I do it like this:
system.autoUpgrade = {
enable = true;
flake = inputs.self.outPath;
flags = [
"--update-input"
"nixpkgs"
"--no-write-lock-file"
"-L" # print build logs
];
dates = "02:00";
randomizedDelaySec = "45min";
};
This results in the following call with a systemd.timer:
nixos-rebuild switch --update-input nixpkgs --no-write-lock-file -L --flake /nix/store/<flake-source> --upgrade