Initial commit of eddie.config

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/'
+}