[BioPython] Concerns the update of BioSQL.taxon table

[Peter]

Hi Eric,

Your issue is almost certainly due to switching from Biopython 1.44 to
1.45, rather than from a prerelease BioSQL to the recently released
BioSQL 1.0.0.

For background, you should read Bug 2422 and the BioSQL thread it points to.
http://bugzilla.open-bio.org/show_bug.cgi?id=2422

Biopython 1.44 never recorded the taxon id (and therefore didn't use
the taxon/taxon_name tables)
Biopython 1.45 does record the taxon id, and attempts to fill in
missing taxon/taxon_name entries

I'm a little unclear on what is going wrong for you.  Did you pre-load
the NCBI taxonomy for example?  The script you are talking about, is
this your own?

Peter