How I read the quote was they are not porting the game over. To me that doesnt necessarily mean the game isn't coming out to the Wii U, as the quote stated if they'd build a Wii U version of the game it would be built differently to the current PS3/360 build. I personally think this is just Crystal Dynamics waiting to see how well the Wii U is recieved before committing to the system.
I haven't read the article in the link, but I assume the part quoted is the main focus point.