The basic structure of each function is courtesy of arrbee.

This adds an API to amend an existing commit, basically a shorthand
for creating a new commit filling in missing parameters from the
values of an existing commit.  As part of this, I also added a new
"sys" API to create a commit using a callback to get the parents.
This allowed me to rewrite all the other commit creation APIs so
that temporary allocations are no longer needed.

We don't actually pass the old value yet.

Add a parameter to the backend to allow checking for the old symbolic
target.

Allow updating references if the old value matches the given one.

Reference operations with log

This renames git_vector_free_all to the better git_vector_free_deep
and also contains a couple of memory leak fixes based on valgrind
checks.  The fixes are specifically: failure to free global dir
path variables when not compiled with threading on and failure to
free filters from the filter registry that had not be initialized
fully.