fix: approve native build scripts and update vitest

Add pnpm.onlyBuiltDependencies to whitelist packages that need
install/postinstall scripts (better-sqlite3, esbuild, node-llama-cpp,
tree-sitter-*). Without this, pnpm silently skips native compilation
causing all tests that touch SQLite to fail.

Also bumps vitest from ^3.0.0 to ^3.2.4.

package.json

@@ -69,7 +69,19 @@
   "devDependencies": {
     "@types/better-sqlite3": "^7.6.0",
     "tsx": "^4.0.0",
-    "vitest": "^3.0.0"
+    "vitest": "^3.2.4"
+  },
+  "pnpm": {
+    "onlyBuiltDependencies": [
+      "better-sqlite3",
+      "esbuild",
+      "node-llama-cpp",
+      "tree-sitter-go",
+      "tree-sitter-javascript",
+      "tree-sitter-python",
+      "tree-sitter-rust",
+      "tree-sitter-typescript"
+    ]
   },
   "peerDependencies": {
     "typescript": "^5.9.3"