Created: 2022/12/12 12:51:47 Last modified: 2022/12/16 13:23:27
- Aim: This document outlines the process for running the "pipeline" module scripts on ESR's production network
- OS: ORAC (CentOS Linux) (ESR production network)
Navigate to your working directory
cd /NGS/humangenomics/active/2022/run/ont_human_workflow/Run each module script sequentially, run only one script at a time since some scripts depend on the outputs of earlier scripts
sbatch ./scripts/module_scripts/01-ont-guppy-gpu.sh
sbatch ./scripts/module_scripts/02-ont-bam-merge.sh
sbatch ./scripts/module_scripts/03-ont-wf-human-variation-calling.sh
sbatch ./scripts/module_scripts/04-ont-whatshap-phase.sh
sbatch ./scripts/module_scripts/05-ont-methyl-calling.sh
sbatch ./scripts/module_scripts/06-ont-sv-cutesv.sh
sbatch ./scripts/module_scripts/07-ont-wf-human-cnv.sh