How did you take backup of your schemas? What do you mean by connecting to original schema?
Hi Ayush I take the backp up and clone the mster and work repositories
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The master repository contains connectivity to the work repository. If you just clone the master repository the work repository connectivity in it still point to the original work rep. So running upgrade on cloned copy of master would result in upgrade of original work rep instead of cloned work rep. I guess this is what happened in your case. So you should try to restore the work rep in the original schema.