It sounds like your flame detector (usually a thermocouple) has gotten weak and when you cleaned the pilot the stronger flame was able to generate enough power to keep the gas valve working. If you replace the thermocouple your problem should go away. If a new thermocouple will not keep the gas valve operating...the coil in the gas valve has gone bad and you will need to replace the gas valve assembly. (most valves do not have replaceable coils).
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