I am not sure about your description, but if your device is out-of-battery so much it cannot boot, I suggest trying the following command:

"flasher.exe -c -f -F firmware.bin"

(and note, you need to run this in "admin console" or whatever it is they call it in windoze....)

Only after this connect the USB cable.

If the flasher finds the device, it will start counting %-of charge, and when it reaches 9% or 10% or so, stop the process by <ctrl-c> or disconnect the cable.

Now you have enough power to start the device, and you can connect it to normal charger and it will charge.