http://news.open-bio.org/news Open Source Bioinformatics news Mon, 22 Sep 2008 15:06:15 +0000 http://backend.userland.com/rss092 en 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 http://news.open-bio.org/news/2006/12/bioperl-152-release-2/ I am pleased to announce the release of a new website for BioPerl. The site is based on the mediawiki software that was developed for the wikipedia project. We intend the site to be a place for community input on documentation and design for the ... http://news.open-bio.org/news/2006/01/new-bioperl-website/ I am pleased to announce the 1.5.1 developer release of Bioperl. Essential links here Core http://bioperl.org/DIST/bioperl-1.5.1.tar.gz http://bioperl.org/DIST/bioperl-1.5.1.zip http://bioperl.org/DIST/bioperl-1.5.1.tar.bz2 Run http://bioperl.org/DIST/bioperl-run-1.5.1.tar.gz http://bioperl.org/DIST/bioperl-run-1.5.1.zip http://bioperl.org/DIST/bioperl-run-1.5.1.tar.bz2 Ext http://bioperl.org/DIST/bioperl-ext-1.5.1.tar.gz http://bioperl.org/DIST/bioperl-ext-1.5.1.zip http://bioperl.org/DIST/bioperl-ext-1.5.1.tar.bz2 MD5 sum http://bioperl.org/DIST/SIGNATURES.md5 Please see my mailing list postfor more information. I have appended the Change log from Bioperl core compents below 1.5.1 Developer release o Major problem with how Annotations were written out with Bio::Seq is fixed by reverting to old behavior for Bio::Annotation ... http://news.open-bio.org/news/2005/10/bioperl-151/ Release Candidate 4 for bioperl 1.5.1 (Developer release) core, run, and ext packages is available. Several bug fixes went in last week so I've made what I hope to be the last release candidate before 1.5.1 goes out. More Info: http://portal.open-bio.org/pipermail/bioperl-l/2005-October/019904.html Files are here: http://bioperl.org/DIST/bioperl-1.5.1-rc4.tar.gz http://bioperl.org/DIST/bioperl-1.5.1-rc4.zip http://bioperl.org/DIST/bioperl-run-1.5.1-rc4.tar.gz http://bioperl.org/DIST/bioperl-run-1.5.1-rc4.zip http://bioperl.org/DIST/bioperl-ext-1.5.1-rc4.tar.gz http://bioperl.org/DIST/bioperl-ext-1.5.1-rc4.zip http://news.open-bio.org/news/2005/10/bioperl-151-rc4/ A PopGen HOWTO added to the website for using the population genetics modules in Bioperl. The PAML HOWTO is in-process of being updated to describe the new functionalilty. http://news.open-bio.org/news/2005/03/popgen-howto/ Brian Osborne and James Thompson have written a Bioperl HOWTO for beginners, for those who are interested in learning about Bioperl but have done very little programmming. Topics include creating a Sequence object, I/O and files, retrieving from Genbank, and using the Sequence object. All HOWTOs are published on the bioperl ... http://news.open-bio.org/news/2005/02/beginners-howto/ Bioperl 1.5.0 Developer's release is available for download. =============================================== http://bioperl.org/DIST/bioperl-1.5.0.tar.bz2 425ac55ecbb4339b7b532ba6d429bb40 http://bioperl.org/DIST/bioperl-1.5.0.tar.gz 172472f0675de9a583432e21c9b1b5fc http://bioperl.org/DIST/bioperl-1.5.0.zip 3febcd2445a7393c65981a6f9f13a9ed We'll update the website to reflect this new release. The odd-numbered releases are called developer releases and are not deposited on CPAN. Please note that the API in 1.5.0 may change before the ... http://news.open-bio.org/news/2005/01/bioperl-150-released/ Release candidate 2 of Bioperl 1.5.0 is ready for downloading and testing. Please report back to the bioperl list with any problems. We would like to make a developer release by the end of January 2005. http://bioperl.org/DIST/bioperl-1.5.0-RC2.tar.gz http://bioperl.org/DIST/bioperl-1.5.0-RC2.tar.bz2 http://bioperl.org/DIST/bioperl-1.5.0-RC2.zip http://news.open-bio.org/news/2005/01/bioperl-15-rc-2/ I just wanted to use the end of the year as a chance to reflect on what we've accomplished in 2004 and think about what 2005 holds for Bioperl. List Message What happened in 2004? First of all, this year has been really has been productive at a level perhaps only appreciated by the folks ... http://news.open-bio.org/news/2004/12/bioperl-2005-summary/ Bioperl developers are preparing a 1.5 release, you can grab the pre-release for testing at http://bioperl.org/DIST. We would greatly appreciate you downloading and testing this code before it is released by running 'make test'. See Aaron's post announcing the RC1 candidate. http://news.open-bio.org/news/2004/11/bioperl-preparing-15-release/