nf-core/configs: CCGA CAU Cluster Configuration
Deployment and testing of nf-core pipelines at the CCGA cau cluster is on-going.
To use, run the pipeline with -profile ccga_cau. This will download and launch the ccga_cau.config which has been pre-configured with a setup suitable for the caucluster. 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.
Before running the pipeline you will need to load Nextflow and Singularity using the environment module system on the cluster. You can do this by issuing the commands below:
## Load Nextflow and Singularity environment modules
module load gcc12-env
module load nextflow
module load singularityNB: Access to the caucau cluster is restricted. Please talk to Georg Hemmrich-Stanisak to get access (@ghemmrich).
Config file
//Profile config names for nf-core/configs
params {
config_profile_description = 'CCGA CAU cluster profile provided by nf-core/configs.'
config_profile_contact = 'OlgaBrovkina (@brovolia)'
config_profile_url = 'https://www.ccga.uni-kiel.de/'
}
/*
* -------------------------------------------------
* Nextflow config file for CAU cluster in Kiel
* -------------------------------------------------
*/
singularity {
enabled = true
autoMounts = true
cacheDir = "/work_ikmb/ikmb_repository/singularity_cache/"
}
executor {
queueSize = 100
}
process {
resourceLimits = [
memory: 250.GB,
cpus: 24,
time: 120.h
]
// Global process config
executor = 'slurm'
queue = 'base'
}
params {
// illumina iGenomes reference file paths on RZCluster
igenomes_base = '/work_ikmb/ikmb_repository/references/iGenomes/references/'
saveReference = true
max_memory = 250.GB
max_cpus = 24
max_time = 120.h
}
executor
slurm
contact
Last modified
2025-05-28