You find Macdonald polynomials defined for root systems for example in Macdonald's lecture series "Symmetric functions and orthogonal polynomaials", or as well in various places, like http://en.wikipedia.org/wiki/Macdonald_polynomials for the definition for any root system of finite type.
See also the old MO question universality of Macdonald polynomialsuniversality of Macdonald polynomials and its detailed answers...