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I have actually encountered this just comparing two straight up databases, no source control versions involved. They have source control revision numbers in the extended properties of the database that compare detects, but it is comparing what is currently in the database, not a version in source control (database is the option selected on data sources tab on the initial window that pops up doing the compare). And I just reproduced it. / comments
I have actually encountered this just comparing two straight up databases, no source control versions involved. They have source control revision numbers in the extended properties of the database...