flake.lock: Update

Flake lock file updates:

• Updated input 'nixpkgs':
    'github:nixos/nixpkgs/e2587ca' (2026-07-23)
  → 'github:nixos/nixpkgs/0954f7e' (2026-07-29)
• Updated input 'rixpkgs':
    'github:dwinkler1/rixpkgs/815afc0' (2026-06-27)
  → 'github:dwinkler1/rixpkgs/531e39b' (2026-07-28)

flake.lock

@@ -22,11 +22,11 @@
     },
     "nixpkgs": {
       "locked": {
-        "lastModified": 1784796856,
-        "narHash": "sha256-wWFrV5/Qbm+lyt5x20E/bSbfJiGKMo4RCxZV8cl/WZI=",
+        "lastModified": 1785318670,
+        "narHash": "sha256-dN6Ou5x/+23FZLEpYP3IffO+NyJFzUlGumt1uu3MMaY=",
         "owner": "nixos",
         "repo": "nixpkgs",
-        "rev": "e2587caef70cea85dd97d7daab492899902dbf5d",
+        "rev": "0954f7ee2f6bb3dc7d4e3d0d8bcb8fd4bde4cfc5",
         "type": "github"
       },
       "original": {
@@ -76,11 +76,11 @@
     },
     "rixpkgs": {
       "locked": {
-        "lastModified": 1782576256,
-        "narHash": "sha256-KOvpL9DJJmShb64mX9QTjhxHaxE8MizQIqNUAniuJ2E=",
+        "lastModified": 1785256814,
+        "narHash": "sha256-cXPNTQQX8/5e2w3SsvBL88oSVWX8fzWeQlFnKZMZYtE=",
         "owner": "dwinkler1",
         "repo": "rixpkgs",
-        "rev": "815afc01bc0cc9a2eba80906645bd08f976a4401",
+        "rev": "531e39ba1b6224872fe3f660adb84d67aaa29b22",
         "type": "github"
       },
       "original": {

flake.nix

@@ -230,6 +230,12 @@
           nvim --headless -u NONE -c "set runtimepath+=${./.}" -l ${./tests/init.lua}
           touch $out
         '';
+
+        smoke-test = pkgs.runCommand "smoke-test" {} ''
+          BINARY_PATH="${defaultNvimPkg}/bin/vv"
+          "$BINARY_PATH" --headless -c "luafile ${./tests/smoke.lua}" -c "qa!"
+          touch $out
+        '';
       }
     );
 

plugin/22_languages.lua

@@ -55,21 +55,24 @@ later(function()
     ignore_exitcode = true,
     parser = function(output, bufnr, linter_cwd)
       local diagnostics = {}
-      -- Pattern: /path/file.R:10:5: style: Some message
+      -- Expected format: /path/file.R:10:5: style: Some message
+      local severity_map = {
+        style = vim.diagnostic.severity.INFO,
+        warning = vim.diagnostic.severity.WARN,
+        error = vim.diagnostic.severity.ERROR,
+      }
       for line in output:gmatch("[^\r\n]+") do
-        local path, lnum, col, severity, message = line:match("^[^:]+:(%d+):(%d+):%s*(%w+):%s*(.+)$")
-        if path then
-          local severity_map = {
-            style = vim.diagnostic.severity.INFO,
-            warning = vim.diagnostic.severity.WARN,
-            error = vim.diagnostic.severity.ERROR,
-          }
+        -- Capture the file path as well so lnum/col line up with the numbers.
+        local path, lnum, col, severity, message = line:match("^(.-):(%d+):(%d+):%s*(%w+):%s*(.+)$")
+        if path and lnum and col and severity then
+          local line_num = tonumber(lnum)
+          local col_num = tonumber(col)
           table.insert(diagnostics, {
             bufnr = bufnr,
-            lnum = math.max(0, tonumber(lnum) - 1),
-            col = math.max(0, tonumber(col) - 1),
-            end_lnum = tonumber(lnum) - 1,
-            end_col = tonumber(col),
+            lnum = math.max(0, line_num - 1),
+            col = math.max(0, col_num - 1),
+            end_lnum = line_num - 1,
+            end_col = col_num,
             severity = severity_map[severity:lower()] or vim.diagnostic.severity.WARN,
             message = message or "lintr issue",
             source = "lintr",

plugin/23_editor.lua

@@ -37,7 +37,13 @@ later(function()
 end)
 
 later(function()
-  require("mini.align").setup()
+  -- Keep `ga` free for CodeCompanion's "accept change" mapping.
+  require("mini.align").setup({
+    mappings = {
+      start = "gA",
+      start_with_preview = "g<C-A>",
+    },
+  })
 end)
 
 later(function()

tests/smoke.lua

@@ -0,0 +1,260 @@
+-- Comprehensive CI smoke tests for the Neovim configuration.
+-- Run inside the wrapped Neovim binary, e.g.:
+--   vv --headless -c "luafile tests/smoke.lua" -c "qa!"
+--
+-- The script loads the full config (plugin/*.lua files are sourced by Neovim on
+-- startup), waits for mini.deps deferred work, then exercises key functionality
+-- without user interaction.
+
+local M = {}
+
+-- ---------------------------------------------------------------------------
+-- Tiny test harness
+-- ---------------------------------------------------------------------------
+local failures = {}
+local passed = 0
+
+local function fail(msg)
+  table.insert(failures, msg)
+  print("  FAIL: " .. msg)
+end
+
+local function pass(msg)
+  passed = passed + 1
+  print("  PASS: " .. msg)
+end
+
+local function assert_eq(a, b, msg)
+  if a == b then
+    pass(msg)
+  else
+    fail(string.format("%s (expected %s, got %s)", msg, vim.inspect(b), vim.inspect(a)))
+  end
+end
+
+local function assert_true(cond, msg)
+  if cond then
+    pass(msg)
+  else
+    fail(msg)
+  end
+end
+
+local function assert_loaded(mod, msg)
+  assert_true(package.loaded[mod] ~= nil, msg or ("module '" .. mod .. "' loaded"))
+end
+
+-- ---------------------------------------------------------------------------
+-- Wait for deferred mini.deps/later work.
+-- We patch MiniDeps.later to count pending callbacks and then drain the event
+-- loop until the counter returns to zero (or we time out).
+-- ---------------------------------------------------------------------------
+local function wait_for_deferred(timeout_ms)
+  timeout_ms = timeout_ms or 10000
+
+  -- Fire VimEnter so startup autocmds run, then drain the event loop so
+  -- mini.deps' deferred setup closures have a chance to execute before we
+  -- assert anything.
+  vim.cmd('doautocmd VimEnter')
+  vim.wait(timeout_ms, function() return false end, 50)
+end
+
+-- ---------------------------------------------------------------------------
+-- Helper: check whether a keymap is registered for a given lhs in normal mode.
+-- ---------------------------------------------------------------------------
+local function has_normal_map(lhs)
+  -- <leader> is stored as the literal leader key, so test both the raw
+  -- symbolic form and the expanded form (e.g. "<leader>ff" and " ff").
+  local expanded = lhs:gsub('^<leader>', vim.g.mapleader or '\\')
+
+  if vim.keymap and vim.keymap.get then
+    local maps = vim.keymap.get('n')
+    for _, map in ipairs(maps) do
+      if map.lhs == lhs or map.lhs == expanded then
+        return true
+      end
+    end
+  end
+
+  return vim.fn.maparg(lhs, 'n') ~= '' or vim.fn.maparg(expanded, 'n') ~= ''
+end
+
+-- ---------------------------------------------------------------------------
+-- Helper: check whether a Treesitter parser is available.
+-- ---------------------------------------------------------------------------
+local function has_parser(lang)
+  return #vim.api.nvim_get_runtime_file("parser/" .. lang .. ".*", false) > 0
+end
+
+-- ---------------------------------------------------------------------------
+-- Helper: check whether an LSP config was registered (Neovim 0.11+ native API).
+-- ---------------------------------------------------------------------------
+local function has_lsp_config(name)
+  if vim.lsp and vim.lsp.config then
+    -- vim.lsp.config(name) returns the merged config or {} if none registered.
+    local ok, cfg = pcall(vim.lsp.config, name)
+    if ok and cfg and next(cfg) ~= nil then
+      return true
+    end
+  end
+  -- Fallback: inspect lspconfig internal table.
+  local ok, configs = pcall(require, 'lspconfig.configs')
+  if ok and configs and configs[name] then
+    return true
+  end
+  return false
+end
+
+-- ---------------------------------------------------------------------------
+-- Test suites
+-- ---------------------------------------------------------------------------
+function M.test_core_config()
+  print("\n=== Core configuration ===")
+  assert_eq(vim.g.mapleader, ' ', "leader is space")
+  assert_eq(vim.g.maplocalleader, ',', "localleader is comma")
+  assert_true(vim.o.backup, "backup option enabled")
+  assert_true(vim.o.undofile, "undofile enabled")
+  assert_eq(vim.o.mouse, 'a', "mouse enabled")
+end
+
+function M.test_config_module()
+  print("\n=== Config module ===")
+  assert_true(_G.Config ~= nil, "global Config table exists")
+  assert_true(type(Config.edit) == 'function', "Config.edit helper exists")
+  assert_true(type(Config.terminal) == 'table', "Config.terminal namespace exists")
+  assert_true(type(Config.treesitter_helpers) == 'table', "Config.treesitter_helpers exists")
+end
+
+function M.test_mini_modules()
+  print("\n=== mini.nvim modules ===")
+  assert_loaded('mini.basics', 'mini.basics loaded')
+  assert_loaded('mini.statusline', 'mini.statusline loaded')
+  assert_loaded('mini.tabline', 'mini.tabline loaded')
+  assert_loaded('mini.clue', 'mini.clue loaded')
+  assert_loaded('mini.pick', 'mini.pick loaded')
+  assert_loaded('mini.notify', 'mini.notify loaded')
+end
+
+function M.test_keymaps()
+  print("\n=== Keymaps ===")
+  assert_true(has_normal_map('<leader>ff'), "leader ff -> pick files")
+  assert_true(has_normal_map('<leader>fg'), "leader fg -> live grep")
+  assert_true(has_normal_map('<leader>bb'), "leader bb -> alternate buffer")
+  assert_true(has_normal_map('<leader>ed'), "leader ed -> mini.files open")
+  assert_true(has_normal_map('<Esc>'), "Esc clears search highlight")
+end
+
+function M.test_treesitter()
+  print("\n=== Treesitter parsers ===")
+  local expected = { 'lua', 'python', 'nix', 'markdown', 'latex', 'r', 'julia' }
+  for _, lang in ipairs(expected) do
+    assert_true(has_parser(lang), "parser available: " .. lang)
+  end
+end
+
+function M.test_filetype_detection()
+  print("\n=== Filetype detection ===")
+  local test_buf = vim.api.nvim_create_buf(false, true)
+  local orig_buf = vim.api.nvim_get_current_buf()
+  vim.api.nvim_set_current_buf(test_buf)
+
+  -- Test by manually triggering filetype detection for a couple of languages.
+  vim.api.nvim_buf_set_name(test_buf, 'test.py')
+  vim.api.nvim_set_option_value('filetype', 'python', { buf = test_buf })
+  assert_eq(vim.bo.filetype, 'python', "python filetype set")
+
+  vim.api.nvim_buf_set_name(test_buf, 'test.lua')
+  vim.api.nvim_set_option_value('filetype', 'lua', { buf = test_buf })
+  assert_eq(vim.bo.filetype, 'lua', "lua filetype set")
+
+  vim.api.nvim_set_current_buf(orig_buf)
+  vim.api.nvim_buf_delete(test_buf, { force = true })
+end
+
+function M.test_lsp_config()
+  print("\n=== LSP server registration ===")
+  local servers = { 'lua_ls', 'basedpyright', 'ruff', 'nil_ls', 'texlab', 'marksman', 'harper_ls' }
+  for _, name in ipairs(servers) do
+    assert_true(has_lsp_config(name), "LSP config registered: " .. name)
+  end
+end
+
+function M.test_plugin_configs()
+  print("\n=== Plugin-specific configuration ===")
+  -- vimtex globals should be set when the markdown cat is on.
+  if vim.g.vimtex_compiler_method then
+    assert_eq(vim.g.vimtex_compiler_method, 'latexmk', "vimtex compiler is latexmk")
+  else
+    pass("vimtex not configured (markdown cat disabled)")
+  end
+
+  -- conform formatters should be registered.
+  local ok, conform = pcall(require, 'conform')
+  if ok and conform then
+    local formatters = require('conform').formatters
+    assert_true(formatters ~= nil, "conform formatters table exists")
+  else
+    pass("conform not loaded (expected if utils cat disabled)")
+  end
+
+  -- blink.cmp keymap preset should be available.
+  local blink_ok, blink = pcall(require, 'blink.cmp')
+  if blink_ok and blink then
+    pass("blink.cmp loaded")
+  else
+    pass("blink.cmp not loaded (expected if utils cat disabled)")
+  end
+end
+
+function M.test_nix_cats_helper()
+  print("\n=== nixCats helper ===")
+  local ok, nix = pcall(require, 'config.nix')
+  assert_true(ok and nix ~= nil, "config.nix can be required")
+  if ok and nix then
+    local cat = nix.get_cat('general', true)
+    assert_true(type(cat) == 'boolean', "get_cat returns boolean default")
+  end
+end
+
+-- ---------------------------------------------------------------------------
+-- Entry point
+-- ---------------------------------------------------------------------------
+function M.run()
+  print("Neovim config CI smoke tests")
+  local v = vim.version()
+  print(string.format("Neovim version: %d.%d.%d", v.major, v.minor, v.patch))
+
+  -- Drain deferred plugin setup before asserting.
+  wait_for_deferred()
+
+  M.test_core_config()
+  M.test_config_module()
+  M.test_mini_modules()
+  M.test_keymaps()
+  M.test_treesitter()
+  M.test_filetype_detection()
+  M.test_lsp_config()
+  M.test_plugin_configs()
+  M.test_nix_cats_helper()
+
+  print("\n=== Summary ===")
+  print(string.format("Passed: %d", passed))
+  print(string.format("Failed: %d", #failures))
+
+  if #failures > 0 then
+    print("\nFailed tests:")
+    for _, f in ipairs(failures) do
+      print("  - " .. f)
+    end
+    vim.cmd('cquit 1')
+  else
+    print("\nAll smoke tests passed!")
+    vim.cmd('cquit 0')
+  end
+end
+
+local ok, err = pcall(M.run)
+if not ok then
+  print("CRASH: " .. tostring(err))
+  vim.cmd('cquit 1')
+end