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I don't like the idea of just using the charged caps. You instantly start losing system voltage so you can't really tune it properly. For the sake of safety, i think you should really just write a program that outputs PWM Duty 1 for a quarter of a second, then just stops. Measure it all on the scope and see what you've got. If it turns out that the current at a duty of 1 is very high... we'll cross that bridge.
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