installation.md

merge_fastq: Installation

The merge_fastq pipeline is already installed in legion. You just need to load nextflow and start using it:

module load blic-modules
module load nextflow

nextflow_mergefastq --inputdir DIR --outputdir DIR

By default, the pipeline runs with the legion configuration profile conf/legion.config if you submit it from legion, and with the myriad config conf/myriad.config if you send the job from myriad.

The 'standard' configuration (using the local executor) is not enabled.