I've just tried to update the firmware on my 1.0 audiomoth to the latest. I followed the instructions for manual flashing and the app indicated that the device had been successfully flashed. I'm not really sure what went wrong from there but the computer/configuration app now doesn't recognise it. The unit has a green flashing light and the red light on constantly. In the "what do the flashing lights mean" section this combination isn't covered whilst it is in USB/off mode. I have tried changing the mode but same lights are flashing. I've tried re-flashing and configuring with the same results.
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Are you sure the constant red and flashing green LED is on in USB/OFF mode? This should appear when you switch to CUSTOM if the time has not been set or if the 'Always require acoustic chime on switching to CUSTOM' option is set. When you say 'I've tried re-flashing' - what mode are you using on the switch? Does the config app and flash app recognise the device?