Well you can do what i do, wich is right above your post.

"You can always open the script in the script editor, and exicute it, then just type GI_Joe in the command line. The reason why it won't work is because It can't find the LIGHTS file."

For what i just listed above, you have to have the lights file in the same file as the script. I haven't even tried to change the dirrectory of the light file like he says to do on his website because of all of those errors people are getting, if you just open it in script editor first in maya and exicute it, then type it in like you normally would in the comand line, then it should work fine. But you have to go thru that process everytime you have a new scene you want to use it in. Hope this helps,
Brian