Execution of a Bioinformatics Application in a Joint IRISGrid/EGEE Testbed

  • José Luis Vázquez-Poletti
  • E. Huedo
  • Rubén S. Montero
  • Ignacio M. Llorente
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3911)


This paper describes the execution of a Bioinformatics application over a highly distributed and heterogeneous testbed. This testbed is composed of resources devoted to EGEE and IRISGrid projects and has been integrated by taking advantage of the modular, decentralized and “end-to-end” architecture of the Grid W ay framework. Results show the feasibility of building loosely-coupled Grid environments based only on Globus services, while obtaining non trivial levels of quality of service. Such approach allows a straightforward resource sharing as the resources are accessed by using de facto standard protocols and interfaces.


Triose Phosphate Isomerase Grid Infrastructure Resource Broker Bioinformatics Application Globus Service 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.


Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.


  1. 1.
    Foster, I.: What Is the Grid? A Three Point Checklist. GRIDtoday 1(6) (2002), Available at
  2. 2.
    Baker, M., Buyya, R., Laforenza, D.: Grids and Grid Technologies for Wide-Area Distributed Computing. Software – Practice and Experience 32(15), 1437–1466 (2002)CrossRefMATHGoogle Scholar
  3. 3.
    Allan, R.J., Gordon, J., McNab, A., Newhouse, S., Parker, M.: Building Overlapping Grids. Technical report, University of Cambridge (2003)Google Scholar
  4. 4.
    San José, O., Suárez, L.M., Huedo, E., Montero, R.S., Llorente, I.M.: Resource Performance Management on Computational Grids. In: Proc. 2nd Intl. Symp. Parallel and Distributed Computing (ISPDC 2003), pp. 215–221. IEEE CS, Los Alamitos (2003)CrossRefGoogle Scholar
  5. 5.
    Schopf, J.M., Nitzberg, B.: Grids: The Top Ten Questions. Scientific Programming, special issue on Grid Computing 10(2), 103–111 (2002)CrossRefGoogle Scholar
  6. 6.
    Carpenter, E.B.: RFC 1958: Architectural Principles of the Internet (1996)Google Scholar
  7. 7.
    Schopf, J.M.: Ten Actions when Superscheduling. Technical Report GFD-I.4, Scheduling Working Group – The Global Grid Forum (2001)Google Scholar
  8. 8.
    Huedo, E., Montero, R.S., Llorente, I.M.: A Framework for Adaptive Execution on Grids. Intl. J. Software – Practice and Experience (SPE) 34(7), 631–651 (2004)CrossRefGoogle Scholar
  9. 9.
    Berman, F., Wolski, R., Casanova, H., et al.: Adaptive Computing on the Grid Using AppLeS. IEEE Trans. Parallel and Distributed Systems 14(4), 369–382 (2003)CrossRefGoogle Scholar
  10. 10.
    Buyya, R., Abramson, D., Giddy, J.: A Computational Economy for Grid Computing and Its Implementation in the Nimrod-G Resource Broker. Future Generation Computer Systems 18(8), 1061–1074 (2002)CrossRefMATHGoogle Scholar
  11. 11.
    Frey, J., Tannenbaum, T., Livny, M., Foster, I., Tuecke, S.: Condor/G: A Computation Management Agent for Multi-Institutional Grids. Cluster Computing 5(3), 237–246 (2002)CrossRefGoogle Scholar
  12. 12.
    Vadhiyar, S., Dongarra, J.: A Performance Oriented Migration Framework for the Grid. In: Proc. 3rd Intl. Symp. Cluster Computing and the Grid (CCGrid 2003), pp. 130–137. IEEE CS, Los Alamitos (2003)Google Scholar
  13. 13.
    Huedo, E., Bastolla, U., Montero, R.S., Llorente, I.M.: A Framework for Protein Structure Prediction on the Grid. New Generation Computing 23(4), 277–290 (2005)CrossRefGoogle Scholar
  14. 14.
    Bastolla, U., Moya, A., Viguera, E., van Ham, R.: Genomic Determinants of Protein Folding Thermodynamics in Prokaryotic Organisms. Journal of Molecular Biology 343(5), 1451–1466 (2004)CrossRefGoogle Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2006

Authors and Affiliations

  • José Luis Vázquez-Poletti
    • 1
  • E. Huedo
    • 2
  • Rubén S. Montero
    • 1
  • Ignacio M. Llorente
    • 1
    • 2
  1. 1.Departamento de Arquitectura de Computadores y Automática. Facultad de InformáticaUniversidad Complutense de MadridMadridSpain
  2. 2.Laboratorio de Computación Avanzada, Simulación y Aplicaciones TelemáticasCentro de Astrobiología (CSIC-INTA)Torrejón de ArdozSpain

Personalised recommendations