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Jammit: Industrial Strength Asset Packaging for Rails Apps - http://www.railsinside.com/plugins...
Visa, viva, vici! I've got my visa and just passed my viva.
congratulations! - Simon Cockell
Thanks everyone. I'm in the pub making the moat of it. Being mocked for going online too. - Michael Barton from iPod
Drinks all around ;) - Pedro Beltrao
@Michael Congratulations! - Duncan Hull
Congratulations^2! - Bill Hooker
Congratulations - Frank from iPhone
Congratulations Michael ! - Pierre Lindenbaum
What they all said. So where are you off to and to do what? - Neil Saunders
Congratulations! All the best! - Ricardo Vidal
Thank you everyone, was nice to read this morning. - Michael Barton
electronic congrats as well... - Max
How Big is a Nutshell? - http://afreshcup.com/home...
Ruby has the smallest nutshell - Michael Barton
Last day at work.
Angry people in local newspapers - http://apiln.blogspot.com/
@jandot @Stew @dullhunk @bpb @pedrobeltrao @d_swan @mza @sjcockell Thank you everyone for the congratulatory messages.
I'm going to Kentucky to do extremophile genomics using 454. Will be working for my sister so it should be an exciting time.
@d_swan I know what you mean. I remember when I was up all night writing Taverna workflows like it was yesterday.
How to survive a thesis defence - http://www.phys.unsw.edu.au/~jw...
This from a university where they don't do thesis defence, I'd point out ;-) - Neil Saunders
Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima - http://www.citeulike.org/user...
Computational methods for discovering structural variation with next-generation sequencing - http://www.citeulike.org/user...
Applications of genome-scale metabolic reconstructions - http://www.citeulike.org/user...
Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences - http://www.citeulike.org/user...
Shifts in growth strategies reflect tradeoffs in cellular economics - http://www.citeulike.org/user...
Explaining microbial population genomics through phage predation - http://www.citeulike.org/user...
Inferring branching pathways in genome-scale metabolic networks - http://www.citeulike.org/user...
The Way I Work: Jason Fried of 37Signals - http://www.inc.com/magazin...
QUOTE "We rarely have meetings. I hate them. They're a huge waste of time, and they're costly. It's not one hour; it's 10, because you pulled 10 people away from their real work. Plus, they chop your day into small bits, so you have only 20 minutes of free time here or 45 minutes there. Creative people need unstructured time to get in the zone. You can't do that in 20 minutes." - Michael Barton
I wouldn't complain if one day I was part of a company with the 37Signals mentality working in the field of bioinformatics. - Michael Barton
Love this: "Creative people need unstructured time to get in the zone. You can't do that in 20 minutes." No kidding! - Walter Jessen
Ruby gem cache-money looks good for improving activerecord performance via caching - http://github.com/nkallen...
Brain Workshop - a Dual N-Back game - http://brainworkshop.sourceforge.net/
Dealing With Big Data In Bioinformatics - http://www.bioinformaticszen.com/softwar...
Good comments on the post too ... a few interesting counterpoints from the fans of flat files. - Andrew Perry from Android
Come to supercomputing. My whole talk is on this subject ;). Trying to figure out if I should start writing about it before or after - Deepak Singh
I understand the points in the comments about using flat files for better speed. However compared to when I used to use miscellaneous scripts and data files to do my research I find that using a 'Ruby on Rails' type of database-backed approach is much better for me because of the shorter development time and how much easier the code is to maintain. - Michael Barton
@Deepak I did consider mentioning Hadoop/NoSQL (see last paragraph of earlier draft http://bit.ly/ztjS9) as it's obvious to discuss these types of approaches when dealing with very large datasets. However I think these tools do still require a fair amount of work for maintain and use compared with a more standard kind or MySQL approach. I say that because I tried using map/reduce across the university cluster and had quite a few teething problems. - Michael Barton
More generally, "any DB + any ORM" is A Good Thing. I can see why people stick with (My)SQL. It's tried and tested. I find a lot of the newer developments interesting, exciting, fun - but often, "too agile" for real work. Libraries change too fast, documentation (if any) goes out of date, code moves to new repositories, in the space of 3 weeks. - Neil Saunders
@Neil I originally tried using DataMapper instead of ActiveRecord but so many Rails centric libraries assume ORM == ActiveRecord. This meant using DataMapper precluded the use of the factory_girl and shoulda libraries which I have come to find very useful. I think Rails needs to be is truly ORM agnositic and that the current changes in Rails 3.0 doesn't go far enough to address this. - Michael Barton
I agree. I really like DataMapper (and other ORMs - sequel, mongomapper), but using them with Rails components = ugly, not fully-functional hacks, as things stand. Be interesting to see how the new ActiveSupport looks. I'm even considering abandoning Rails for now and just plugging together components myself as required (e.g. ramaze/sinatra if web frontend required). - Neil Saunders
Michael, I am not talking just about Hadoop/NoSQL, but the fundamental challenges of operating at high scale. How you handle disk failures, node failures, approaches to managing that data, etc. The rules change once you are working in the multi TB range (and when I talk Big Data I am mean several TB's). - Deepak Singh
GemCutter becomes the default gem hosting repository - Michael Barton
I wonder if anyone knows of any part-time Bioinformatics work over the next month? I'm waiting for my visa to start a post-doc.
@Stew Once Ruby become main stream I'm going to learn Ioke
Zen and the Art of Ruby Programming :: Add code highlighting to your Google Waves - http://antoniocangiano.com/2009...
Genome evolution and adaptation in a long-term experiment with Escherichia coli - http://www.citeulike.org/user...
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