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STK500v2
Atmel STK500v2 compatible boot loader for Arduino ATMEGA2560.
Download
Install
Arduino MEGA 2560
Pololu USB AVR Programmer v2.1
avrdude -V -B 5 -P `pavr2cmd --prog-port` -c avrisp2 -p ATMEGA2560 -e -u -U lock:w:0x3F:m -U efuse:w:0xFD:m -U hfuse:w:0xD8:m -U lfuse:w:0xFF:m avrdude -B 5 -P `pavr2cmd --prog-port` -c avrisp2 -p ATMEGA2560 -D -U flash:w:stk500boot_v2_mega2560.hex:i avrdude -V -B 5 -P `pavr2cmd --prog-port` -c avrisp2 -p ATMEGA2560 -u -U lock:w:0x0F:m
USBasp
avrdude -V -B 5 -c usbasp -p atmega2560 -e -u -U lock:w:0x3F:m -U efuse:w:0xFD:m -U hfuse:w:0xD8:m -U lfuse:w:0xFF:m avrdude -B 5 -c usbasp -p atmega2560 -D -U flash:w:stk500boot_v2_mega2560.hex:i avrdude -V -B 5 -c usbasp -p atmega2560 -u -U lock:w:0x0F:m
USBTiny
This programmer does not support the ATMEGA2560.