when counting features, do not use strict lower/higher

for coord_system, check rank and name

methods are cleaner
added length check to decide if it is the same region

rather than CREATE TABLE SELECT.  This way we retain the primary key
etc.

for method transcript_display_xref_sources, updated the ignore setup to be consistent with refactoring of DisplayXrefs.pm

Making sure multiple includes of the registry does not result in major issues with error detection (earlier work suggested a possible issue with this)

password is not always required

We can now set a reconnection timeout outside of the normal realms of MySQL disconnect/reconnect. This means we have something closer to a pooled connection which stays active for as long as people need it & dies off at the required rate

added UniParc source
added sources for ferret and platyfish

Adding a "print out what would have happened" script to the checkout; could be rolled into the main script in the future. Also extended the options for DNADB and CCDSDB. We also check if we had a DB which contained DNA as not doing so is a very very very bad thing.