[Biojava-l] ability to fetch GenBank files?

[Ewan Birney]

On Sun, 17 Mar 2002, Matthew Pocock wrote:

> Hi Mike,
> 
> We don't have a CGI client for fetching genbank, embl or swissprot 
> files. There have been more than a few requests for that functionality 
> recently. There is a BioFetch client (org.biojava.bio.seq.db.biofetch), 
> which may do what you need.

I am about 1 week GenBank should be changing the publicising an
"official" CGI programmatic gateway system. I'll ping NCBI again about
th.. this is the CGI interface you want to code against...



> 
> I'll take a look at porting Bio::DB::BenBank to BioJava this weekend.
> 
> Matthew
> 
> Michael E. Smoot wrote:
> > Hello,
> > 
> > I'm currently thinking about transitioning a cgi script that uses
> > Bioperl's Bio::DB::GenBank code to a Java servlet to streamline a project
> > I'm working on.  My question is whether BioJava provides a class or
> > classes that can accomplish the same thing as Bio::DB::GenBank?
> > Specifically, I'm looking for the ability to fetch a GenBank file from
> > NCBI given either an id or accession number.   I've found the code to
> > parse these files, but not fetch them.
> > 
> > 
> > thanks,
> > Mike
> > 
> > 
> > _______________________________________________
> > Biojava-l mailing list  -  Biojava-l@biojava.org
> > http://biojava.org/mailman/listinfo/biojava-l
> > 
> 
> 
> 
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> 

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Ewan Birney. Mobile: +44 (0)7970 151230, Work: +44 1223 494420
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