refactor: update import statements to use .js extensions

- Changed all import statements across the project to include the .js extension for consistency and to comply with ES module standards.
- Updated imports in various files including bootstrap.ts, shutdown.ts, config.ts, and many others.
- Ensured that all related modules and types are correctly imported with the new extension.

src/middleware.ts

@@ -1,6 +1,6 @@
 import { NextFunction, Request, Response } from "express";
-import { AppError } from "./errors";
-import { createChildLogger } from "./logger";
+import { AppError } from "./errors.js";
+import { createChildLogger } from "./logger.js";
 
 const logger = createChildLogger("middleware");