I would think you would want to keep your cistern cycling so the water doesn't have time to stand and start growing things, so what I would suggest (with nothing to back me up) is that the cistern gets used for flushing the toilets 100% until it's depleted to maybe 10% of capacity. At this point you can have a float in the cistern (an existing technology) that will be tripped and keep the cistern from going completely dry, but also keep it from going completely stagnant. This would make it a stand alone system and make it so there can be computer monitoring, but the computer is out of the loop for all intents and purposes.
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