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So they will run on X11 that's from Debian stable? Will for example Emacs read your .Xresources from your home directory?

I've been eyeing this setup with Guix but I have some concerns. If I install a newer version of GCC through Nix/Guix, can I run update-alternatives on it?

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Yes, it will run on your system X11 obeying your .Xresources. I have never tried using update-alternatives to replace the system-wide GCC (or any piece of software for that matter).

that's nice it hooks back into your system. I might just have to try it :)

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