From 3af2c6409f66f387c2b5aa7f039f435e0c74404c Mon Sep 17 00:00:00 2001
From: ameynert <alison.meynert@igmm.ed.ac.uk>
Date: Wed, 3 Mar 2021 09:59:16 +0000
Subject: [PATCH] Initial commit of eddie.config

---
 conf/eddie.config | 30 ++++++++++++++++++++++++++++++
 1 file changed, 30 insertions(+)
 create mode 100644 conf/eddie.config

diff --git a/conf/eddie.config b/conf/eddie.config
new file mode 100644
index 0000000..11ae1d9
--- /dev/null
+++ b/conf/eddie.config
@@ -0,0 +1,30 @@
+//Profile config names for nf-core/configs
+params {
+  config_profile_description = 'University of Edinburgh (eddie) cluster profile provided by nf-core/configs.'
+  config_profile_contact = 'Alison Meynert (@ameynert)'
+  config_profile_url = 'https://www.ed.ac.uk/information-services/research-support/research-computing/ecdf/high-performance-computing'
+}
+
+conda.createTimeout = '2h'
+
+process {
+  executor = 'sge'
+
+  # memory environment & options
+  clusterOptions = {"-l h_vmem=${task.memory.bytes/task.cpus}"}
+  penv = 'sharedmem'
+
+  # common SGE error statuses
+  errorStrategy = {task.exitStatus in [143,137,104,134,139] ? 'retry' : 'finish'}
+  maxErrors = '-1'
+  maxRetries = 3
+
+  # load module script for Anaconda
+  beforeScript = { '. /etc/profile.d/modules.sh; sleep 2; ' }
+  module = 'anaconda/5.3.1'
+}
+params {
+  saveReference = true
+  // illumina iGenomes reference file paths on GIS Aquila
+  igenomes_base = '/exports/igmm/eddie/NextGenResources/igenomes/'
+}