Snakemake

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

• Version: 6.15 (real version 6.15.5)
• Added: October, 2019
• Updated: February, 2022
• Link: https://snakemake.readthedocs.io/en/stable/

See versions of snakemake which are available:

$ module avail snakemake

Load one version into your environment and run it:

$ module load snakemake/6.15
$ snakemake

Notes from the sysadmin during installation:

$ sudo mkdir -p /export/apps/snakemake/6.15
$ sudo chown aorth:aorth /export/apps/snakemake/6.15
$ python3.6 -m venv /export/apps/snakemake/6.15/.venv
$ source /export/apps/snakemake/6.15/.venv/bin/activate
$ pip install --upgrade pip setuptools
$ pip install 'snakemake==6.15.*'
$ sudo chown -R root:root /export/apps/snakemake/6.15