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Scripts to generate many sbatch for job submitting on Slurm cluster
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LICENSE
README.md
reads-to-VCF.py
sbatch.py

README.md

Generate sbatch files

Scripts to generate sbatch files and pipelines for a Slurm cluster.

The content of script.sbatch looks like this:

#!/bin/bash
#SBATCH -A project-name
#SBATCH -p core
#SBATCH -n 1
#SBATCH -t 1-00:00:00
#SBATCH -J job-name
#SBATCH -o output.out
#SBATCH -e errors.err

command-to-execute

sbatch.py is a custom module that contains all necessary functions. It is loaded as import sbatch .

reads-to-VCF.py - the genomic variant calling pipeline. It is described in this blog-post

DISCLAIMER: USE THESE SCRIPTS AT YOUR OWN RISK. I MAKE NO WARRANTIES THAT THESE SCRIPTS ARE BUG-FREE, COMPLETE, AND UP-TO-DATE. I AM NOT LIABLE FOR ANY LOSSES IN CONNECTION WITH THE USE OF THESE SCRIPTS.

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