[Biopython-dev] CVS freeze for Biopython 1.50

[Bartek Wilczynski]

Hi Peter,

Looks fine to me.

Thanks for your effort put into this release.
Bio.Motif certainly benefited from refactoring  initiated by your
comments before the release.

cheers
Bartek


On Mon, Apr 20, 2009 at 4:55 PM, Peter <biopython at maubp.freeserve.co.uk> wrote:
> On Mon, Apr 20, 2009 at 1:11 PM, Peter <biopython at maubp.freeserve.co.uk> wrote:
>> That just leaves the official announcement on the news page (which
>> will be echoed onto twitter automatically) and to the mailing lists.
>> I'll circulate a draft after lunch, unless one of our news coordinator
>> volunteers wants to write something?  I realize I should have
>> suggested this earlier as this is short notice, and you are in
>> different time zones, but its worth a try.
>
> And here is my draft - the HTML is just for the links on the news
> site.  Should we add something about the Entrez EFetch change
> ("genbank" to "gb")?
>
> Peter
>
> --
>
> We are pleased to announce Biopython release 1.50, featuring some
> significant additions since Biopython 1.49 was released late last
> year.
>
> <a href="http://bioinf.scri.ac.uk/lp/programs.php#genomediagram">GenomeDiagram</a>
> by Leighton Pritchard has been integrated into Biopython as the
> Bio.Graphics.GenomeDiagram module.
>
> A new module Bio.Motif has been added, which is intended to replace
> the existing Bio.AlignAce and Bio.MEME modules. Also have a look at
> Bio.ExPASy and the revised Prosite and Enzyme parsers.
>
> As noted in a previous news posting, <a
> href="http://biopython.org/wiki/SeqIO">Bio.SeqIO</a> can now read and
> write <a href="http://news.open-bio.org/news/2009/03/biopython-next-gen-sequencing/">FASTQ
> and QUAL files</a> used in second generation sequencing work. In
> connection with this, our <a
> href="http://biopython.org/wiki/SeqRecord">SeqRecord</a> object has a
> new dictionary attribute, letter_annotations, for
> per-letter-annotation information like sequence quality scores or
> secondary structure predictions. Also, the SeqRecord object can now be
> sliced to give a new SeqRecord covering just part of the sequence.
>
> Biopython 1.50 supports Python 2.3, 2.4, 2.5 and 2.6. However, this is
> expected to be the final version to support Python 2.3 (see this <a
> href="http://news.open-bio.org/news/2009/04/2008/11/biopython-and-python-26-and-python-23/">previous
> announcement</a>). Also, Biopython 1.50 should be the last release to
> include our old deprecated parsing infrastructure (Martel and
> Bio.Mindy).
>
> We’ve also updated the <a title="Biopython Tutorial and Cookbook
> (HTML)" href="http://biopython.org/DIST/docs/tutorial/Tutorial.html">Biopython
> Tutorial and Cookbook</a> (also available in <a title="Biopython
> Tutorial and Cookbook (PDF)"
> href="http://biopython.org/DIST/docs/tutorial/Tutorial.pdf">PDF</a>),
> and not just by adding <a title="About the Biopython logo"
> href="http://biopython.org/wiki/Logo">our logo</a> to the cover ;)
>
> Thank you to everyone who tested the <a
> href="http://news.open-bio.org/news/2009/04/biopython-150-beta-released/">Biopython
> 1.50 beta release</a>, and to all our contributors.
>
> Source distributions and Windows installers are available from the <a
> href="http://biopython.org/wiki/Download">downloads</a> page on the <a
> href="http://biopython.org/">Biopython website (biopython.org)</a>.
>
> -Peter on behalf of the Biopython developers
>
> _______________________________________________
> Biopython-dev mailing list
> Biopython-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/biopython-dev
>
>



-- 
Bartek Wilczynski
==================
Postdoctoral fellow
EMBL, Furlong group
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