[Bioperl-guts-l] [Bug 2956] New: ranges in EMBL output

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Thu Nov 26 09:15:00 EST 2009


           Summary: ranges in EMBL output
           Product: BioPerl
           Version: 1.4 branch
          Platform: PC
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Bio::SeqIO
        AssignedTo: bioperl-guts-l at bioperl.org
        ReportedBy: pascal.durrens at labri.fr

I saw a problem in the order of the ranges for split:location objects on the
reverse strand in Bio::SeqIO output (EMBL format). The ranges are printed as : 
FT   CDS             complement(join(222260..222280,220762..222180))

instead of being sorted numerically like
FT   CDS             complement(join(220762..222180, 222260..222280))

If I correct the file, it is no longer accepted by Bio::SeqIO
Thanks in advance for your answer
Pascal Durrens

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