Hello, Please, review the attached draft looking for errors and improvements. The most updated draft version is maintained, and rendered, at [0]. The target publishing date is March 6th, 2008, 12:00 GMT and corrections should be submitted to the debian-publicity list [1] until that deadline, please. Thanks. Andre Felipe Machado [0] http://times.debian.net/1225 [1] http://lists.debian.org/debian-publicity (anyone can post to the list, but only suscribers will receive msg) -------------- http://www.techforce.com.br
Subject: Sanger Institute uses a Debian cluster with 320 TB swap-like at its 1.5 PB storage for human genome sequencing Date: Wed, 03 Mar 2008 21:24:36 -0300 Short: Sanger Institute Debian cluster 320 TB swap 1.5 PB storage Category: success-stories Contributor: andremachado Type: html draft: yes <h1>Wellcome Trust Sanger Institute, UK, uses a Debian cluster with 320 TB swap-like at its 1.5 PB storage for human genome sequencing</h1> <p> <a href="http://www.sanger.ac.uk/";>Wellcome Trust Sanger Institute</a>, <a href="http://en.wikipedia.org/wiki/Hinxton";>Hinxton</a>, <a href="http://en.wikipedia.org/wiki/South_Cambridgeshire";>South Cambridgeshire</a>, UK, runs a 640+ cores Debian GNU / Linux cluster with 1.5 Petabytes of storage, being 320 Terabytes of "live data", like a giant memory swap partition. </p> <p> Each of the 27 robotic computadorized genome sequencers generates 1 TB of image data each three days, at a 2 MB/s rate during a 2 hour run. </p> <p> This amount of data need to be "live" during the sequential and genome analysis, and with the processing needs of the scientific software on <a href="http://www.debian.org/users/org/sangerinstitute.en.html";>the Debian GNU / Linux 640+ cores cluster</a>, the "memory swap-like" must be of 320TB. </p> Antony Cox, PhD, the Head of Sequencing Informatics, and Phil Butcher, the Head of IT at the institude, gave <a href="http://www.guardian.co.uk/technology/2008/feb/28/research.computing";>an interview</a> to The Guardian, presenting the Thousand Genome Project. </p> <p> The institute is accurately sequencing one thousand of individual human genomes to map all of their differences in 0,5% or more of the population sampled, and identify the places involved in the interactions between multiple gene bases that cause different conditions. </p> <p> Given that the human DNA has 3 billion bases, and each sampled 2640 bases fragment must be sequenced between 11 and 30 times to factor out measurement errors, you are at one of the biggest computational efforts of today. </p> <p> The project is unique not only because of dealing with 1.5 PB of storage, but for keeping 320 TB of "swap" for fast comparisons and calculations. </p> <p> <p> According to Butcher, genomics research left the laboratory of glass tubes and went to informatics. The Sanger Institute started this new Debian GNU / Linux project when the world discovered how reliable and useful it can be. But now has to compete for system administrators able to manage large clusters with large-scale distributed filesystems. </p> <p> You may read <a href="http://www.guardian.co.uk/technology/2008/feb/28/research.computing";>the interview</a> for more details. </p> <h2>About the Wellcome Trust Sanger Institute</h2> <p> <a href="http://www.sanger.ac.uk/";>The Wellcome Trust Sanger Institute</a> is one of the world's largest centres for DNA sequencing and analysis. It made the largest single contribution to the sequence of the <a href="http://www.sanger.ac.uk/HGP/";>Human Genome Project</a>, contributed approximately 25% of the <a href="http://www.sanger.ac.uk/Projects/M_musculus/";>mouse genome sequence</a>, is finishing the <a href="http://www.sanger.ac.uk/Projects/D_rerio/";>zebrafish genome sequence</a> as well as making contributions to other model organism sequences, such as <a href="http://www.sanger.ac.uk/Projects/Fungi/";>yeasts</a> and the nematode <a href="http://www.sanger.ac.uk/Projects/C_elegans/";>C. elegans</a>. Institute researchers have also contributed to the sequence of more that 60 finished genomes of bacterial pathogens, such as Salmonella typhi, TB, MRSA and Cdiff, as well as parasites such as those causing malaria, African trypanosomiasis and Leishmaniasis. </p> Investment in <a href="http://www.sanger.ac.uk/Info/News-releases/2007/071206.shtml";>new-technology sequencing</a> will dramatically increase the breadth and depth of genome analysis in humans, model organisms and pathogens. </p> <p> You can contact Wellcome Trust Sanger Institute press Team <a href="http://www.sanger.ac.uk/Teams/Team97/";>here</a>. </p> <h2>About Debian Project</h2> <p>Debian GNU / Linux is <a href="http://www.debian.org/ports/";>one</a> of the <a href="http://www.debian.org/intro/free";>free libre</a> operating systems (GNU/Linux, GNU/Hurd, GNU/NetBSD, GNU/kFreeBSD), developed by more than two thousand <a href="http://asdfasdf.debian.net/~tar/bugstats/?8";>volunteers</a> from <a href="http://www.debian.org/devel/developers.loc";>all over the world</a> who <a href="http://www.debian.org/devel/";>collaborate</a> via the internet on the <a href="http://www.debian.org";>Debian Project</a>.</p> <p>Debian's dedication to <a href="http://www.debian.org/intro/free";>Free Libre Open Source Software</a>, its <a href="http://www.debian.org/devel/constitution";>constitutional</a> non-profit nature, its <a href="http://vote.debian.org/";>open</a> and <a href="http://en.wikipedia.org/wiki/Meritocracy";>meritocratic</a> development model, <a href="http://www.debian.org/intro/organization";>organization</a> and social <a href="http://www.techforce.com.br/index.php/news/linux_blog/scientific_study_about_debian_governance_and_organization";> governance</a> make it <a href="http://www.debian.org/doc/manuals/project-history/";>a first</a> among free libre operating system distributions.</p> <p>The Debian project's key strengths are <a href="http://www.debian.org/devel/people";>its volunteer base</a>, its dedication to the <a href="http://www.debian.org/social_contract";>Debian Social Contract</a>, and its <a href="http://wiki.debian.org/WhyDebianForDevelopers";>commitment</a> to provide the best operating systems attainable, following a strict quality <a href="http://www.debian.org/doc/debian-policy";>policy</a>, working with an established <a href="http://qa.debian.org/";>QA Team</a>. </p> <p> You can <a href="http://www.debian.org/intro/help";>help</a> Debian Project without <a href="http://www.debian.org/devel/join";>joining</a> it and <a href="http://wiki.debian.org/DebianForNonCoderContributors";>even not being a programmer</a>, or being a development and or service <a href="http://www.debian.org/partners/";>partner</a> company or institution at the <a href="http://www.debian.org/partners/partners";>Debian Partner Program</a>, or simply making various <a href="http://www.debian.org/donations";>donations</a> to the Debian Project. </p> <p>Debian Project news, press releases and press coverage can be found from the official Debian wiki <a href="http://wiki.debian.org/News";>page</a>. PR contact at <a href="http://lists.debian.org/debian-publicity";>debian-publicity list</a>. </p>
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