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The pilot generator most likely; if not there is a short in the gas valve and it will need to be replaced. Generators are a normal wear-and-tear replacement part...gas valves are not. The generator should be under $40 and is pretty easy to replace. Some places call the part the thermocouple but either name works. It is the metal 'stick' with a metal-clad set of wires from it the sticks up next to the pilot flame and is in turn heated up by the pilot to power the rest of the heater. If this answer does not fix your problem, please comment with additional details prior to rating the answer. You may also contact me thru our website at www.arrowpools.net. Positive feedback is appreciated once your problem is solved!
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