Visit additional Tabor Communication Publications
November 28, 2012
WASHINGTON, D.C., Nov. 28 – Breaking new ground for scientific computing, two teams of Department of Energy (DOE) scientists have for the first time exceeded a sustained performance level of 10 petaflops (quadrillion floating point operations per second) on the Sequoia supercomputer at the National Nuclear Security Administration’s (NNSA) Lawrence Livermore National Laboratory (LLNL).
A team led by Argonne National Laboratory used the recently developed Hardware/Hybrid Accelerated Cosmology Codes (HACC) framework to achieve nearly 14 petaflops on the 20-petaflop Sequoia, an IBM BlueGene/Q supercomputer, in a record-setting benchmark run with 3.6 trillion simulation particles. HACC provides cosmologists the ability to simulate entire survey-sized volumes of the universe at a high resolution, with the ability to track billions of individual galaxies.
Simulations of this kind are required by the next generation of cosmological surveys to help elucidate the nature of dark energy and dark matter. The HACC framework is designed for extreme performance in the weak scaling limit (high levels of memory utilization) by integrating innovative algorithms, as well as programming paradigms, in a way that easily adapts to different computer architectures. The HACC team is now conducting a fully-instrumented science run with more than a trillion particles on Argonne’s 10-petaflop Mira system, also an IBM BlueGene/Q system.
“The performance of these applications on Mira and Sequoia provides an early glimpse of the transformational science these machines make possible — science important to DOE missions,” said Barbara Helland of DOE’s Office of Science. “By pushing the state-of-the-art, these two teams of scientists are advancing science and also the know-how to use these new resources to produce insight and discovery.”
LLNL, in collaboration with scientists at IBM Research, created a new simulation capability called Cardioid to realistically and rapidly model a beating human heart at near-cellular resolution. The highly scalable code models in exquisite detail the electrophysiology of the human heart, including activation of heart muscle cells and cell-to-cell electrical coupling. Developed to run with high efficiency in the extreme strong-scaling limit, the scientists were able to achieve a performance of nearly 12 petaflops on Sequoia, and demonstrated the ability to model a highly resolved whole heart beating in very nearly real time (67.2 seconds of wall-clock time to model 60 seconds of real time). Using Cardioid, the team performed groundbreaking simulations demonstrating for the first time in a simulation of a whole heart the generation of a reentrant activation pattern that often leads to a kind of arrhythmia known as Torsades de Pointes, which can result in sudden cardiac death. The potential to elucidate detailed mechanisms of arrhythmia will have impact on a multitude of applications in medicine, pharmaceuticals and implantable devices.
“A vital DOE/NNSA mission is to push the state-of-the-art in high performance computing to not only ensure the nation’s security but its technological and economic competitiveness,” said NNSA Advanced Simulation and Computing Director Bob Meisner. “Sequoia and Mira are powerful computational engines that allow our skilled teams to run applications such as Cardioid and HACC at very high levels of performance. What we learn from these early science applications will inform a broad range of scientific computing including our national security applications.”
Sequoia at Livermore and Mira at Argonne represent the third generation of IBM Blue Gene supercomputers. Sequoia, second on the TOP500 list with 98,304 nodes (1.57 million central processing units), and Mira, fourth on the list with 49,152 nodes (786,432 central processing units), allow execution of massive calculations in parallel. Both teams took full advantage of the five levels of parallelism available in the hardware to achieve sustained performance levels of 58.8 percent for Cardioid and an astounding 69.2 percent for HACC of the theoretical peak performance of the machine, as well as near perfect scaling. Strong scaling measures the ability to speed up a problem by using more processors, so that a given simulation finishes in one-hundredth of the time by using 100 times as many processors. Weak scaling measures the ability to increase the size of problem by using more processors, so that in a given time, a simulation 100 times larger is executed by using 100 times as many processors.
DOE’s Office of Science is the single largest supporter of basic research in the physical sciences in the U.S., and is working to address some of the most pressing challenges of our time. For more information, see science.energy.gov.
Established by Congress in 2000, NNSA is a semi-autonomous agency within the U.S. Department of Energy responsible for enhancing national security through the military application of nuclear science. NNSA maintains and enhances the safety, security, reliability and performance of the U.S. nuclear weapons stockpile without nuclear testing; works to reduce global danger from weapons of mass destruction; provides the U.S. Navy with safe and effective nuclear propulsion; and responds to nuclear and radiological emergencies in the U.S. and abroad. Visit www.nnsa.energy.gov for more information.
The Xeon Phi coprocessor might be the new kid on the high performance block, but out of all first-rate kickers of the Intel tires, the Texas Advanced Computing Center (TACC) got the first real jab with its new top ten Stampede system.We talk with the center's Karl Schultz about the challenges of programming for Phi--but more specifically, the optimization...
Although Horst Simon was named Deputy Director of Lawrence Berkeley National Laboratory, he maintains his strong ties to the scientific computing community as an editor of the TOP500 list and as an invited speaker at conferences.
Supercomputing veteran, Bo Ewald, has been neck-deep in bleeding edge system development since his twelve-year stint at Cray Research back in the mid-1980s, which was followed by his tenure at large organizations like SGI and startups, including Scale Eight Corporation and Linux Networx. He has put his weight behind quantum company....
May 16, 2013 |
When it comes to cloud, long distances mean unacceptably high latencies. Researchers from the University of Bonn in Germany examined those latency issues of doing CFD modeling in the cloud by utilizing a common CFD and its utilization in HPC instance types including both CPU and GPU cores of Amazon EC2.
May 15, 2013 |
Supercomputers at the Department of Energy’s National Energy Research Scientific Computing Center (NERSC) have worked on important computational problems such as collapse of the atomic state, the optimization of chemical catalysts, and now modeling popping bubbles.
May 10, 2013 |
Program provides cash awards up to $10,000 for the best open-source end-user applications deployed on 100G network.
May 09, 2013 |
The Japanese government has revealed its plans to best its previous K Computer efforts with what they hope will be the first exascale system...
May 08, 2013 |
For engineers looking to leverage high-performance computing, the accessibility of a cloud-based approach is a powerful draw, but there are costs that may not be readily apparent.
05/10/2013 | Cleversafe, Cray, DDN, NetApp, & Panasas | From Wall Street to Hollywood, drug discovery to homeland security, companies and organizations of all sizes and stripes are coming face to face with the challenges – and opportunities – afforded by Big Data. Before anyone can utilize these extraordinary data repositories, however, they must first harness and manage their data stores, and do so utilizing technologies that underscore affordability, security, and scalability.
04/15/2013 | Bull | “50% of HPC users say their largest jobs scale to 120 cores or less.” How about yours? Are your codes ready to take advantage of today’s and tomorrow’s ultra-parallel HPC systems? Download this White Paper by Analysts Intersect360 Research to see what Bull and Intel’s Center for Excellence in Parallel Programming can do for your codes.
In this demonstration of SGI DMF ZeroWatt disk solution, Dr. Eng Lim Goh, SGI CTO, discusses a function of SGI DMF software to reduce costs and power consumption in an exascale (Big Data) storage datacenter.
The Cray CS300-AC cluster supercomputer offers energy efficient, air-cooled design based on modular, industry-standard platforms featuring the latest processor and network technologies and a wide range of datacenter cooling requirements.