OMPIO: A Modular Software Architecture for MPI I/O

  • Mohamad Chaarawi
  • Edgar Gabriel
  • Rainer Keller
  • Richard L. Graham
  • George Bosilca
  • Jack J. Dongarra
Part of the Lecture Notes in Computer Science book series (LNCS, volume 6960)

Abstract

I/O is probably the most limiting factor on high-end machines for large scale parallel applications as of today. This paper introduces OMPIO, a new parallel I/O architecture for OpenMPI. OMPIO provides a highly modular approach to parallel I/O by separating I/O functionality into smaller units (frameworks) and an arbitrary number of modules in each framework. Furthermore, each framework has a customized selection criteria that determines which module to use depending on the functionality of the framework as well as external parameters.

References

  1. 1.
    Barrett, B., Squyres, J.M., Lumsdaine, A., Graham, R.L., Bosilca, G.: Analysis of the component architecture overhead in Open MPI. In: Proc. of the 12th European PVM/MPI Users’ Group Meeting, Sorrento, Italy, pp. 175–182 (September 2005)Google Scholar
  2. 2.
    Chaarawi, M.: Optimizing Parallel I/O Operations for High Performance Computing. Ph.D. thesis, Department of Computer Science, University of Houston (2011)Google Scholar
  3. 3.
    Chaarawi, M., Squyres, J.M., Gabriel, E., Feki, S.: A tool for optimizing runtime parameters of open MPI. In: Lastovetsky, A., Kechadi, T., Dongarra, J. (eds.) EuroPVM/MPI 2008. LNCS, vol. 5205, pp. 210–217. Springer, Heidelberg (2008)CrossRefGoogle Scholar
  4. 4.
    Coloma, K., Ching, A., Choudhary, A., Liao, W., Ross, R., Thakur, R., Ward, L.: A New Flexible MPI Collective I/O Implementation. In: Proceedings of the 2006 IEEE International Conference on Cluster Computing, pp. 1–10 (2006)Google Scholar
  5. 5.
    Gabriel, E., Fagg, G.E., Bosilca, G., Angskun, T., Dongarra, J., Squyres, J.M., Sahay, V., Kambadur, P., Barrett, B.W., Lumsdaine, A., Castain, R.H., Daniel, D.J., Graham, R.L., Woodall, T.S.: Open MPI: Goals, concept, and design of a next generation MPI implementation. In: Kranzlmüller, D., Kacsuk, P., Dongarra, J. (eds.) EuroPVM/MPI 2004. LNCS, vol. 3241, pp. 97–104. Springer, Heidelberg (2004)CrossRefGoogle Scholar
  6. 6.
    Gabriel, E., Fagg, G.E., Dongarra, J.J.: Evaluating dynamic communicators and one-sided operations for current MPI libraries. International Journal of High Performance Computing Applications 19(1), 67–79 (2005)CrossRefGoogle Scholar
  7. 7.
    Gabriel, E., Venkatesan, V., Shah, S.: Towards high performance cell segmentation in multispectral fine needle aspiration cytology of thyroid lesions. Computational Methods and Programs in Biomedicine 98(3), 231–240 (2009)CrossRefGoogle Scholar
  8. 8.
    Gropp, W., Lusk, E., Doss, N., Skjellum, A.: A high-performance, portable implementation of the MPI message passing interface standard. Parallel Computing 22(6), 789–828 (1996)CrossRefMATHGoogle Scholar
  9. 9.
    Kimpe, D., Ross, R., Vandewalle, S., Poedts, S.: Transparent log-based data storage in MPI-IO applications. In: Cappello, F., Herault, T., Dongarra, J. (eds.) PVM/MPI 2007. LNCS, vol. 4757, pp. 233–241. Springer, Heidelberg (2007)CrossRefGoogle Scholar
  10. 10.
    Kulkarni, K., Gabriel, E.: Evaluating Algorithms for Shared File Pointer Operations in MPI I/O. In: Allen, G., Nabrzyski, J., Seidel, E., van Albada, G.D., Dongarra, J., Sloot, P.M.A. (eds.) ICCS 2009. LNCS, vol. 5544, pp. 280–289. Springer, Heidelberg (2009)CrossRefGoogle Scholar
  11. 11.
    Lofstead, J., Zheng, F., Klasky, S., Schwan, K.: Adaptable, metadata rich IO methods for portable high performance IO. In: Proc. of IPDPS 2009, Rome, Italy, May 25-29 (2009)Google Scholar
  12. 12.
    Message Passing Interface Forum: MPI-2.2: Extensions to the Message Passing Interface (September 2009), http://www.mpi-forum.org
  13. 13.
    Ross, R.: Parallel I/O Benchmarking Consortium, http://www.mcs.anl.gov/research/projects/pio-benchmark
  14. 14.
    Ross, R., Nurmi, D., Cheng, A., Zingale, M.: A Case Study in Application I/O on Linux Clusters. In: ACM/IEEE Supercomputing Conference, Denver, CO, USA (2001)Google Scholar
  15. 15.
    Thakur, R., Gropp, W., Lusk, E.: An Abstract-Device Interface for Implementing Portable Parallel-I/O Interfaces. In: Proc. of the 6th Symposium on the Frontiers of Massively Parallel Computation, pp. 180–187. IEEE Computer Society Press, Los Alamitos (1996)CrossRefGoogle Scholar
  16. 16.
    Thakur, R., Gropp, W., Lusk, E.: On implementing MPI-IO portably and with high performance. In: Proc. of the 6th Workshop on I/O in Parallel and Distributed Systems, pp. 23–32 (1999)Google Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2011

Authors and Affiliations

  • Mohamad Chaarawi
    • 1
  • Edgar Gabriel
    • 1
  • Rainer Keller
    • 2
  • Richard L. Graham
    • 3
  • George Bosilca
    • 4
  • Jack J. Dongarra
    • 4
  1. 1.Department of Computer ScienceUniversity of HoustonHoustonUSA
  2. 2.High Performance Computing Center Stuttgart (HLRS)StuttgartGermany
  3. 3.Oak Ridge National Laboratory (ORNL)Oak RidgeUSA
  4. 4.Innovative Computing LaboratoryUniversity of TennesseeKnoxvilleUSA

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