News and Events

2014 2013 2012 2011 2010 2009 2008 2007 2006 2005 2004

March 20th

Issue 7

Dear Consortium Members and Affiliates,

Software updates will be sent to your site on Friday night, March 23. This month, you will receive several significant upgrades, including a new Java version of NMRView which replaces the previous C versions.

Immediately after receiving the software updates this Friday, you will be using the newest installed versions. If there are any problems, please report them (http://www.sbgrid.org/bugs). You can always switch to an older version of the application while we work on your request—just use ‘sbgrid –n’ for more information. Many of these monthly updates and additions are prompted by member requests, so please do not hesitate to request new applications (http://www.sbgrid.org/req).

Please continue reading for details on the software updates and ...

(link to document)

Published March 20, 2007

March Software Updates

The following software upgrades will be available for all branches after the Friday evening update.

Profit, as described by the author, is a "program for performing least squares fits of two protein structures. It performs a very simple and basic function, but allows as much flexibility as possible in performing this procedure. Thus one can specify subsets of atoms to be considered, specify zones to be fitted by number, sequence, or by sequence alignment." We will be updating from version 2.3 to 2.5.3.1. This is the most recent version and fixes numerous bugs.

To start it up from a shell:
profit reference.pdb mobile.pdb

For full user manual, please see:
http://www.bioinf.org.uk/software/profit/doc/


IMOD, a tomographic image reconstruction ...

(link to document)

Published March 20, 2007

Grid News

Our opportunity to join the Open Science Grid is getting closer. We took part in the weekly national conference call last week. Our petition to become an official Virtual Organization in the OSG is now in progress.  Also, we would like to remind you that SBGrid provides access to computational resources to all SBGrid affiliates though a general user program: www.sbgrid.org/gup

(link to document)

Published March 20, 2007

New Member

Congratulations to Hector Viadu, a former post-doc of Tom Walz. Hector established an independent lab at the Department of Chemistry and Biochemistry at UCSD. Please visit his website; the lab is currently accepting new members.

(link to document)

Published March 20, 2007