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.

Test cases now pass, we have a capture warns asserting for known bad scenarios and use the Test::Builder code to see if we want to do to screen warning for test cases. Not sure how un # lines in TAP are dealt with; we may want to substitute STDOUT/STDERR for something which can delegate to Test::Builder for note()

Trying to improve the current test cases. Accidentally caused some issues from rerunning the code multiple times as well

[ENSCORESW-238]. Highlighted by Ken Youens-Clark on dev. We call show_valid_species() without a reference to $self

Script used to decode what canonical assignment says has occured during a run. The script accounts for most issues apart from those nasty ones in which case you must firgure that out yourself.

idiomatic on experiencing an unexpected system call failure in this
file than die.

and you don't want to die.

pipeline and run them on the LSF.