Subflakes should provide their wares as outputs, so wire up the pkgs
flake to reflect that.
Due to the unstable nature of flakes, updating the root flake doesn't
currently update the subflake lock file. Therefore, add additional
logic to flk update script in order to do this behind the scenes.
Nix is now pulled in from the "nix" registry flake in order for users
to take advantage of improvements to the UI since its last update in
nixpkgs.
The bash wrapper was causing issues with deploy-rs and the
experimental-features option in the config was causing hercules-ci to
spit out a bunch of junk in the logs. Patching nix with the default
values required for flakes fixes both of these issues.
