Convert partial level 3 files to typescript for contributing to `metamask-controller.js`

[DDDDDanica]

Convert dependency of files for metamask-controller.js (level 2) we want to target based on typescript migration dashboard.

Level 3

• App/scripts/controllers/alert.js
• App/scripts/controllers/app-state.js
• App/scripts/controllers/onboarding.js
• App/scripts/controllers/permissions/index
• app/scripts/detect-multiple-instances.js
• app/scripts/lib/account-tracker.js
• app/scripts/lib/createLoggerMiddleware.js
• app/scripts/lib/createOnboardingMiddleware.js
• app/scripts/lib/createOriginMiddleware.js
• app/scripts/lib/createTabIdMiddleware.js
• app/scripts/lib/rpc-method-middleware/index.js
• app/scripts/lib/stream-utils.js