View source for Bowtie/Batch

You can submit a bowtie job in batch mode with the following command:

 sbatch [Slurm options] --wrap="bowtie [bowtie options]"

Here you need to replace ''[bowtie options]'' with bowtie command line options (please run <tt>bowtie -h</tt> for getting a list of all command line options) and ''[Slurm options]'' with Slurm parameters for the resource requirements of the job. Please find a documentation about the parameters of <tt>Slurm</tt>  on the wiki page about the [[Using_the_batch_system|batch system]].