add known barcodes for iCELL8

#create a file with every possible barcode (permutation)

if [ ! -f iCELL8_barcode.txt ]

    then

    echo AAAAA{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G}{A,T,C,G} | sed 's/ /\n/g' > iCELL8_barcode.txt

    #copy known iCell8 barcodes from convert repo to cellranger install

    cp iCell8_barcode.txt iCell8_barcode_converted.txt

    #convert barcode whitelist to match converted barcodes

    sed -i 's/^/AAAAA/g' iCell8_barcodes_converted.txt

    echo "expected barcodes generated for iCELL8"

    fi

    fi

#combine 10x and Nadia barcodes

cat iCELL8_barcode.txt 737K-august-2016.txt.backup > 737K-august-2016.txt

cat iCELL8_barcode_converted.txt > 737K-august-2016.txt

echo "whitelist converted for iCELL8 compatibility with version 2 kit"

#create version 3 files if version 3 whitelist available

        fi

    #combine 10x and iCELL8 barcodes

    gzip -k iCELL8_barcode.txt

    zcat iCELL8_barcode.txt 3M-february-2018.txt.backup > 3M-february-2018.txt

    cat iCELL8_barcode_converted.txt  > 3M-february-2018.txt

    gzip -f 3M-february-2018.txt

    echo "whitelist converted for iCELL8 compatibility with version 3 kit"

    fi