Attention

GPU users: GPU nodes run EL9, while this documentation still reflects the EL7 software stack.

Run module avail on an EL9 login node, or within an interactive session on the relevant GPU type, to see the software available.

The documentation will be updated once all nodes have migrated to EL9.

snakemake

The Snakemake workflow management system is a tool to create reproducible and scalable data analyses.

Note

This is an autogenerated page, more detail including examples may be available for this package. Please see the first section of Software on Stanage

After connecting to Stanage (see Establishing a SSH connection), start an interactive session with the following command:

srun --pty bash -i

A version of snakemake can then be made available with one of the following:

module load snakemake/6.1.0-foss-2020b

Notes

snakemake was installed using Easybuild, build details can be found in $EBROOTSNAKEMAKE/easybuild with a given module loaded.

Direct dependencies for latest version of snakemake