refactor: migrate from better-sqlite3 to bun:sqlite

- Updated build-hooks.js to remove better-sqlite3 dependency and use bun:sqlite.
- Modified smart-install.js to eliminate checks and installations related to better-sqlite3.
- Refactored Database.ts, SessionSearch.ts, SessionStore.ts, and migrations.ts to import and utilize bun:sqlite.
- Replaced exec and pragma calls with appropriate run methods for bun:sqlite compatibility.
- Removed unnecessary native module verification and installation logic for better-sqlite3.

package.json

@@ -50,7 +50,6 @@
     "@anthropic-ai/claude-agent-sdk": "^0.1.62",
     "@modelcontextprotocol/sdk": "^1.20.1",
     "ansi-to-html": "^0.7.2",
-    "better-sqlite3": "^12.5.0",
     "express": "^4.18.2",
     "glob": "^11.0.3",
     "handlebars": "^4.7.8",
@@ -60,7 +59,6 @@
     "zod-to-json-schema": "^3.24.6"
   },
   "devDependencies": {
-    "@types/better-sqlite3": "^7.6.8",
     "@types/cors": "^2.8.19",
     "@types/express": "^4.17.21",
     "@types/node": "^20.0.0",