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Are you going to ISMB/BOSC 2007? July 9, 2007

If you’ll be at BOSC or ISMB - please see this page and sign your name if you would like to try and meet up.  We’ll do a developer’s dinner as well as have a BoF.

http://bioperl.org/wiki/BOSC2007_Meetup

Hey what’s happening?

So Mailing list summaries have stopped because we need someone else to help post these summaries. Not a light job unfortunately. If you are interested, please post to the mailing list or contact Jason, Sendu, or Chris for more details. This is one way you can help BioPerl without contributing code if you aren’t comfortable with that type of commitment.

Two things that have been discussed on the mailing list lately are:

If you have an opinion about this - please join the discussion on the mailing list.

HOWTO automate tree drawing June 15, 2007

I updated the Trees HowTo with some code demonstrating how to automatically generate postscript trees from newick or nexus tree files. This uses the Bio::Tree::Draw::Cladogram module that will draw Phylograms or Cladograms. With a few unix tools (eps2png and epstopdf [part of TeX]) you can generate png and pdf files automatically making this an easy addition to phylogenetic pipelines that generate webpages as well as stand alone applications.

mediawiki updated June 14, 2007

Updated mediawiki to 1.10

Did a bulk creation of a number of modules wiki pages for modules that had been previously created but not added to the wiki. Added them with default module templates.

Bioperl 1.5.2 Release December 6, 2006

I’m proud to announce the final release of Bioperl 1.5.2. Full details are available at http://www.bioperl.org/wiki/Release_1.5.2

RC5 for 1.5.2 November 27, 2006

Sendu has posted 1.5.2 RC5. There may be a few more kinks to work out, so try this release and report if there are problems with the tests.

RC 1.5.3 November 9, 2006

Sendu has announced that Release Candidate 3 is available for download and testing. This may be the last RC before the 1.5.2 release so give it a whirl and speak up with any problems or concerns.

Mediawiki updated

Bioperl wiki is now running Mediawiki 1.8.2.
nothing too different under the hood at this point, the mediawiki people probably have more to say in the release-notes.

Next BioPerl Release August 10, 2006

We are currently planning a timetable for the next few Bioperl releases, including the next developer release (v1.5.2), the next stable release (1.6) and beyond. Users are welcome to add requests (within reason!), donate code, etc. Lots of changes in store!

The release schedule can be found here. In order to add comments, you will be required to sign up for an account on the BioPerl wiki.

Updated PDoc software June 26, 2006

Raphaël Leplae has updated the Pdoc software to have an improved stylesheet and fix several bugs including problems rendering Bio::DB::Fasta. Thanks a lot Raphaël and Patrick Meidl for getting the bugs reported and fixed for this nice POD to HTML converter.

You can see the Pdoc for Bioperl packages in action at the doc.bioperl.org site. See the bottom links which are for live code, the frozen version for releases remains, well, frozen.

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