I plan on interfacing the system with the aqualink controller, which I'm assuming will regulate the flow to the panels based on how I have it setup.

I've got an older aqualink, so I may just set it up where the solar heat button activates the panels ON/OFF. That way I can regulate what part of the pool I want heated and how much (For instance I could heat just the spa). The newer aqualink update has priority heating (I believe) for doing just that....but my old version is much more simple and will heat to a certain input temp and then stop.

I plan on upgrading the aqualink next year when I spring for an e-pump and possibly switch over to a salt setup.