I compiled GENtle myself from source making sure I had all the dependencies installed. Everything worked fine with no error message. The program is lauching and there are no apparent bugs in entering sequence, loading libraries, etc. The only problem so far is with the aligment box (see picture). On the right is what I see on my linux version and on the left is what i should see (from windows version).
I run ubuntu 11.10 64 bit on Gnome 3.