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if it's a graphical application it will show up as graphical, in the terminal window you'll get the output the program does (either stdout or stderr, if you've done some C development) for debugging or warning purpose...
The terminal window will stay unavailable as long as the program is running (don't do ctrl-c to get the prompt back, it would immediately close the program launched : just open another terminal window...)
It's easier through the menus for this kind of graphical application, though... the desktop is not cluttered with terminal window !
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