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I've set Atom as Text Editor in Renpy. It has been downloaded. And when I try to open a file, it shows this error:

An exception has occured while launching the text editor OSError: [Errno 13] Permission denied.

I have also Atom as text editor in my OS, and .rpy files are open with it by default. When I set "System Editor" in Renpy, it opens Atom, but can't go to the correct line, and show .rpyc files in the tree (two features that the internal Renpy-Atom has).
OS: Ubuntu 17.10
RenPy: 6.99.14.3.3347

it not renpy that is causing the error don't know if this will help but other people are having the same problem with atom on linux platforms

try doing this
or
you might also trying changing the permission for atom folders

information from here
Atom throw permission denied error

more info

atom permissions problem on ubuntu after building

Thanks, rayminator.
Tried sudo chown -R `whoami` ~/.atom with no success.
I can open Atom normally outside RenPy, but not as the selected text-editor inside RenPy.