refactor package installation

modules/module/settings/cat-packages.nix

@@ -0,0 +1,109 @@
+{
+  config,
+  pkgs,
+  lib,
+  ...
+}:
+let
+  maybe = cat: pkgsList:
+    lib.optionals (config.cats.${cat} or false) pkgsList;
+in
+{
+  options.catPkgs = lib.mkOption {
+    type = lib.types.attrsOf (lib.types.listOf lib.types.package);
+    description = "Per-cat package lists, gated by cat toggles. Single source of truth for runtimeDeps and devShells.";
+  };
+
+  config.catPkgs = {
+    always = maybe "always" (with pkgs; [ ]);
+
+    clickhouse = maybe "clickhouse" (with pkgs; [ clickhouse-lts ]);
+
+    external = maybe "external" (with pkgs; [
+      perl
+      ruby
+      shfmt
+      sqlfluff
+      tree-sitter
+    ]);
+
+    julia = maybe "julia" [
+      (pkgs.julia-bin.withPackages config.settings.lang_packages.julia)
+    ];
+
+    lua = maybe "lua" (with pkgs; [ lua-language-server ]);
+
+    markdown = maybe "markdown" (with pkgs; [
+      python313Packages.pylatexenc
+      quarto
+      zk
+    ]);
+
+    nix = maybe "nix" (with pkgs; [
+      alejandra
+      nix-doc
+      nixd
+    ]);
+
+    optional = maybe "optional" (with pkgs; [
+      bat
+      broot
+      devenv
+      dust
+      fd
+      fzf
+      gawk
+      gh
+      git
+      hunspell
+      hunspellDicts.de-at
+      hunspellDicts.en-us
+      ispell
+      jq
+      just
+      lazygit
+      man
+      ncdu
+      pigz
+      poppler
+      ripgrep
+      tokei
+      wget
+      yq
+      zathura
+    ]);
+
+    python = maybe "python" (let
+      python_packages_fn =
+        if pkgs ? basePythonPackages
+        then ps: pkgs.basePythonPackages ps ++ config.settings.lang_packages.python
+        else _: config.settings.lang_packages.python;
+      python_with_packages = pkgs.python3.withPackages python_packages_fn;
+    in
+      with pkgs; [
+        python_with_packages
+        nodejs
+        ruff
+        basedpyright
+        uv
+      ]);
+
+    r = maybe "r" (let
+      r_packages = (pkgs.baseRPackages or [ ]) ++ config.settings.lang_packages.r;
+    in
+      with pkgs; [
+        (rWrapper.override { packages = r_packages; })
+        radianWrapper
+        (quarto.override { extraRPackages = r_packages; })
+        air-formatter
+        yaml-language-server
+        rnvimserver
+      ]);
+
+    # cats without packages get empty lists
+    general = [ ];
+    gitPlugins = [ ];
+    treesitterParsers = [ pkgs.tree-sitter ];
+    utils = [ ];
+  };
+}

modules/module/settings/cats.nix

@@ -13,6 +13,7 @@
       Set a category to `false` to skip its dependency/plugin specs.
 
       Available categories:
+      - always: always-on packages (not gated by a toggle)
       - clickhouse: Clickhouse client and tools
       - external: external tools and integrations
       - general: core Neovim plugins/features
@@ -30,6 +31,7 @@
   };
 
   config.cats = {
+    always = lib.mkDefault true;
     clickhouse = lib.mkDefault false;
     external = lib.mkDefault true;
     general = lib.mkDefault true;

modules/module/settings/runtime-path.nix

@@ -1,33 +0,0 @@
-{
-  config,
-  lib,
-  ...
-}:
-let
-  collect_runtime_packages = runtime_deps_type:
-    config.specCollect
-      (acc: spec:
-        let
-          is_enabled = if spec ? enable then spec.enable else true;
-          has_runtime_deps = (spec.runtimeDeps or false) == runtime_deps_type;
-          packages = spec.runtimePackages or [ ];
-        in
-        acc ++ lib.optionals (is_enabled && has_runtime_deps) packages
-      )
-      [ ];
-
-  prefix_packages = collect_runtime_packages "prefix";
-
-  to_path_specs = packages: [
-    {
-      data = [
-        "PATH"
-        ":"
-        "${lib.makeBinPath packages}"
-      ];
-    }
-  ];
-in
-{
-  config.prefixVar = lib.optionals (prefix_packages != [ ]) (to_path_specs prefix_packages);
-}

modules/module/specs/deps.nix

@@ -13,133 +13,69 @@
     };
   };
 
-  config.specs.external = {
+  config.specs.always = lib.mkIf (config.cats.always or true) {
+    data = lib.mkDefault null;
+    runtimeDeps = "prefix";
+    runtimePkgs = config.catPkgs.always;
+  };
+
+  config.specs.external = lib.mkIf (config.cats.external or true) {
     data = lib.mkDefault null;
     before = ["INIT_MAIN"];
     config = ''
       vim.o.shell = "${pkgs.zsh}/bin/zsh"
     '';
     runtimeDeps = "prefix";
-    runtimePkgs = with pkgs; [
-      perl
-      ruby
-      shfmt
-      sqlfluff
-      tree-sitter
-    ];
+    runtimePkgs = config.catPkgs.external;
   };
 
   config.specs.optional = lib.mkIf (config.cats.optional or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
     before = ["INIT_MAIN"];
-    runtimePkgs = with pkgs; [
-      bat
-      broot
-      devenv
-      dust
-      fd
-      fzf
-      gawk
-      gh
-      git
-      hunspell
-      hunspellDicts.de-at
-      hunspellDicts.en-us
-      ispell
-      jq
-      just
-      lazygit
-      man
-      ncdu
-      pigz
-      poppler
-      ripgrep
-      tokei
-      wget
-      yq
-      zathura
-    ];
+    runtimePkgs = config.catPkgs.optional;
   };
 
   config.specs.markdown = lib.mkIf (config.cats.markdown or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
-    runtimePkgs = with pkgs; [
-      python313Packages.pylatexenc
-      quarto
-      zk
-    ];
+    runtimePkgs = config.catPkgs.markdown;
   };
 
   config.specs.nix = lib.mkIf (config.cats.nix or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
-    runtimePkgs = with pkgs; [
-      alejandra
-      nix-doc
-      nixd
-    ];
+    runtimePkgs = config.catPkgs.nix;
   };
 
   config.specs.lua = lib.mkIf (config.cats.lua or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
-    runtimePkgs = with pkgs; [
-      lua-language-server
-    ];
+    runtimePkgs = config.catPkgs.lua;
   };
 
   config.specs.python = lib.mkIf (config.cats.python or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
-    runtimePkgs = let
-      python_packages_fn =
-        if pkgs ? basePythonPackages
-        then ps: pkgs.basePythonPackages ps ++ config.settings.lang_packages.python
-        else _: config.settings.lang_packages.python;
-      python_with_packages = pkgs.python3.withPackages python_packages_fn;
-    in
-      with pkgs; [
-        python_with_packages
-        nodejs
-        ruff
-        basedpyright
-        uv
-      ];
+    runtimePkgs = config.catPkgs.python;
   };
 
   config.specs.r = lib.mkIf (config.cats.r or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
-    runtimePkgs = let
-      r_packages = (pkgs.baseRPackages or []) ++ config.settings.lang_packages.r;
-    in
-      with pkgs; [
-        (rWrapper.override {packages = r_packages;})
-        radianWrapper
-        (quarto.override {extraRPackages = r_packages;})
-        air-formatter
-        yaml-language-server
-        updateR
-      ];
+    runtimePkgs = config.catPkgs.r;
   };
 
   config.specs.julia = lib.mkIf (config.cats.julia or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
-    runtimePkgs = let
-      julia_with_packages =
-        pkgs.julia-bin.withPackages config.settings.lang_packages.julia;
-    in [julia_with_packages];
+    runtimePkgs = config.catPkgs.julia;
   };
 
   config.specs.clickhouse = lib.mkIf (config.cats.clickhouse or true) {
     data = lib.mkDefault null;
     runtimeDeps = "prefix";
-    runtimePkgs = with pkgs; [
-      clickhouse-lts
-    ];
+    runtimePkgs = config.catPkgs.clickhouse;
   };
 
   config.runtimePkgs = config.specCollect (acc: v: acc ++ (v.runtimePkgs or [])) [];

modules/neovim.nix

@@ -9,6 +9,7 @@ inputs:
 {
   imports = [
     wlib.wrapperModules.neovim
+    ./module/settings/cat-packages.nix
     ./module/specs/deps.nix
     ./module/specs/plugins.nix
     ./module/settings/core.nix
@@ -16,7 +17,6 @@ inputs:
     ./module/settings/env.nix
     ./module/settings/hosts.nix
     ./module/settings/lang-packages.nix
-    ./module/settings/runtime-path.nix
   ];
 
   options.nvim-lib.neovimPlugins = lib.mkOption {