while read new; do

         case "$new" in
         *.pdf) DEST="/home/desktop/folder/other" ;;
         *.zip) DEST="/home/desktop/folder/other" ;;
         *.bam) DEST="/home/desktop/folder/bam" ;;
         *.pdf.gz) DEST="/home/desktop/folder/vcf" ;;
         *) DEST="/home/desktop/folder" ;;
         esac

        # If folder doesn't exist, make it
        [ -d "$DEST" ] || mkdir -p "$DEST"

        echo "$new => $DEST"

        aria2c -x 4 -l log.txt -c -d "$DEST" --use-head=true --http-user "<user."  --http-passwd <password> xxx://www.example.com/folder/"$new"
done < /home/download