All the main programs have the ability to set tempos and change them arbitrarily thruout the song. Cubase, Protools, Cool Edit, etc.., they can all do it. Has a band requested a click track or something to keep themselves in tempo? That's kinda the band's job imo.. They should be able to play whatever you're supposed to record, without any help from you.
If not, ignore the measures and beats, you'll waste more time trying to get it all in sync, and what do you get out of it? Just hit record and let the band play. The only 'time mapping' I do is to make little notes like 'verse2 at 1:48', 'guitar solo at 2:35', etc.. I haven't found a practical use for beats and measures yet..