Hi Nassa ,
just for further reference, in the file hardware/arduino/sam/board.txt are listed all the parameters needed to upload the firmware on every boards , for example in case of arduino due
arduino_due_x_dbg.name=Arduino Due (Programming Port)
arduino_due_x_dbg.upload.tool=bossac
arduino_due_x_dbg.upload.protocol=sam-ba
arduino_due_x_dbg.upload.maximum_size=524288
arduino_due_x_dbg.upload.use_1200bps_touch=true
arduino_due_x_dbg.upload.wait_for_upload_port=false
arduino_due_x_dbg.upload.native_usb=false
arduino_due_x_dbg.build.mcu=cortex-m3
arduino_due_x_dbg.build.f_cpu=84000000L
arduino_due_x_dbg.build.core=arduino
arduino_due_x_dbg.build.extra_flags=-D__SAM3X8E__ -mthumb -DUSB_PID={build.pid} -DUSB_VID={build.vid} -DUSBCON
arduino_due_x_dbg.build.ldscript=linker_scripts/gcc/flash.ld
arduino_due_x_dbg.build.variant=arduino_due_x
arduino_due_x_dbg.build.variant_system_lib=libsam_sam3x8e_gcc_rel.a
arduino_due_x_dbg.build.vid=0x2341
arduino_due_x_dbg.build.pid=0x003e
arduino_due_x.name=Arduino Due (Native USB Port)
arduino_due_x.upload.tool=bossac
arduino_due_x.upload.protocol=sam-ba
arduino_due_x.upload.maximum_size=524288
arduino_due_x.upload.use_1200bps_touch=true
arduino_due_x.upload.wait_for_upload_port=true
arduino_due_x.upload.native_usb=true
arduino_due_x.build.mcu=cortex-m3
arduino_due_x.build.f_cpu=84000000L
arduino_due_x.build.core=arduino
arduino_due_x.build.extra_flags=-D__SAM3X8E__ -mthumb -DUSB_PID={build.pid} -DUSB_VID={build.vid} -DUSBCON
arduino_due_x.build.ldscript=linker_scripts/gcc/flash.ld
arduino_due_x.build.variant=arduino_due_x
arduino_due_x.build.variant_system_lib=libsam_sam3x8e_gcc_rel.a
arduino_due_x.build.vid=0x2341
arduino_due_x.build.pid=0x003e
hope it helps.
BR
Zad