when the primary key exists in both database table and master table
(didn't do this before).

look for entries that are the same (sans private key) and report these
in the output and SQL.

Modify formatting of generated SQL.

fixed bug where the dbID of an xref that had already been stored was not set in the object when store was called

for origin overlapping genes take into account exons with negative start and with start greater then end

it looks like the features overlapping origin can be attached to a normal slice as well as to an overlapping origin

make sure the sequence is retrieved for both ends of the region overlapping circular chromosome origin

exons of the genes overlapping chromosome origin are attached to the normal slice, but with negative coordinates

Script to download the ftp files for a particular database using rsync and then process these to install a copy of the database. Hopefully doing all the necessary checks and also zipping and unzipping etc as we go along

Incorrect passing of the DBConnection object to the execute update closure which meant we attempted to call out to attributes which did not exist on that object.

Cannot use the begin_work() command if we have turned off AutoCommit manually. We were doing the same thing

Many improvements to reduce memory usage. Now uses registry, so don't need to specify databases explicitly, just use e.g. -species human

specified.  Patch from Dan S.