Handle case where an orginization is private but a user who is not a
member of the orgninization has been added as a collaborator of a repo
within that org
Fixes#6962
* fix org visibility bug
* fix permission check
* add integration tests
* fix tests
* change test user name for easier maintainance and fix test
* fix test git repo name
zeripath
mrsdizzie
Lunny Xiao