From cb507177d5ceca20722bea2acda201c040d9300b Mon Sep 17 00:00:00 2001
From: marchoeppner <mphoeppner@gmail.com>
Date: Fri, 5 Jul 2019 08:03:37 +0200
Subject: [PATCH 1/3] Updating CCGA config file

---
 conf/ccga.config | 12 ++++++++++--
 1 file changed, 10 insertions(+), 2 deletions(-)

diff --git a/conf/ccga.config b/conf/ccga.config
index f29db9c..b9130e0 100644
--- a/conf/ccga.config
+++ b/conf/ccga.config
@@ -2,15 +2,20 @@
 params {
   config_profile_description = 'CCGA cluster profile provided by nf-core/configs.'
   config_profile_contact = 'Marc Hoeppner (@marchoeppner)'
-  config_profile_url = 'https://www.ikmb.uni-kiel.de/'
+  config_profile_url = 'https://www.ccga.uni-kiel.de/'
 }
 
 /*
  * -------------------------------------------------
- *  Nextflow config file with environment modules for RZCluster in Kiel
+ *  Nextflow config file for CCGA cluster in Kiel
  * -------------------------------------------------
  */
 
+singularity {
+  enabled = true
+  runOptions = "-B /ifs -B /scratch -B /work_beegfs"
+}
+
 executor {
   queueSize=100
 }
@@ -29,4 +34,7 @@ params {
   // illumina iGenomes reference file paths on RZCluster
   igenomes_base = '/ifs/data/nfs_share/ikmb_repository/references/iGenomes/references/'
   saveReference = true
+  max_memory = 128.GB
+  max_cpus = 16
+  max_time = 120.h
 }

From d66bf4e4786799301846b34dfd9602d17c4ce3ce Mon Sep 17 00:00:00 2001
From: marchoeppner <mphoeppner@gmail.com>
Date: Fri, 5 Jul 2019 08:28:18 +0200
Subject: [PATCH 2/3] Updating CCGA documentation

---
 docs/ccga.md | 18 ++++++++++++++++++
 1 file changed, 18 insertions(+)
 create mode 100644 docs/ccga.md

diff --git a/docs/ccga.md b/docs/ccga.md
new file mode 100644
index 0000000..4a38bd9
--- /dev/null
+++ b/docs/ccga.md
@@ -0,0 +1,18 @@
+# nf-core/configs: CCGA Configuration
+
+Deployment and testing of nf-core pipelines at the CCGA cluster is on-going. 
+
+To use, run the pipeline with `-profile ccga`. This will download and launch the [`ccga.config`](../conf/ccga.config) which has been pre-configured with a setup suitable for the BINAC 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.
+
+Before running the pipeline you will need to load Nextflow and Singularity using the environment module system on the cluster. You can do this by issuing the commands below:
+
+```bash
+## Load Nextflow and Singularity environment modules
+module purge
+module load IKMB 
+module load Java/1.8.0 
+module load Nextflow 
+module load singularity3.1.0
+```
+
+>NB: Access to the CCGA cluster is restricted to IKMB/CCGA employes. Please talk to Marc Hoeppner to get access (@marchoeppner).

From fe0153befd41e7cd054a398d64dac7da89f1f45d Mon Sep 17 00:00:00 2001
From: marchoeppner <mphoeppner@gmail.com>
Date: Fri, 5 Jul 2019 08:30:02 +0200
Subject: [PATCH 3/3] Updating CCGA documentation

---
 docs/ccga.md | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/docs/ccga.md b/docs/ccga.md
index 4a38bd9..1157cb3 100644
--- a/docs/ccga.md
+++ b/docs/ccga.md
@@ -2,7 +2,7 @@
 
 Deployment and testing of nf-core pipelines at the CCGA cluster is on-going. 
 
-To use, run the pipeline with `-profile ccga`. This will download and launch the [`ccga.config`](../conf/ccga.config) which has been pre-configured with a setup suitable for the BINAC 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 ccga`. This will download and launch the [`ccga.config`](../conf/ccga.config) which has been pre-configured with a setup suitable for the CCGA 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.
 
 Before running the pipeline you will need to load Nextflow and Singularity using the environment module system on the cluster. You can do this by issuing the commands below: