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The BioBox Initiative: Bio-ClusterGrid

The BioBox Initiative: Bio-ClusterGrid. Maddie Wong Technical Marketing Engineer Sun APSTC – Asia Pacific Science & Technology Center. Agenda. Bio-ClusterGrid: Introduction Bio-ClusterGrid: Benefits Solaris 9 Operating Environment Sun Grid Engine (SGE) Grid Engine Portal (GEP)

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The BioBox Initiative: Bio-ClusterGrid

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  1. The BioBox Initiative:Bio-ClusterGrid Maddie Wong Technical Marketing Engineer Sun APSTC – Asia Pacific Science & Technology Center

  2. Agenda • Bio-ClusterGrid: Introduction • Bio-ClusterGrid: Benefits • Solaris 9 Operating Environment • Sun Grid Engine (SGE) • Grid Engine Portal (GEP) • Applications on Bio-ClusterGrid • Current and Future Developments • Demonstration

  3. Bio-ClusterGrid: Introduction • Grid-enabled Bioinformatics Package • Consists of 4 major components • Solaris 9 Operating Environment (April 2003 version) • Collection of 28 Bioinformatics applications pre-installed and pre-configured • Sun Grid Engine • Grid Engine Portal

  4. Bio-ClusterGrid: Benefits • Fast setup (2 ½ – 3 hours) • Installation of Solaris 9 Operating System • Installation of the 28 Bioinformatics applications • Activation of Sun Grid Engine • Installation and Activation of Grid Engine Portal

  5. Bio-ClusterGrid: Benefits • Compared to Manual Installation • Installation Of Solaris 9 ( 30 – 40 minutes) • Downloading, compiling and installation of 28 bioinformatics applications (1 week) • Installation and Configuration of Sun Grid Engine (1 day) • Installation and Configuration of Grid Engine Portal ( 1 day)

  6. Bio-ClusterGrid: Benefits • Huge savings in time for administrators • No need to deal with the complexity of compilation : compilation errors, checking for installing dependencies • SGE and GEP installations can be confusing for unfamiliar user

  7. Solaris 9 Operating Environment • Latest version of Sun Solaris • Supports GNOME 2.0 Desktop Environment • Improvements in Performance, Security

  8. GNOME 2.0 Desktop Environment

  9. Sun Grid Engine • Distributed Resource Management Software • Provides load balancing and resource management • Supports running of parallel applications over a cluster

  10. Grid Engine Portal • Integrated into Sun One Portal Server • Provides a web interface to some applications running on Sun Grid Engine • Remote access from anywhere, anytime and any computer with a Java-enabled browser. • For users who dislike Command-Line Interface (CLI)

  11. Grid Engine Portal • Job Submission done through customised forms for each application • View results of jobs online and/or download to local machine. • Email user when job is completed.

  12. Grid Engine Portal

  13. Submitting BLAST job using GEP

  14. Blast Job Output on GEP

  15. Current Development • Linux and Solaris x86 Versions of Bio-ClusterGrid Future Developments • Bio-Server (Bioinformatics databases server) • Improvements to GEP interface in terms of functionality and user-friendliness

  16. BioBox Engineering Team • Headed by Simon See • Gilbert Thomas • Maddie Wong • Deepak Jeevan Kumar • APSTF Interns (IIT Delhi, India) For more info, visit http://apstc.sun.com.sg/biobox.php

  17. Demonstration For more queries ask-apstc@sun.com

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