After scanning, the report may highlight several files with "Unsupported data - version older than R10 (Inventor)..." for example.
To solve this, you need to open in Inventor and save to migrate, then go back and re-scan. It would be advantageous to open several files at once from Autoloader, but it will currently only allow a single file to be opened at a time. (If you try highlighting multiple files using CTRL or Shift, then opposite click and Open, only the first file will open.)
Similarly, to resolve links, etc.