nf-core/configs: unc_lccc
The Lineberger Comprehensive Cancer Center at the University of North Carolina at Chapel Hill
PROFILE Configuration
nf-core pipelines have been successfully configured for use on the Lineberger Bioinformatics Group cluster at the University of North Carolina at Chapel Hill Lineberger Comprehensive Cancer Center.
To use, run the pipeline with -profile unc_lccc in the nextflow run [...] command. This will download and launch the unc_lccc.config which has been pre-configured with a setup suitable for the LBG cluster. Using this profile, Docker images containing all of the required software will be downloaded, and converted to a Apptainer/Singularity image during execution of the pipeline.
Below are non-mandatory information
Before running pipelines you should login to a compute node and install nextflow into your home directory. Directions at the following link: https://www.nextflow.io/. There is a copy of the nextflow executable in our default setup, but it tends to lag behind the released versions, so may or may not work with a given workflow.
NB: You will need an account to use the in order to run the pipelines and the
nextflowcommands will need to run on compute nodes, not a login node. If in doubt contact informaticshelp@unc.edu.
Config file
params {
config_profile_description = 'The Lineberger Comprehensive Cancer Center at the University of North Carolina at Chapel Hill'
config_profile_contact = 'Alan Hoyle (@alanhoyle)'
config_profile_url = 'https://lbc.unc.edu'
}
process {
resourceLimits = [
memory: 950.GB,
cpus: 90
]
executor = "slurm"
queue = "allnodes"
}
singularity {
enabled = true
autoMounts = true
runOptions = '-B /datastore'
libraryDir = '/datastore/lbcfs/labs/bioinformatics/software/singularity-library'
}
params {
max_memory = 950.GB
max_cpus = 90
}
executor
contact
