AVR Command Line Tools is from the era of AS4.x and it is a standalone programmer package. I used it with AVRdragon on Windows XP, and I used to release my AVR programs with this easy to install command line tool.
As I mentioned I know the atprogram.exe from the AS6.1, but it is dead slow compared to the avrdragon.exe from the command line tools and it requires to install the whole AS6.1, which is huge.
I would like to avoid to distribute my hex files with a oversized developer suite instead of a lightweight command line tool.
Best regards,
Majki