The series index looks at a set of tombstones when querying the id for
a given key, but it does not look when asking for the offset for some
id, even if that id is deleted.
Update the verify tooling to check that the index agrees with the
deleted status of the id, but skip doing the extra checks if the
id is deleted.
This commit fixes an issue with the series file compaction process
where tombstones are lost after compaction and series existence
checks are not correct. This commit also fixes some smaller flushing
issues within the series file that mainly related to testing.