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I have a similar configuration working (mostly) with a consumer Radeon - five 1920x1200 displays in three rows and two columns using the AMD binary driver ("FGLRX") on Ubuntu 12.04.
The driver is generally less robust than the Windows version, and doesn't seem to offer bezel compensation. I expect you'd be able to do this manually (editing coordinates in config files), but you may run into a limit in the maximum allowable virtual desktop size. I.e., when you add margins between the displays, the total virtual desktop size may exceed some hardcoded limit. Mine won't go beyond 3840x3840 in total ( http://askubuntu.com/questions/193057/x-fails-to-start-with-five-displays-multi-desktop-fglrx ).
I have no idea about Gnome and GLUT. Have you tried / are you able to just not use gnome?
Also you may find better support (from the driver, or at least from AMD reps) if you go with Firepro instead of Radeon.
Thanks for the response.
Since our pixel resolution is 3840x3240, I am hopeful that this will work.
What card are you using?
What DisplayPort -> HDMI adapter(s) did you use?
How did you set up the X config?
Have any sample xorg.conf files you can share?