I was doing some work today that required converting a raw bin file, read from flash memory using JTAG, to hex.
I found the excellent srecord utility that does the job, as follows
srec_cat.exe file.bin -binary -offset 0x80800000 -o file.hex -intel --line-length=44
As I am hacking a AT32UC3 based board,
offset is where the application is located on that board.
line-length of 44 produces a hex file that has the same line length as the avr32-objcopy utility.
To convert a hex file to binary
srec_cat.exe file.hex -intel -offset -0x80800000 -o file.bin -binary
Note the negative
offset. Without it, the large offset address will result in a binary file that is more than 8 MB long.
HxD is a nice freeware binary file editor that you can use to edit the binary file.