Cloned repo, Atom asks to initialize a new project directory

#1

I cloned a repo using this command:

$ git clone https://github.com/me/proj-hope.git .

this gave me the expected result (all of my content from GitHub in Atom), except now in the git tab on Atom I am being asked to ‘initialize a new project directory’. What does that mean and what do I do? I just want to start pushing and pulling etc off of the project I just cloned.

#2

Well, I guess closing and reopening “refreshes” the project and solves the problem. Is there a refresh button?

#3

What happens if, instead of closing Atom, you disable and re-enable the github package?