Happened to me too. Unplug from USB and plug it back in. close the ROM program and open it again. It'll Run and wont give you a current ROM version. Ignore it and proceed. You phone will now complete to upgrade. If you are using an official ROM you phone will now boot fine. Some of the unofficial ones will need you to kick it out of bootloader mode manually. These instructions are posted elsewhere.
hope this helps. Just as an FYI.. I have never ran a ROM upgrade in vista where this didnt happen. So your not alone
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