Nextflow is installed on the cluster, it can be used by sourcing the correct environnement:

. /local/env/

nf-core is also preinstalled, allowing you to use standard workflows from using the nf-core client.

Nextflow is preconfigured to use Singularity (when workflows are designed to use containers) and to distribute jobs on the Slurm cluster.

A GenOuest profile is available to make sure that the scratch, db, and groups folders are mounted in your singularity containers. You can select it by using the -profile genouest option.


SnakeMake is pre-installed on the cluster, you can source it like so:

. /local/env/