Documentation

Updated PDoc software

Posted on June 26, 2006 | stajich

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. [Read More]

Deobfuscator interface now available

Posted on May 14, 2006 | mauricio

I’m glad to announce the availability of the Deobfuscator interface at the BioPerl website. You can use it at the following URL:

http://bioperl.org/cgi-bin/deob_interface.cgi

Many thanks to Laura Kavanaugh and David Messina for this great contribution to the BioPerl project!

BioPerl-run in FreeBSD

Posted on May 2, 2006 | mauricio

It’s my great pleasure to announce the availability of the BioPerl-run packages (stable & developer releases) for the FreeBSD operating system.

For instructions on how to install BioPerl ports in FreeBSD, please take a look into the Getting Bioperl section of the BioPerl Wiki.

Bioperl ListSummaries for April 12-25

Posted on April 25, 2006 | cjfields

The newest summary of the BioPerl mailing lists has been posted to the wiki:

April 12-25

Post gripes, harrassments, and faint praises at the regular places.

BioPerl Mailing List Summaries

Posted on April 11, 2006 | cjfields

The first of a biweekly summary of BioPerl mailing list summaries has been posted to the wiki:

April 1-11

These will likely be archived on the wiki but may be moved to a more suitable location in the future (maybe to this blog?).

Weekly Mailing List Traffic Summaries

Posted on April 5, 2006 | cjfields

I plan on starting a weekly, possibly biweekly, summary of mailing list traffic. These will be somewhat in the same vein as the Perl5 or Perl6 summaries and will be posted on the blog here and sent to the bioperl-l mail list. Barring another natural disaster here, these should start up next week (covering mail list traffic starting from April 1). The summaries will cover traffic mainly from bioperl-l (the main mail list) but will include biosql-l, since it’s fairly low traffic, and bugs/module updates from bioperl-guts-l. [Read More]

Installation files added to website

Posted on February 16, 2006 | cjfields

Installation instructions for Bioperl have been added to the main Bioperl website. They have been updated with links and tags for the wiki. Currently, both pages are accessible through links from Getting Bioperl and Installing Bioperl; these links will be subject to change. Please correct lins/tags/information as necessary.

BioPerl on Mac OS X using fink

Posted on January 30, 2006 | mauricio

Instructions on how to install BioPerl on Mac OS X have been added to the Wiki, specifically at the Getting Bioperl section. Thanks to Koen van der Drift for contributing with this info. We continue to encourage people who is taking care of creating packages for other platforms (specific Linux distributions, Windows, etc.) to put in the wiki the necessary documentation about installing BioPerl and Perl modules in your favorite OS/distributions. [Read More]

Developer Release in FreeBSD

Posted on December 8, 2005 | mauricio

The Developer Release (1.5.1) of BioPerl has been brought back into the FreeBSD Ports Collection. For instructions on how to install it, please take a look into the Getting Bioperl section of the BioPerl Wiki. We encourage people who is taking care of creating packages for other platforms (specific Linux distributions, Mac OS, Windows, etc.) to put in the wiki the necessary documentation about getting and installing BioPerl releases in your favorite OS/distributions. [Read More]