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I do believe that there are going to be ways to do this within EnergyPlus (probably involving EMS), but I'm not sure that what you've described is going to be worth all of the effort that's going to be needed. Unless I am misunderstanding your question, I'd think that the easiest way to do this would be to postprocess the CSV and break the airflow rate column into two columns, one with a nonzero heating rate and one with a zero heating rate.