BIRCH 2.9

Subject: BIRCH Bioinformatics system, v 2.9 BIRCH 2.9

BIRCH Version 2.9

NEW:

Improvements to BioLegato
Phylip updated to version 3.69
bug fixes

BIRCH: A user-oriented, locally-customizable, bioinformatics system
Brian Fristensky
BMC Bioinformatics 2007, 8:54 (9 February 2007)
[Abstract] [ PDF]

BIRCH is

a comprehensive desktop bioinformatics system which comes with many of the commonly-used bioinformatics programs pre-installed
a framework of tools, files, and documentation for organizing and managing a bioinformatics core facility
an expandable system that allows you to merge 3rd party programs and documentation seamlessly into the standard BIRCH distribution

BIRCH Web site: http://home.cc.umanitoba.ca/~psgendb

FREE DOWNLOAD

New in the current release:

version 2.9

fixed a bug in the script that runs mrtrans that prevented mrtrans from running on some OSX systems.
ribosome - In the previous release, the new version of ribosome was omitted from OSX and linux-intel binaries. The new version is now available on all platforms. (Bugzilla# 1167)
The Phylip package has been upgraded to version 3.69.
The BIRCH launcher now prompts for a working folder when started at the command line. This results in all programs launched from the launcher opening in the working directory, rather than the home directory.
acedb - on some Mac and Linux systems, acedb failed to launch because of missing libraries. These libraries have been added to the current release. (Bugzilla #1156)
bioLegato.0.7.7a:

fixed a bug that prevented canvas from appearing
fixed a bug that prevented sliders in menus from having negative values (Bugzilla# 1160)
fixed a bug that prevented bioLegatfrom reading some legacy .gde files. If the sequence contained newline characters, those were included in the sequence (Bugzilla# 1161)
fixed a bug in which pseudo-GenBank files generated by GDE were not read
fixed a bug which prevented the Documentation menu from being used. (Bugzilla# 1160)

Register your BIRCH site
If you have a BIRCH site and would like it to be listed, on our "List of BIRCH sites" page at

http://home.cc.umanitoba.ca/~psgendb/othersites.html

please send me an email message with the URL and wording for the hypertext link to your BIRCH site.

Feedback

Any feedback, especially regarding ease of installation and administration, will be appreciated.

Removal

If you wish to be removed from this mailing list, please reply to this message with the word 'remove' in the Subject line.