While the computer is off there is no power from it, for that you could use an RSLatch or a MemoryCell or a Piston with 1 thick to TOGGLE a redstone circuit on and off.
And you can still control the system with your computer.
Over here I have a simple memory cell controlled by a computer.
You can see in the 2 photos that the piston is holding different states, while the computer is off and is sending no power.
The problem with that setup is that the computer needs 2 outputs to control. It can also be done with 1 output, but its just a little more complex.
Depending on the mods you have, you could use the redpower gates. Specifically the Toggle one, that way, you can only use 1 side from the computer to send output signal and toggle on and off.
Sadly with this 2 your computer won't be able to know the state of the output once it turns back on.
But…
On this version the computer can still change the output, and check the current state once it turns back on.
Again it all depends on the mods you have, here is with bundled cables and color wires. This setup will also let you know the status of the output when the computer turns on, and it only uses one side of the computer:
Hope it helps.