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Thanks for the kind message. I've forwarded to our development team but believe the problem may actually be whether schema changes can even be wrapped in a transaction in MySQL. Please correct me if I'm wrong, but I've included a couple of similar questions posted online who's answers suggest this:
http://stackoverflow.com/questions/3413 ... ansactions
http://forums.mysql.com/read.php?97,548 ... #msg-54955
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Anyway, I am comparing the structure of 2 mysql databases. During the synchronisation, I got an error message from sql compare and the sync did not complete. Unfortunately, I notice that the synchronisation has been partly completed so the structure changes were not wrapped in a transaction. This is not good!
The database in question has a mix of innodb and myisam tables - perhaps this has something to do with it?