This greatly helps with memory management on applications that
may want to daemonize and open/close database several times.

Also the lifetime and "owner" of memory for all data is now
explicitly bound to owning struct apk_database, which might
be helpful when writing language bindings. As side effect, the
interned "atoms" are unique only within what apk_database, so
comparing packages from different apk_database may not work
as expected.

Fixes #10697