Singularity runscript for the Quake Lab's Mr. Workflow

runscript.sh

#!/bin/bash
if [ $# -eq 0 ]; then
	echo 'Hello!  This is the Mr. Workflow runscript.'
	echo 'Please run this again, with either "NextSeq" or "MiSeq" as the next parameter.'
	echo 'That will run either the NextSeq workflow script, or the MiSeq workflow script.'
	echo 'For example (if the container is called "container.img"):'
	echo '    ./container.img nextseq scan path/to/runfolders'
	echo '    ./container.img miseq deliver path/to/a/runfolder'
	exit 0
fi
case "${1,,}" in
miseq)
	shift
	exec /workflow/bbox-workflow-miseq $*
	;;
nextseq)
	shift
	exec /workflow/bbox-workflow-nextseq $*
	;;
*)
	echo "I'm sorry; I didn't recognize what you want me to do."
	echo "Please make 'nextseq' or 'miseq' the first argument, before anything else (like 'run' or 'scan')."
	echo 'Thanks!'
	exit 1
;;
esac
# Nothing should ever reach here!