[Bioperl-guts-l] [Bug 2132] New: Bio::SeqIO::scf doesn't return header or comments from SCF file.

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Thu Nov 2 10:35:01 EST 2006


http://bugzilla.open-bio.org/show_bug.cgi?id=2132

           Summary: Bio::SeqIO::scf doesn't return header or comments from
                    SCF file.
           Product: Bioperl
           Version: main-trunk
          Platform: Sun
        OS/Version: Solaris
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Bio::SeqIO
        AssignedTo: bioperl-guts-l at bioperl.org
        ReportedBy: nhansen at mail.nih.gov


Bio::SeqIO currently has a non-working "get_header" method in its scf parser
(Bio::SeqIO::scf).  The documentation says get_header should return a reference
to a hash of header fields, but due to past re-working of the module, the
returned hash has all undefined values.  In addition, useful comments in the
SCF file are read by the module, but then not available to the user in any way.


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