[[!comment format=mdwn
 username="http://joeyh.name/"
 ip="4.153.81.112"
 subject="comment 3"
 date="2012-05-30T00:54:38Z"
 content="""
If the subdirectory has a .git, then it's a separate git repo, and inside the directory, all git (and git-annex) commands in it will operate on that nested repo and ignore the outside one.
"""]]
