Most likely the problem was discovered by calibre. Not caused by calibre.
It seems that the memory/filesystem in your device is corrupt.
The error could for instance be caused by removing the USB cable without first unmounting the filesystem, or by a damaged USB cable or USB ports that gave an unreliable connection.
Either way it is nothing that calibre can fix. Most likely you will have to find out how to fix the filesystem some other way. Perhaps ask on the Bookeen subforum if others have had the same problem and how they fixed it? It might perhaps be possible to connect the device to your computer and run a file system check and repair or reformat that way? Or by doing a firmware reset or update. Otherwise you will most likely have to contact Bookeen.
Here is one old thread about the Odyssey that seems very related:
https://www.mobileread.com/forums/sho...esystem+repair