[BioSQL-l] Error in load_ncbi_taxonomy.pl

[Fields, Christopher J]

On Feb 11, 2012, at 7:36 PM, Hilmar Lapp wrote:

> On Feb 11, 2012, at 6:08 PM, Peter Cock wrote:
> 
>> On Sat, Feb 11, 2012 at 10:15 PM, Hilmar Lapp <hlapp at drycafe.net> wrote:
>>> Indeed. I was thinking that there is a 1.0.2 release that
>>> includes it, but apparently there isn't.
>>> 
>> 
>> The schema itself should be ready - but what else is needed for
>> BioSQL on SQLite to be ready for release? Assorted BioSQL
>> Perl script updates like load_ncbi_taxonomy.pl might need work?
> 
> Yes, at least testing.
> 
>>> It appears that bioperl-db (and thus BioPerl) does not support
>>> the SQlite schema (yet).
>>> 
>> 
>> That would be good, but doesn't need to holdup a BioSQL
>> release, does it?
> 
> 
> No, not at all. Just needs a disclaimer somewhere.
> 
> 	-hilmar

On a possibly related note, were the DBIx::Class-based BioSQL mappings ever developed?  I think one holdup with SQLite was to see is a generic ORM level mapping could be implemented, then maybe add a BioPerl layer over that.

chris