Logging Exercise on Fitbit

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I have a question about logging exercise with Fitbit. Should I NOT log my runs? I have synced MyFitnessPal, Fitbit and MapMyRun. I enter my exercise on MapMyRun (I use a heart rate monitor when I work out). MMR communicates with MFP which syncs up with Fitbit. I have enabled negative calorie adjustments so that I don't overestimate my calorie expenditure. Am I giving myself double credit for exercise if I log my runs?

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