OS X needs to repair library to run application
Pop up message everytime i restart my mac
MacBook Pro with Retina display, iOS 9.3.1
What application?
Does that application run?
Have you booted to Recovery
OS X: About OS X Recovery - Apple Support
and repaired/first aid the startup disk?
Also try booting to Safe Mode and then regular
Try safe mode if your Mac doesn't finish starting up - Apple Support
This is the Mac Pro desktop forum. I requested your post be moved to the MacBook Pro laptop forum or other appropriate forum.