[Bioperl-l] Bug 1672 - accessing Biosql using OBDA

Hilmar Lapp hlapp at gmx.net
Tue Sep 12 03:22:24 UTC 2006

Hi Brian,

thanks, that's great! Your choice of name and locations sound good,  
OBDAAdaptor would (falsely) suggest that the module is the  
persistence adaptor for bioperl OBDA objects.


On Sep 11, 2006, at 5:55 PM, Brian Osborne wrote:

> Hilmar,
> As mentioned, I’ve worked on this bug, #1672. You’d encouraged me  
> to look at
> the adaptor modules in BioSQL/ as part of the solution but the  
> module I
> wrote and added does not closely resemble the existing adaptors. It
> certainly uses some adaptors as well as BioQuery so it’s very much a
> “standard” bioperl-db module. However I was not sure I wanted to  
> call it
> something like OBDAAdaptor, instead I’ve just called it
> Bio::DB::BioSQL::OBDA. Tell me if I should rename it or put it in  
> some other
> directory, it’s certainly possible that there are subtleties in  
> these module
> names that I’m failing to appreciate.
> Brian O.
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: Hilmar Lapp  -:-  Durham, NC  -:-  hlapp at gmx dot net :

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