merge changes

#check for file type (extension) for files

##allows incomplete file names and processing compressed files

#test

#read12=( $read1, $read2 )

#for i in ${read12[@]}; do

#    echo "KAI! $i"

#done

for i in ${!read1[@]}; do

    read=${read1[$i]}

    if [[ $verbose == "true" ]]; then

fi

if [[ ${#read1[@]} -eq 0 ]] && [[ ${#read2[@]} -eq 0 ]]; then

    lock=`cat ${DIR}-cs/${VERSION}/lib/python/cellranger/barcodes/.lock`

    lock=`cat $lockfile`

    lock=$(($lock-1))

    echo $lock > ${DIR}-cs/${VERSION}/lib/python/cellranger/barcodes/.lock

    echo $lock > $lockfile

    echo " whitelist converted and no FASTQ files are selected. exiting launch_universc.sh"

    exit 0

fi