He's 'having a rough time (of it)'. = He's 'going through a rough time'. [=he is having a difficult time; his life has been difficult recently]
The project still has a few 'rough edges'. [=the project still has a few things that need to be changed or finished]
Don't 'be so rough on them' [=don't punish or criticize them so harshly] for making a mistake.
(..) was yesterday. But instead, you decided to go get drunk with the woman who taught you how to fuck when you were a child. The going gets rough, and you go running to her. I thought you were better than that. It wasn't like that. Did you sleep with her? (..)2018 Fifty Shades Freed