UZH Configuration
All nf-core pipelines have been successfully configured for use on the UZH cluster at the University of Zürich.
To use, run the pipeline with -profile uzh. This will download and launch the uzh.config which has been pre-configured with a setup suitable for the UZH cluster. Using this profile, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline.
NB: You will need an account to use the HPC cluster UZH in order to run the pipeline. If in doubt contact IT. NB: Nextflow will need to submit the jobs via the job scheduler to the HPC cluster and as such the commands above will have to be executed on one of the login nodes. If in doubt contact IT.
Config file
//Profile config names for nf-core/configs
params {
config_profile_description = 'UZH science cloud profile provided by nf-core/configs'
config_profile_contact = 'Judith Neukamm/Alexander Peltzer (@JudithNeukamm, @apeltzer)'
config_profile_url = 'https://www.id.uzh.ch/en/scienceit/infrastructure/sciencecloud.html'
}
singularity {
enabled = true
}
process {
resourceLimits = [
memory: 1800.GB,
cpus: 112,
time: 168.h
]
executor = 'slurm'
}
params {
max_memory = 1800.GB
max_cpus = 112
max_time = 168.h
}
executor
slurm
contact
