mirror of
https://github.com/MillironX/nf-configs.git
synced 2024-11-14 05:33:09 +00:00
42 lines
1.4 KiB
Text
42 lines
1.4 KiB
Text
//Profile config names for nf-core/configs
|
|
params {
|
|
config_profile_description = 'National Institutes of Health, USA: Biowulf nf-core config'
|
|
config_profile_contact = 'Kevin Brick (@kevbrick)'
|
|
config_profile_url = 'https://hpc.nih.gov/apps/nextflow.html'
|
|
max_memory = 224.GB
|
|
max_cpus = 32
|
|
max_time = 72.h
|
|
|
|
igenomes_base = '/fdb/igenomes/'
|
|
}
|
|
|
|
process {
|
|
scratch = '/lscratch/$SLURM_JOBID'
|
|
maxForks = 100
|
|
}
|
|
|
|
profiles {
|
|
local {
|
|
process.executor = 'local'
|
|
}
|
|
|
|
slurm {
|
|
process.executor = 'slurm'
|
|
executor.$slurm.pollInterval = '1 min'
|
|
executor.$slurm.queueStatInterval = '5 min'
|
|
executor.queueSize = 100
|
|
executor.$slurm.submitRateLimit = '6/1min'
|
|
process.clusterOptions = ' --gres=lscratch:600 --signal USR2@20'
|
|
}
|
|
}
|
|
|
|
singularity {
|
|
enabled = true
|
|
autoMounts = true
|
|
envWhitelist='https_proxy,http_proxy,ftp_proxy,DISPLAY,SLURM_JOBID'
|
|
|
|
//As names change, the bind paths required may change too. To chack that everything is being captured:
|
|
//Run '. /usr/local/current/singularity/app_conf/sing_binds' to populate $SINGULARITY_BINDPATH
|
|
//Check that each folder in $SINGULARITY_BINDPATH is listed with -B in the runOptions below. If not, add it.
|
|
runOptions = ' -B /gs10 -B /gs11 -B /gs12 -B /gs4 -B /gs6 -B /gs7 -B /gs8 -B /gs9 -B /vf -B /spin1 -B /data -B /fdb -B /lscratch -B /fdb/igenomes/ --env TMPDIR="/lscratch/$SLURM_JOBID" '
|
|
}
|