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Distributed I/O With ParaMEDIC: Experiences With a Worldwide Supercomputer

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Executive Summary

Achieving high performance for distributed I/O on a wide-area network continues to be an elusive holy grail. Despite enhancements in network hardware as well as software stacks, achieving high-performance remains a challenge. In this paper, the authors' worldwide team took a completely new and non-traditional approach to distributed I/O, called ParaMEDIC: Parallel Metadata Environment for Distributed I/O and Computing, by utilizing application-specific transformation of data to orders-of-magnitude smaller meta-data before performing the actual I/O. Specifically, this paper details their experiences in deploying a large-scale system to facilitate the discovery of missing genes and constructing a genome similarity tree by encapsulating the mpiBLAST sequence-search algorithm into ParaMEDIC.

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