We have released a version with these changes:

• The game should now support a larger selection of gamepad types
• The game-pad interface visual glitch was fixed

If your controller doesn't seem to perform as the gamepad layout suggests it should, please let us know!

We have found an issue with the new update, and will probably release a fix for it soon.
If your controller used to work, but now it doesn't - the fix should fix your issue (once we release a new version).