Loading a specific program on a Adafruit 32u4 Feather

I developed a specific program for an Adafruit Feather 32u4 with a rfm69 radio. The Development IDE worked great for debug. Now I want to permanently load this program in the flash of the 32u4.

Documentation on how to accomplish this is sort of sketchy.

I think step 1 is to use the Arduino IDE to export the hex file with the boot loader.

However, what is step 2?

Chip