From 84f94d92c4c2d39a7ddf2095cf48dc3c30e4a8dd Mon Sep 17 00:00:00 2001
From: Marc Trunjer Kusk Nielsen <marc.mtk@gmail.com>
Date: Fri, 10 Sep 2021 15:10:19 +0200
Subject: [PATCH] Update computerome.config

Added a way to use `--project` to provide project information to the scheduler. Inspired by the uppmax config
---
 conf/computerome.config | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

diff --git a/conf/computerome.config b/conf/computerome.config
index c789b48..97ee866 100644
--- a/conf/computerome.config
+++ b/conf/computerome.config
@@ -3,17 +3,19 @@ params {
   config_profile_description = 'Computerome 2.0 cluster profile provided by nf-core/configs.'
   config_profile_contact = 'Marc Trunjer Kusk Nielsen (@marcmtk)'
   config_profile_url = 'https://www.computerome.dk/'
+  project = null
 }
 
 singularity {
   enabled = true
   autoMounts = true
-  cacheDir = './scratch'
+  cacheDir = { "/home/projects/$params.project/scratch" }
 }
 
 process {
-  beforeScript = 'module load tools singularity/3.8.0'
+  beforeScript = { "module load tools singularity/3.8.0; export _JAVA_OPTIONS=-Djava.io.tmpdir=/home/projects/$params.project/scratch" }
   executor = 'pbs'
+  clusterOptions = { "-A $params.project -W group_list=$params.project" }
 }
 
 params {