init-db: create sqlite database 2.36

When creating a new repository, create a SQLite3 database in the git
directory. This database currently stores objects, refs, and the HEAD
pointer.

The upstream implementation mixes filesystem and system checks,
configuration updating, template copying, and creating the "objects" and
"refs" directories. A future revision of this patch should split this
logic apart such that the SQLite3 implementation can omit these directories.

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