In this commit, we add a new database migration required to update old
database to the version of the database that tracks the update index for
the nodes and edge policies. The migration is straight forward, we
simply need to populate the new indexes for the all the nodes, and then
all the edges.
This commit removes a database migration that was added to fix a bug
introduced within the first alpha release. This migration is no longer
needed as the underlying database scheme has changed since then.