The nature of the kernel patch to enable rebooting seems to have this side-effect... How essential are the halt or poweroff commands for your workflows?
Btw, I will be submitting a Pull Request to LEDE for the reboot kernel patch soon, will update you when it's in.
I think he has already done this... [Resolved] ?! ;-)
PS. reboot works on 0.1.10 b160 - please check it again.
# Put your custom commands here that should be executed once
# the system init finished. By default this file does nothing.
omega2-ctrl gpiomux set i2c gpio
gpioctl dirin 4
gpioctl dirin 5
gpioctl dirin 15
gpioctl dirin 16
gpioctl dirin 17
However, I am still unable to use A5 as an analog input and A4 as a digital input (which is what I am trying to achieve) on the arduino side as those pins seem to still be pulled up to 5VDC either through a resistor or from the TSX0108
@Matthew-Lousteau OK. so it works, but if I have a ground pin connected into my project, it won't let me flash my sketch. If I disconnect the ground pin, I can flash the sketch and reconnect the pin afterwards and the sketch runs as I expected.