[Biopython-dev] [Bug 1762] New: Bio.GenBank.FeatureParser dislikes valid accessions and locus lines

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

http://bugzilla.open-bio.org/show_bug.cgi?id=1762

           Summary: Bio.GenBank.FeatureParser dislikes valid accessions and
                    locus lines
           Product: Biopython
           Version: Not Applicable
          Platform: PC
               URL: n/a
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Main Distribution
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: jtk at cmp.uea.ac.uk


Parsing a file with the locus line

    LOCUS       U00096

without the further information, as in

    LOCUS       U00096               4639675 bp    DNA     circular BCT

leads to an exception. EMBOSS seqret (and probably other EMBOSS programs)
don't write the additional stuff, so allowing such "truncated" locus lines
would be convenient.

Likewise, the line

    ACCESSION   U00096 AE000111-AE000510

also results in an exception because the parser doesn't accept the "-".



------- You are receiving this mail because: -------
You are the assignee for the bug, or are watching the assignee.