emerge -uDN @world
...and head to bed for me.
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I'm using MX Linux and don't use any flatpak or snaps, only good old debs
I use one command to upgrade the whole system: paru
one one system and yay
on the other laptop.
Fedora updates flatpaks automatically, system updates too, but you need to reboot. Which Fedora version do you use?
I think a script with apt/pacman/dnf etc., flatpak update can do the job as well?
IMO its against the unix vision to extend apt to manage flatpak as well.
100% agree with you OP.
I use BAUH as a GUI "update everything in one click" does repos, aur, flatpak, snaps, appimages. Paru is CLI option for repo, aur and flatpak. I dunno if it does snaps never checked.
I get 99% of my packages via nix and the other 1% through appimages which I can put anywhere I like on my disk
If you want a single command, consider topgrade. Not sure if it supports Flatpak and Snaps yet, as I do not use those (yet).
Snap forces updates, and you cannot disable them. So if you use snaps, I guess you can stop worrying and keep going with your usual apt routine.