The BioBox Initiative: Bio-ClusterGrid

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The BioBox InitiativeBio-ClusterGrid

• Maddie Wong
• Technical Marketing Engineer
• Sun APSTC Asia Pacific Science Technology
  Center

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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

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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

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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

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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)

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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

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Solaris 9 Operating Environment

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

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GNOME 2.0 Desktop Environment
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Sun Grid Engine

• Distributed Resource Management Software
• Provides load balancing and resource management
• Supports running of parallel applications over a
  cluster

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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)

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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.

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Grid Engine Portal
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Submitting BLAST job using GEP
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Blast Job Output on GEP
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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

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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/biobo
x.php
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Demonstration
For more queries ask-apstc_at_sun.com