http://www.seqahead.it/cost-bari-2013

deploy, ITB CNR

COST-workshop-Bari-2013-20130222

Friday I gave you the URL of the most recent website I’ve realized for my AllBio assignment here at ITB, Bari. The “NGS and non-coding RNA data analysis Workshop” that will be held here in Bari (Italy) in April.

After a slow start, updates and details will be more frequent in the next weeks, so be sure to follow the News section of the website to be kept up-2-date.

CPU choosing

deploy, Hardware

Intel® Xeon E5-4600 quad-CPU diagram

For all of us managing servers for HPC or NGS data analysis the task of choosing a new system, its architecture, the CPU and everything is sometimes a real nightmare. Thousands of acronyms, marketing fluff, soaring benchmarks have most of the time the only result of confuse the poor sysadmin.

So it was with great pleasure that I’ve discovered a nice ‘blog‘ speaking in human language about (blade) servers: http://bladesmadesimple.com →

For example it’s article 4 Socket Blade Server–Which Intel CPU Do You Choose? helped me a lot to better understand the differences between the Intel’s E7 and E5 CPU product lines. With these acquired knowledges now I can dig further in some more technical papers and products’ cheat sheets.

Do you know more resources like this one? Let me know in the comments!

builing a website for a workshop / meeting

deploy, how-to, ITB CNR

So, nearly a month ago I’ve deployed online with the COST Workshop Barcelona 2013 event website, prepared in a fast-and-furious mode since deadline was approaching and the number of things to do for the committee where overwhelming, so they’ve asked me to help.

To realize that I’ve relied on an old friend of mine, WordPress, that once more confirmed to be a perfect choice to have good-looking and functional, vital, websites.

COST-Workshop-Barcelona-2013-20121206

For the template I choose the free (as in speech) Squirrel theme released from InkThemes, which is a feature-reduced version of the full premium themes. But this didn’t worried me since the good design and code it sports in the free version. Also the static home page layout of the theme is really eye-catching with the right choice of opening images.

A design aware use of the widgets and some plugins made the rest possible and easily re-doable. Among those plugins I find that worth a mention are:

Hope you are enjoying this “disclosure;-)

welcome Nilmini

deploy

Last week I started playing around with this website redesign. So you may have noticed some changes around. The background of this is still WordPress powered.

For the template part I choose to use this Nilmini theme from deutch foundry called Elmastudio. This is an inexpensive premium theme that offer a lot of cool functionalities, many of which I think are mandatory in today’s web:

  • Cross-browser compatibility (Chrome, Safari, Firefox, IE 7,8,9, Android, iOS)
  • HTML5 & CSS3
  • modern, minimalist design [OK, that’s a personal preference]
  • Responsive Web Design for viewing on different screen sizes and mobile devices (Tablet PCs, Smart Phones)
  • WordPress Post Formats (tumblr-like blogging)
  • translation-ready, available in English, Dutch/German, French (translation by Benoit Deldicque) and Italian (translation by yours truly :-D )
  • RTL language support

The ones put in evidence are the most notable ones, giving any reader the opportunity to enjoy at it’s best what a website has to offer. Unfortunately many web-resources today are still not ready for this and, at the better, rely on plugins to offer a decent “non desktop” web surfing experience.

Here’s some screenshots of the site overall look (made last sunday, so maybe today something could be slightly different). Let me know in the comments what you think!

ProbCons, download your copy

deploy, ITB CNR

In our Institute we are evaluating the Block Gibbs Sampler for RNA Prediction (RNAG) tool, running an instance on our server.

At the very start of the installation procedure I was lost since a required tool – probcons(1) – was nowhere to be found. It’s home page seems lost in the web and was uncertain if to contact its authors. So I decided to contact RNAG ones asking for help and they were kind enough to send me a copy (fast, and also they wrote to ProbCons’ authors notifying the problem!).

I’ve cleaned the archive file from their compiled executables, since they were not compatibles with some libraries in our 64bit CentOS 5.8 server, so that you too can compile a copy fully compliant with your system. So here’s the download link.


(1) ProbCons: Probabilistic consistency-based multiple sequence alignment

Protocollo Informatico CNR

deploy

Lately I’ve worked alongside with my colleagues in the administrative section of our research support unit to deploy the informatization of our documents’ protocol system following the guidelines provided by the central unit of the Italy’s National Research Council at http://protocollo.cnr.it.

The procedure was not so difficult to follow, but there were some points in the deployment that needed eyes wide open to proceed without issues.

I am curios to see if anybody will need some assistance in their deployment, so I’ll keep comments opened on this post to gather those requests (eventually).