[Biojava-dev] [Bug 2234] New: Error during "rich" conversion of genbank to EMBL format

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2234

           Summary: Error during "rich" conversion of genbank to EMBL format
           Product: BioJava
           Version: unspecified
          Platform: PC
        OS/Version: Windows XP
            Status: NEW
          Severity: normal
          Priority: P2
         Component: seq.io
        AssignedTo: biojava-dev at biojava.org
        ReportedBy: gwaldon at geneinfinity.org


An EMBL file generated by RichSequence.IOTools.writeEMBL is not read by
RichSequence.IOTools.readEMBLDNA. To reproduce, get AY847516 from NCBI (a
CTLA-4 mAb); read with RichSequence.IOTools.readGenbankDNA, write with
writeEMBL, and then read again with readEMBLDNA. An IO exception is thrown at
the first line with the message "error during parsing". The first line has a
suspect null data class (ID   AY847516; linear; mRNA; null; PRI; 362 BP). 
The problem does not appear when AY847516 is queried from EMBL, written and
read in EMBL format (ID   AY847516; linear; mRNA; STD; HUM; 362 BP).

Thanks,
George


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