docs: updates for breaking changes (#9558)

- Update modules registration
- Update `medusa-config.js` to `medusa-config.ts`
- Update the out directory in the admin deployment guide
- Update logger imports
- Other fixes

Note: will need to re-generate references afterwards

Closes #9548

www/apps/book/app/advanced-development/modules/options/page.mdx

@@ -16,21 +16,21 @@ For example, if you’re creating a module that integrates a third-party service
 
 ## How to Pass Options to a Module?
 
-To pass options to a module, add an `options` property to the module’s configuration in `medusa-config.js`.
+To pass options to a module, add an `options` property to the module’s configuration in `medusa-config.ts`.
 
 For example:
 
-```js title="medusa-config.js"
+```js title="medusa-config.ts"
 module.exports = defineConfig({
   // ...
-  modules: {
-    helloModuleService: {
+  modules: [
+    {
       resolve: "./modules/hello",
       options: {
         capitalize: true,
       },
     },
-  },
+  ]
 })
 ```