wrapper_ctseq

#!/bin/bash

## this script is a wrapper for running on platforms such as Seven Bridges so you can copy the output of the pipeline to the instance directory to be saved

# run ctseq, pass in parameters from commandline
ctseq "$@"

# move output files (except .fastqs) to instance directory
targetDir=$3
cd $targetDir
shopt -s extglob
mv !(*.fastq*) ~/