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Argonne Augments Theta Supercomputer with GPUs to Accelerate Coronavirus Research

ALCF staff members augment Theta with the installation of NVIDIA DGX A100 nodes. (Image: Argonne National Laboratory)

A 15-terabyte solid-state drive offers up to 25 gigabits per second in bandwidth for each node. The compute interconnect comprises 24 Mellanox QM9700 HDR200 40-port switches wired in a non-blocking fat-tree topology.

“This upgrade dramatically amplifies the computational power of theta,” said Mark Fahey, ALCF Director of Operations. “The capabilities it presents will accelerate the complex and diverse workloads that define contemporary scientific computing, integrating data analytics with AI training and learning into a single platform.”

The DGX A100 nodes’ integration into Theta is achieved via the ALCF’s Cobalt HPC scheduler; initial scheduling is available at the node level, with individual GPU-level scheduling coming in the near future.

“This additional hardware, while set to enable important research in its own right, represents a stepping stone to using the advanced GPU-accelerated systems due for arrival in the near future—that is, Polaris and Aurora,” said Katherine Riley, ALCF Director of Science.

Like the Theta upgrade, Polaris, the ALCF’s next machine, features heterogeneous architecture that will utilize both CPUs and GPUs. As many of its capabilities are GPU-derived, Polaris will be a scalable bridge that prepares ALCF users for the Aurora exascale machine.

The augmented Theta hardware was fully dedicated to coronavirus research when deployed in May. While coronavirus research will remain the system’s top priority, Argonne is expanding availability to the broader user community.

“The difference in computational performance accelerated our work almost instantly,” said Arvind Ramanathan, a computational biologist at Argonne who leads a group of researchers aiming to unravel the fundamental biological mechanisms of the virus while also identifying potential therapeutics to treat the disease. “Our data-intensive workloads—which combine AI, machine learning techniques, and molecular dynamics simulations—require significant brute force for the pace of discovery to proceed at a reasonable rate.”

With the impending arrival of Polaris and Aurora—and the exascale era with the latter—that pace will continue to accelerate.

The Argonne Leadership Computing Facility provides supercomputing capabilities to the scientific and engineering community to advance fundamental discovery and understanding in a broad range of disciplines. Supported by the US Department of Energy’s (DOE’s) Office of Science, Advanced Scientific Computing Research (ASCR) program, the ALCF is one of two DOE Leadership Computing Facilities in the nation dedicated to open science.

Argonne National Laboratory seeks solutions to pressing national problems in science and technology. The nation’s first national laboratory, Argonne conducts leading-edge basic and applied scientific research in virtually every scientific discipline. Argonne researchers work closely with researchers from hundreds of companies, universities, and federal, state and municipal agencies to help them solve their specific problems, advance America’s scientific leadership and prepare the nation for a better future. With employees from more than 60 nations, Argonne is managed by UChicago Argonne, LLC for the US Department of Energy’s Office of Science.

The US Department of Energy’s Office of Science is the single largest supporter of basic research in the physical sciences in the United States and is working to address some of the most pressing challenges of our time. For more information, visit https://​ener​gy​.gov/​s​c​ience.

Source: NILS HEINONEN, Argonne

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