Merge branch 'master' of dgt-gitlab.gsc.riken.jp:tom/cellranger_convert

        echo "Error: option -t needs to be 10x, nadia, icell8, or custom_<barcode>_<UMI>"

        exit 1

    else

        b=`echo $technology | cut -f 2 -d'_'`

        u=`echo $technology | cut -f 3 -d'_'`

        custom=`echo $technology | grep -o "_" | wc -l`

        custom=$(($custom+1))

        if [[ $custom -le 2 ]]; then

           echo "Error: custom input must have at least 3 fields, e.g., customA_10_16"

        fi

        b=`echo $technology | cut -f$((${custom}-1))  -d'_'`

        u=`echo $technology | cut -f$((${custom}))  -d'_'`

        if ! [[ "$b" =~ ^[0-9]+$ ]] || ! [[ "$u" =~ ^[0-9]+$ ]]; then

            echo "Error: option -t needs to be 10x, nadia, icell8, or custom_<barcode>_<UMI>"

            exit 1

        fi

        if [[ -z $barcodefile ]]; then

            echo "Error: when option -t is set as custom, a file with a list of barcodes needs to be specified with option -b."

            exit 1

            echo "Warning: when option -t is set as custom, a file with a list of barcodes can be specified with option -b."

        fi

    fi

fi