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Hi Maha,
Just so I'm clear - you're saying that you have defined scenarios which are equivalent to one another because they inherit from the same 'mini' scenarios, yet you see different results for each of these scenarios?
If so, please provide a copy of your LEAP dataset (you can attach it to this thread, or email us directly at leap@sei-us.org) and let me know exactly which result you see that differs across which group of equivalent scenarios. I'll take a look as soon as I'm able.
Best,
Taylor