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Press (Esc) whilst running the game to get to the menus, click on the config menu and choose controllers.

That is the set up screen for the controllers that it has recognised.

If it doesn't recognise your controller (unlikely) try using something like 'USB overdrive' to map your key-presses to the appropriate keys.

http://www.versiontracker.com/dyn/moreinfo/macosx/13443

If that doesn't work buy yourself a DS. Well good. 😛
 
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