[Bioperl-guts-l] [Bug 2455] New: Bio::Assembly::IO::ace doesn't create Bio::Assembly::Singlet objects

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Wed Feb 20 17:56:12 EST 2008


http://bugzilla.open-bio.org/show_bug.cgi?id=2455

           Summary: Bio::Assembly::IO::ace doesn't create
                    Bio::Assembly::Singlet objects
           Product: BioPerl
           Version: main-trunk
          Platform: PC
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Core Components
        AssignedTo: bioperl-guts-l at bioperl.org
        ReportedBy: florent.angly at gmail.com


Bio::Assembly::IO::ace is the driver to parse Phrap ACE files. The
Bio::Assembly::Scaffold object returned is supposed to contain
Bio::Assembly::Contigs as well as Bio::Assembly::Singlet objects.

However, the singlets are counted as contigs containing one sequence instead of
being singlets.

Tested on the SVN code.


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