Just allows their system to weight ballots, allows users to mass dump information via USBs, alllows multiple levels of administrative users that can alter results, can be programmed to push illegible ballots to one party or another, allow their machines Internet Access, allow their machines to send data overseas, and shows the purchasers/users EXACTLY how to do these things in their manual.
So no, they didn't change ballots - but they didn't prevent alterations to ballots either.