58e10f7 100644
--- a/conf/munin.config
+++ b/conf/munin.config
@@ -1,20 +1,22 @@
 //Profile config names for nf-core/configs
 params {
-  config_profile_description = 'Big iron cluster profile provided by nf-core/configs.'
+  config_profile_description = 'Munin profile provided by nf-core/configs.'
   config_profile_contact = 'Szilveszter Juhos (@szilva)'
   config_profile_url = ''
 }
 
 process {
   executor = 'local'
+  maxForks = 48
 }
 
+// To use docker, use nextflow run -profile munin,singularity
 singularity {
   enabled = true
   autoMounts = true
 }
 
-// To use docker instead of singularity, use nextflow run -profile munin,docker
+// To use docker, use nextflow run -profile munin,docker
 docker {
   enabled = false
   mountFlags = 'z'
@@ -22,11 +24,11 @@ docker {
 }
 
 params {
-  saveReference = true
-
-  max_memory = 128.GB
-  max_cpus = 16
+  // general params
+  max_memory = 754.GB
+  max_cpus = 48
   max_time = 72.h
-  // illumina iGenomes reference file paths on UPPMAX
-  igenomes_base = '/data1/references/igenomes/'
-}
+
+  // AWS iGenomes reference file paths on munin
+  igenome_base = '/data1/references/igenomes/'
+}
\ No newline at end of file
diff --git a/docs/munin.md b/docs/munin.md
index 17233bb..7f164ce 100644
--- a/docs/munin.md
+++ b/docs/munin.md
@@ -1,8 +1,10 @@
 # nf-core/configs: MUNIN Configuration
 
-All nf-core pipelines have been successfully configured for use on the MUNIN cluster aka big iron.
+All nf-core pipelines have been successfully configured for use on the MUNIN cluster.
 
-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, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline.
+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, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline.
 
 Example: `nextflow run -profile munin`