Rewrote 50git-rm

This avoids using git ls-files, and thus avoids encoding problems with
filenames.

Using git add . -u stages all deleted files for deletion.
It also avoids the problem with git rm deleting empty directories.
It might be better to just use git commit -a, but I've taken the
conservative approach.

There are a few other git ls-files uses in etckeeper that I have not fixed,
but they are only shown to the user, and shouldn't cause a crash as this did.
Unfortunatly, git does expose the nasty C-style encoding of such characters
in filenames to the user all over (eg, git commit, git log ..), so fixing
etckeeper to not also expose them is probably a waste of time. And
core.quotepath can be unset by users who want to clean that up.

Bug report: https://bugzilla.altlinux.org/show_bug.cgi?id=24903

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