@owais.hussain there was some discussion on this thread: Suggestions to model marking an observation as "Abnormal"
My understanding is that if you’re running MySQL 5.7+ then you can just manually add those column via SQL prior to doing the OpenMRS upgrade, and MySQL will magically do it in the background. It will still take a long time, but you should be able to leave OpenMRS running while this happens. (I haven’t personally tested this, however. It would be great if you can test this and share the results so that we know for sure!)