[Biopython-dev] [Bug 2963] New: deprecated genetic code

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

http://bugzilla.open-bio.org/show_bug.cgi?id=2963

           Summary: deprecated genetic code
           Product: Biopython
           Version: 1.52
          Platform: PC
        OS/Version: Linux
            Status: NEW
          Severity: normal
          Priority: P2
         Component: Main Distribution
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: MatatTHC at gmx.de


The genetic codes provided in Bio.Data.CodonTable are 
out of date. E.g. in the mitochondrial echinoderm (id 9) 
genetic code one start codon is missing.

It looks like we have only got Version 3.4 (based on a visual
inspection), but the latest version is Version 3.9. We should
just need to re-run the script to generate these. Also the
original URL noted in the Biopython source code of
ftp://ncbi.nlm.nih.gov/entrez/misc/data/gc.prt is now
ftp://ftp.ncbi.nih.gov/entrez/misc/data/gc.prt


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