[Biopython-dev] [Bug 2396] New: BioSQL loader does not store sequence level annotations dict

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Tue Nov 13 12:52:46 UTC 2007


           Summary: BioSQL loader does not store sequence level annotations
           Product: Biopython
           Version: 1.44
          Platform: All
        OS/Version: All
            Status: NEW
          Severity: normal
          Priority: P2
         Component: BioSQL
        AssignedTo: biopython-dev at biopython.org
        ReportedBy: biopython-bugzilla at maubp.freeserve.co.uk

Reported on the mailing list by Eric Gibert.

Basically while features have their annotations recorded, most of the top level
SeqRecord's annotations dictionary is ignored.

I'm about to attach a possible patch; this still needs work for the case where
the annotations dictionary contains non-string values (e.g. lists of strings)
and I may want to tweak the reconstruction of the record on retreival from the

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