[Biopython-dev] Next release (was re: bug 2993)

Michiel De Hoon mdehoon at c2b2.columbia.edu
Tue Nov 20 00:53:41 UTC 2007

> Michiel De Hoon wrote:
> > It's probably a good idea to make a new Biopython release in the near
> > future, after fixing this bug [2393, Bio.GenBank.NCBIDictionary fails
> > with release 1.44].
> I would agree another release would be a good idea - but did you mean
> you wanted to "fix" bug 2393 by avoiding Bio.config.DBRegistry, or just
> go with my "one line fix" for now?

The "one line fix" is OK for current users of Biopython 1.44, but since it
generates a DeprecationWarning I think it should not go into the next

> And, do you want to "tidy" up Bio.WWW before or after this new release? 
> I would vote for before - but we can add a warning to the release notes 
> that this is coming.

I'd like to tidy up Bio.WWW before.

> We should also check what state Tiago's Coalescent support through
> Simcoal2 is at: http://bugzilla.open-bio.org/show_bug.cgi?id=2375

I expect that it will take a couple of weeks to tidy up Bio.WWW et al., so
hopefully there will be enough time for Tiago's Coalescent support to be
finished on time for the next release.


Michiel de Hoon
Center for Computational Biology and Bioinformatics
Columbia University
1150 St Nicholas Avenue
New York, NY 10032

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