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Yes OpenStudio can do parametric studies where we alter geometry. We have internally used a measure with a multiplier for x and y to scale the entire building. If you want to scale individual zones, of course this is more complex, to make sure zones fit together if they don't scale by the same factor. Rather than changing the geometry you could also change the zone multiplier, but if you are trying to look at daylighting impact of larger spaces, then you probably want the actually geometry deeper. The zone multiplier also wont change the surface area to volume ratio of the building.

I'll let someone else speak to best approach with jEPlus.