MGLTools provides a GUI and python scripts for use with AutoDock. Installation on Ubuntu 7.04 is easy enough with the binary installer. However, none of the GUIs want to run:
TclError: Togl: couldn't get visual hit enter to continue
We at least get to a window by appending “DISPLAY=:0” to the front of the command.
Seems to be an Xgl issue. Why am I running Xgl? Take a guess. Oh, how I hate the ATI fglrx driver for Linux.
What You're Doing Is Rather Desperate 