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Your best approach would be to write a small application using the SQL Data Compare API, which would allow you to run the compare and return various email and status messages to order.
Have a look at the examples in this link:
http://help.red-gate.com/help/SQLCompar ... frame.html
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I was thinking that it might be easier (and somewhat more managable for me) if I execute the "command line" process in SSIS, wrapped around an SSIS Execute process task? I can use the result of the SSIS execute process to also send me an email at the end to let me know if the process completed correctly.
Does anyone have experience or has anyone tried this already?
Thanks!