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nbeerli@galaxy3:~$ ls -la
/.config/geany ls: cannot open directory '/home/nbeerli/.config/geany': Permission denied nbeerli@galaxy3:$
This is your problem.
What does ls -la ~/.config give?
Did you tried to start Geany as root (e.g. with sudo) before or anything else?
To solve your problem: make sure your user can write to his own configuration directory. How to do that depends on the output of the ls command above.
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