/etc/.git/hooks/pre-commit is installed by etckeeper and runs etckeeper pre-commit, which deals with /etc/.etckeeper, including running "git add .etckeeper". Why that file would match a gitignore seems much less important than why git would run that hook in an entirely different git repository.
core.hooksPath
By default Git will look for your hooks in the $GIT_DIR/hooks
directory. Set this to different path, e.g. /etc/git/hooks, and Git
will try to find your hooks in that directory, e.g.
/etc/git/hooks/pre-receive instead of in $GIT_DIR/hooks/pre-receive.
Hmm, the example "/etc/git/hooks" there is very similar to the
"/etc/.git/hooks" used by etckeeper. So my guess is you have
core.hooksPath set globally.
--
see shy jo
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