Other Recent Articles
WikiLIMS and Toxicogenomics
Stephen Edwards was kind enough to provide his talk slides from his “Wiki-Based Data Management System for Toxicogenomics” presentation at the 2010 Bio-IT-World Conference & Expo. Click on the graphic below to download the PDF formatted version of his presentation.
BioITWorld – Slides from HPC Trends Talk
I was originally supposed to moderate the morning session of the IT/Infrastructure conference track but was asked at the list minute to fill in for Phil Butcher who could not make it to Boston because of the volcano-ash disruption of EU-US air travel. The slides from this talk are not really new as they are [...]
BioITWorld Cloud Workshop – Talk Slides
Click on the graphic down below to download the PDF talk slides. This was a short 30 minute talk starting off the 2010 BioITWorld Cloud Computing Workshop. Content-wise it’s very similar to my NHGRI meeting slides except I added more introductory material about cloud segments and definitions.
PGP Universal Server 3 and XenServer 5.5
Background BioTeam is a Massachusetts-based “virtual” company in that all of our employees work from home when not traveling on business. Being from Massachusetts is actually important because as of March 31st, 2010 the state has passed a fairly strict set of laws concerning how companies handle digital data. Without going into the details of [...]
NHGRI Cloud Workshop Slides
NHGRI (the kind folks behind http://www.genome.gov) recently hosted an internal cloud workshop for investigators, directors, program managers and other folks involved in research, funding & grant structures. I was invited to participate and give a short talk to open the morning session that concentrated on cloud technical issues. The slide deck from my ~20min talk [...]
CHI XGEN Short Course Slides
As promised, here are the PDF talk slides from the sessions presented at our Short Course on Data Management Strategies for Next-Generation DNA Sequencing — part of the XGEN Congress held in San Diego.
Updated presentation: BioTeam WikiLIMS Overview
Updated for Feb. 2010, here is the latest overview presentation deck for BioTeam WikiLIMS. Click on the image for the presentation file. Direct link.
Slides from 2010 AIRI Petabyte Challenge Meeting
As promised, talk slides from the presentation made at the 2010 AIRI Petabyte Challenge meeting are posted below. Click on the image or this link to download the slides.
Wrap up on Haiti
I’ve returned to something approximating a normal routine after the trip to Haiti. I’ll admit to the usual disappointment that “everything,” didn’t change. By no means did we fix the country, or even come close (not that such was ever our intent). As on previous trips, we helped a few individuals who needed help. Most [...]
Grid Engine 6.2 on Mac OS X
Installing Grid Engine 6.x on modern versions of Mac OS X (client and server) As of early 2010, Grid Engine is effectively not installable out of the box on modern version of Mac OS X. We have seen this recently with server and client versions of OS X 10.5.* as well as the new Snow [...]
Instead of spending 20 minutes to format an ext3 volume every time you need one, you could just snapshot a ...
Let me add a few remarks about Ext3 as well.
The reason we usually recommend Ext3 instead of XFS is because ...
I'm using these slides to tune SGE 6.2 @ European Space Agency, thanks a lot! 
Great post.
Can you also try our native scale out NFS protocol? Next 3.1 release of Gluster will include it ...
So far my mental architecture is shaping up to be something like this:
Use the ephemeral disks for scratch space and ...
This shows that on-demand HPC still has a ways to go, it is very unfortunate that only ext3 is supported ...
We have had sge62u3 working fine in a 10.5 cluster using cron to startup the sge_execd process on clients. Trying ...
Instead of increasing your disk image size, you could have decreased the memory by writing a very short C program ...