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Bioinformatics Advance Access originally published online on March 7, 2007
Bioinformatics 2007 23(9):1175-1177; doi:10.1093/bioinformatics/btm086
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© The Author 2007. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

ABCGrid: Application for Bioinformatics Computing Grid

Ying Sun 1, Shuqi Zhao 1, Huashan Yu 2, Ge Gao 1,* and Jingchu Luo 1,*

1Center for Bioinformatics, National Laboratory of Plant Genetic Engineering and Protein Engineering and College of Life Sciences and 2School of Electronic Engineering and Computer Science, Peking University, Beijing 100871, P.R. China

*To whom correspondence should be addressed.


  Abstract

Summary: We have developed a package named Application for Bioinformatics Computing Grid (ABCGrid). ABCGrid was designed for biology laboratories to use heterogeneous computing resources and access bioinformatics applications from one master node. ABCGrid is very easy to install and maintain at the premise of robustness and high performance. We implement a mechanism to install and update all applications and databases in worker nodes automatically to reduce the workload of manual maintenance. We use a backup task method and self-adaptive job dispatch approach to improve performance. Currently, ABCGrid integrates NCBI_BLAST, Hmmpfam and CE, running on a number of computing platforms including UNIX/Linux, Windows and Mac OS X.

Availability: The source code, executables and documents can be downloaded from http://abcgrid.cbi.pku.edu.cn

Contact: abcgrid{at}mail.cbi.pku.edu.cn

Associate Editor: Golan Yona

Received on January 16, 2007; revised on February 23, 2007; accepted on February 28, 2007

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