[BioPython] script to extract records from nucleotide database

Peter biopython at maubp.freeserve.co.uk
Wed Nov 14 00:01:45 UTC 2007


Matthew Abravanel wrote:
> Hi Christof and everyone,
> 
> Thanks for all the comments and everything, the OS I am using is NetBSD
> 3.1 , and I think you were right Peter about my biopython version I think it
> was 1.43 instead of the latest 1.44 version.  If I get the latest
> 1.44v ersion  of biopython do you think the code should work or do I
> need to think of something else?

Well, that example code looked like it should have worked on Biopython 
1.43 so I am a little puzzled.  I don't know if anyone else is using 
NetBSD with Biopython, but the import problem could be some sort of 
installation problem.  This is why I was asking about how and where you 
installed Biopython (i.e. did you install from source?)

If you do try Biopython 1.44, watch out for bug 2393, we managed to 
break Bio.GenBank.NCBIDictionary - on the bright side its a one line 
fix: http://bugzilla.open-bio.org/show_bug.cgi?id=2393

Peter




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