Maestro (at Pateur Institute, Paris) Configuration
To use, run the pipeline with -profile maestro,<qos> (with qos being long or normal). This will download and launch the maestro.config which has been pre-configured with a setup suitable for the Maestro cluster on either the long or normal qos.
Using one of these profiles, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline
needed Modules
Please first load java, nextflow and singularity modules
module load java
module load nextflow
module load singularity
Also, do not forget to run nextflow using tmux or alike.
Other profiles at Pasteur
If you are using TARS cluster, please refer to the pasteur profile.
Please refer to docs/pasteur.md for installing and running nf-core instructions.
Config file
params {
config_profile_description = 'Institut Pasteur Maestro cluster profile'
config_profile_url = 'https://research.pasteur.fr/en/equipment/maestro-compute-cluster/'
config_profile_contact = 'Pierre Luisi (@pierrespc)'
}
singularity {
enabled = true
autoMounts = true
runOptions = '--home $HOME:/home/$USER --bind /pasteur'
}
profiles {
normal {
process {
resourceLimits = [
memory: 500.GB,
cpus: 96,
time: 24.h
]
executor = 'slurm'
scratch = false
queue = 'common'
queueSize = 20
clusterOptions = '--qos=normal'
}
params {
igenomes_ignore = true
igenomesIgnore = true
max_memory = 500.GB
max_cpus = 96
max_time = 24.h
}
}
long {
process {
resourceLimits = [
memory: 500.GB,
cpus: 5,
time: 8760.h
]
executor = 'slurm'
scratch = false
queue = 'long'
clusterOptions = '--qos=long -p long'
}
params {
igenomes_ignore = true
igenomesIgnore = true
max_memory = 500.GB
max_cpus = 5
max_time = 8760.h
}
}
}
executor
slurm
contact
