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arXiv · 1501.06992

High-Performance I/O: HDF5 for Lattice QCD

Thorsten Kurth·Andrew Pochinsky·Abhinav Sarje·Sergey Syritsyn·Andre Walker-Loud
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Abstract

Practitioners of lattice QCD/QFT have been some of the primary pioneer users of the state-of-the-art high-performance-computing systems, and contribute towards the stress tests of such new machines as soon as they become available. As with all aspects of high-performance-computing, I/O is becoming an increasingly specialized component of these systems. In order to take advantage of the latest available high-performance I/O infrastructure, to ensure reliability and backwards compatibility of data files, and to help unify the data structures used in lattice codes, we have incorporated parallel HDF5 I/O into the SciDAC supported USQCD software stack. Here we present the design and implementation of this I/O framework. Our HDF5 implementation outperforms optimized QIO at the 10-20% level and leaves room for further improvement by utilizing appropriate dataset chunking.

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Thorsten Kurth, Andrew Pochinsky, Abhinav Sarje, Sergey Syritsyn, Andre Walker-Loud. 2015-01-28. High-Performance I/O: HDF5 for Lattice QCD. https://arxiv.org/abs/1501.06992

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