I have a git repo in ~/.janus/ with a bunch of submodules in it. I want to add a submodule in ~/.janus/snipmate-snippets/snippets/, but when I run
~/.janus/
~/.janus/snipmate-snippets/snippets/
You go into ~/.janus and run:
~/.janus
git submodule add snipmate-snippets/snippets/
If you need more information about submodules (or git in general) ProGit is pretty useful.