[Biojava-dev] Problem with RichSequence.IOTools.readGenbankDNA

[mark.schreiber at novartis.com]

Hi George -

I think someone will fix it promptly but to make sure it gets done and 
doesn't happen again could you submit a bug report with an example 
accession. We recently made a decision that fixes to bug reports should be 
accompanied by JUnit tests that make sure that bug gets tested with every 
new build to avoid the same issues creaping back in.

Thanks,

- Mark

Mark Schreiber
Research Investigator (Bioinformatics)

Novartis Institute for Tropical Diseases (NITD)
10 Biopolis Road
#05-01 Chromos
Singapore 138670
www.nitd.novartis.com
www.dengueinfo.org

phone +65 6722 2973
fax  +65 6722 2910





"george waldon" <gwaldon at geneinfinity.org>
Sent by: biojava-dev-bounces at lists.open-bio.org
03/01/2007 01:01 PM
Please respond to george waldon

 
        To:     biojava-dev at biojava.org
        cc:     (bcc: Mark Schreiber/GP/Novartis)
        Subject:        [Biojava-dev] Problem with RichSequence.IOTools.readGenbankDNA


Hi,

I have a simple problem with the genbank parser. It returns a RichSequence 
with a description that sometimes contains newline characters derived from 
the inital genbank file (keyword DEFINITION and following description, 
which encompasses one or several lines). This is particularly annoying 
when converting to other file formats. I am not familiar with the parsers; 
maybe someone could volonteer to correct this problem.

Thanks,
George
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