Patch-id does not require a repository because it is just
processing the incoming diff on stdin, but it may look at
git config for keys like patchid.stable.

Even though we do not setup_git_directory(), this works from
the top-level of a repository because we blindly look at
".git/config" in this case. But as the included test
demonstrates, it does not work from a subdirectory.

We can fix it by using RUN_SETUP_GENTLY. We do not take any
filenames from the user on the command line, so there's no
need to adjust them via prefix_filename().
Signed-off-by: NJeff King <peff@peff.net>
Signed-off-by: NJunio C Hamano <gitster@pobox.com>