2021-08-31 11:58:39 +00:00
|
|
|
//Profile config names for nf-core/configs
|
|
|
|
|
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/'
|
2021-09-10 13:10:19 +00:00
|
|
|
project = null
|
2021-09-13 12:26:10 +00:00
|
|
|
schema_ignore_params = "project,genomes,cache_dir,modules"
|
2021-09-13 06:36:30 +00:00
|
|
|
|
2021-09-13 11:28:33 +00:00
|
|
|
//Thin nodes with 192GB and Fat nodes with ~1500GB. Torque should be allowed to handle this
|
|
|
|
|
max_memory = 1500.GB
|
2021-09-13 06:36:30 +00:00
|
|
|
max_cpus = 40
|
2021-09-13 11:28:33 +00:00
|
|
|
|
|
|
|
|
//There is no max walltime on the cluster, but a week seems sensible if not directly specified
|
|
|
|
|
max_time = 168.h
|
2021-08-31 11:58:39 +00:00
|
|
|
}
|
2021-09-13 12:26:10 +00:00
|
|
|
params.cache_dir = { "/home/projects/$params.project/scratch" }
|
2021-08-31 11:58:39 +00:00
|
|
|
|
|
|
|
|
singularity {
|
|
|
|
|
enabled = true
|
|
|
|
|
autoMounts = true
|
2021-09-13 12:22:22 +00:00
|
|
|
cacheDir = params.cache_dir
|
2021-08-31 11:58:39 +00:00
|
|
|
}
|
|
|
|
|
|
|
|
|
|
process {
|
2021-09-13 12:22:22 +00:00
|
|
|
beforeScript = { "module load tools singularity/3.8.0; export _JAVA_OPTIONS=-Djava.io.tmpdir=$params.cache_dir; export NXF_SINGULARITY_CACHEDIR=$params.cache_dir" }
|
2021-08-31 11:58:39 +00:00
|
|
|
executor = 'pbs'
|
2021-09-13 11:20:57 +00:00
|
|
|
queueSize = 2000
|
2021-09-10 13:10:19 +00:00
|
|
|
clusterOptions = { "-A $params.project -W group_list=$params.project" }
|
2021-09-13 11:28:33 +00:00
|
|
|
}
|
