[BioSQL-l] Abstracts and Full Text on References
mark.schreiber at novartis.com
mark.schreiber at novartis.com
Thu Jul 13 21:56:13 EDT 2006
Hello -
There are no specific plans for biojava although the Reference object
could easily be modified to contain
String getAbstract()
void setAbstract(String abs)
etc.
I wonder if the full text of an article should be a byte[] or BLOB or a
String/ CLOB. Are people more likely to want to store a PDF (usually more
available) or a parsed String?
- Mark
Hilmar Lapp <hlapp at gmx.net>
07/14/2006 12:59 AM
To: mark.schreiber at novartis.com
cc: biosql-l at open-bio.org
Subject: Re: [BioSQL-l] Abstracts and Full Text on References
Sounds reasonable to me. Attribute association wouldn't be desirable
I think (it would only bloat and overload the value field).
The only thing I'd be concerned about is accumulating stuff that is
not supported by the language bindings ... i.e., bioperl doesn't
support this, and so there isn't a way for bioperl-db to do so
either. What are the plans for Biojava?
Are any Biopython or Bioruby folks on this list? Any comments from
those fronts?
-hilmar
On Jul 13, 2006, at 1:23 AM, mark.schreiber at novartis.com wrote:
> Hi -
>
> As an enhancement for a future version of BioSQL it would be nice
> to have
> CLOB rows for abstract and full text (Full text might need to be a
> BLOB
> depending on format). Obviously they could both be null.
>
> Alternatively they could be in another table linked to Reference. I
> don't
> know if it could be done via the term relationship method??
>
> Any thoughts?
>
> - Mark
>
> Mark Schreiber
> Research Investigator (Bioinformatics)
>
> Novartis Institute for Tropical Diseases (NITD)
> 10 Biopolis Road
> #05-01 Chromos
> Singapore 138670
> www.nitd.novartis.com
>
> phone +65 6722 2973
> fax +65 6722 2910
>
> _______________________________________________
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> BioSQL-l at lists.open-bio.org
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>
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: Hilmar Lapp -:- Durham, NC -:- hlapp at gmx dot net :
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