[Biojava-dev] Error in using GenBankSequenceDB

[Schreiber, Mark]

Hi -

Could you give the ID of the sequence you are trying to extract and the stack trace you get back?

- Mark


> -----Original Message-----
> From: Shuvankar Mukherjee [mailto:shuvankr at hotmail.com] 
> Sent: Friday, 28 November 2003 8:09 p.m.
> To: biojava-dev at biojava.org
> Subject: [Biojava-dev] Error in using GenBankSequenceDB
> 
> 
> Hi,
> While using org.biojava.bio.seq.db.GenbankSequenceDB
> for on-line download of sequences following functions are 
> giving errors:
> 
>   getSequence(String s);
> 
> and
> 
>  getSequences(java.util.Set);
> 
> The URL s are getting properly constructed, but since 
> getSequence() displays the constructed URL (it is tested on 
> the IE and giving complete outout). It is unable to parse the 
> data, and giving a parsing exception, after quite a long time...
> 
> getSequences(Set) is giving multiple lines of parsing 
> exception, and ultimately throws "Out Of Memory" error.
> 
> Could any one comment / suggest a way out for online sequence 
> fetching.
> 
> Shuvankar Mukherjee
> 
> 
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> biojava-dev mailing list
> biojava-dev at biojava.org 
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> 
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