[Biopython-dev] Releasing (a beta of) Biopython 1.62 this week?

Michiel de Hoon mjldehoon at yahoo.com
Fri Jul 12 09:06:54 UTC 2013

Based on the Biopython deprecation schedule policy, we can remove the following pieces of code in release 1.62:

Bio.Align.__init__: the get_column and add_sequence methods
Bio.Align.Generic: the class Alignment in its entirety
Bio.Graphics.GenomeDiagram._AbstractDraw: the .xcentre and .ycentre properties and their setters in the class AbstractDrawer
Bio.Graphics.GenomeDiagram._Graph: The .centre property and its setter in the class GraphData

Any final objections before we proceed?


 From: Peter Cock <p.j.a.cock at googlemail.com>
To: Biopython-Dev Mailing List <biopython-dev at biopython.org> 
Sent: Tuesday, July 9, 2013 7:53 PM
Subject: [Biopython-dev] Releasing (a beta of) Biopython 1.62 this week?

Dear all,

Given I'm heading off to Germany next week for BOSC and
the CodeFest, it would be good to have Biopython 1.62 out
this week - or at least a beta release.

Having a beta would make sense in terms of trying to get
more testing under Python 3.3, plus the SeqFeature change
with sub_features (previously used for joins etc) being
deprecated in favour of the new CompoundLocation object.

Any thoughts?

Also, I've had a go at updating the main README file and
the Installation.tex file - that probably needs more work
still (e.g. the ReportLab section needs updating).


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