Exascale Computing Challenges
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2020 ALCF Science Report
ARGONNE LEADERSHIP 2020 COMPUTING FACILITY Science On the cover: A snapshot of a visualization of the SARS-CoV-2 viral envelope comprising 305 million atoms. A multi-institutional research team used multiple supercomputing resources, including the ALCF’s Theta system, to optimize codes in preparation for large-scale simulations of the SARS-CoV-2 spike protein that were recognized with the ACM Gordon Bell Special Prize for HPC-Based COVID-19 Research. Image: Rommie Amaro, Lorenzo Casalino, Abigail Dommer, and Zied Gaieb, University of California San Diego 2020 SCIENCE CONTENTS 03 Message from ALCF Leadership 04 Argonne Leadership Computing Facility 10 Advancing Science with HPC 06 About ALCF 12 ALCF Resources Contribute to Fight Against COVID-19 07 ALCF Team 16 Edge Services Propel Data-Driven Science 08 ALCF Computing Resources 18 Preparing for Science in the Exascale Era 26 Science 28 Accessing ALCF GPCNeT: Designing a Benchmark 43 Materials Science 51 Physics Resources for Science Suite for Inducing and Measuring Constructing and Navigating Hadronic Light-by-Light Scattering Contention in HPC Networks Polymorphic Landscapes of and Vacuum Polarization Sudheer Chunduri Molecular Crystals Contributions to the Muon 30 2020 Science Highlights Parallel Relational Algebra for Alexandre Tkatchenko Anomalous Magnetic Moment Thomas Blum 31 Biological Sciences Logical Inferencing at Scale Data-Driven Materials Sidharth Kumar Scalable Reinforcement-Learning- Discovery for Optoelectronic The Last Journey Based Neural Architecture Search Applications -
Mapping Our Genes—Genome Projects: How Big? How Fast?
Mapping Our Genes—Genome Projects: How Big? How Fast? April 1988 NTIS order #PB88-212402 Recommended Citation: U.S. Congress, Office of Technology Assessment, Mapping Our Genes-The Genmne Projects.’ How Big, How Fast? OTA-BA-373 (Washington, DC: U.S. Government Printing Office, April 1988). Library of Congress Catalog Card Number 87-619898 For sale by the Superintendent of Documents U.S. Government Printing Office, Washington, DC 20402-9325 (order form can be found in the back of this report) Foreword For the past 2 years, scientific and technical journals in biology and medicine have extensively covered a debate about whether and how to determine the function and order of human genes on human chromosomes and when to determine the sequence of molecular building blocks that comprise DNA in those chromosomes. In 1987, these issues rose to become part of the public agenda. The debate involves science, technol- ogy, and politics. Congress is responsible for ‘(writing the rules” of what various Federal agencies do and for funding their work. This report surveys the points made so far in the debate, focusing on those that most directly influence the policy options facing the U.S. Congress, The House Committee on Energy and Commerce requested that OTA undertake the project. The House Committee on Science, Space, and Technology, the Senate Com- mittee on Labor and Human Resources, and the Senate Committee on Energy and Natu- ral Resources also asked OTA to address specific points of concern to them. Congres- sional interest focused on several issues: ● how to assess the rationales for conducting human genome projects, ● how to fund human genome projects (at what level and through which mech- anisms), ● how to coordinate the scientific and technical programs of the several Federal agencies and private interests already supporting various genome projects, and ● how to strike a balance regarding the impact of genome projects on international scientific cooperation and international economic competition in biotechnology. -
FY 1982 Submission Provided
DRAFT DOE/FE-0033 Previous No. DOE/ER-0102 ENERGY MATERIALS COORDINATING COMMITTEE (EMACC) Fiscal Year 1982 March 1983 ANNUAL TECHNICAL REPORT U.S. Department of Energy Washington, D.C. 20545 DRAFT DOE/FE-0033 Previous No. DOE/ER-0102 ENERGY MATERIALS COORDINATING COMMITTEE (EMACC) Fiscal Year 1982 March 1983 ANNUAL TECHNICAL REPORT U.S. Department of Energy TABLE OF CONTENTS Page No. INTRODUCTION ........................................................ 1 Fiscal Year 1982 Activities ....................................... 2 Materials Funding Trends in the Department of Energy .............. 6 PROGRAM DESCRIPTIONS ................................................ 11 - Office of Conservation and Renewable Systems .................... 14 * Office of Building Energy Research Development .............. 14 * Energy Conversion and Utilization Technologies .............. 15 * Division of Energy Storage Technology - Electrochemical Storage Branch .............................. 16 * Office of Vehicle and Engine R&D ............................ 17 * Office of Industrial Programs ............................... 18 * Biomass Energy Technology Division - Biological Hydrogen Program .......................................... 18 * Division of Ocean Energy Technology - Ocean Thermal Energy Conversion Program ................................. 19 * Office of Solar Energy/Photovoltaics Energy - Technology - Materials Research ........................... 20 * Wind Energy Technology Division - Large Wind Turbine Research and Technology Development ........................ -
Biology at the Exascale
Biology at the Exascale Advances in computational hardware and algorithms that have transformed areas of physics and engineering have recently brought similar benefits to biology and biomedical research. Contributors: Laura Wolf and Dr. Gail W. Pieper, Argonne National Laboratory Biological sciences are undergoing a revolution. High‐performance computing has accelerated the transition from hypothesis‐driven to design‐driven research at all scales, and computational simulation of biological systems is now driving the direction of biological experimentation and the generation of insights. As recently as ten years ago, success in predicting how proteins assume their intricate three‐dimensional forms was considered highly unlikely if there was no related protein of known structure. For those proteins whose sequence resembles a protein of known structure, the three‐dimensional structure of the known protein can be used as a “template” to deduce the unknown protein structure. At the time, about 60 percent of protein sequences arising from the genome sequencing projects had no homologs of known structure. In 2001, Rosetta, a computational technique developed by Dr. David Baker and colleagues at the Howard Hughes Medical Institute, successfully predicted the three‐dimensional structure of a folded protein from its linear sequence of amino acids. (Baker now develops tools to enable researchers to test new protein scaffolds, examine additional structural hypothesis regarding determinants of binding, and ultimately design proteins that tightly bind endogenous cellular proteins.) Two years later, a thirteen‐year project to sequence the human genome was declared a success, making available to scientists worldwide the billions of letters of DNA to conduct postgenomic research, including annotating the human genome. -
US Neutron Facility Development in the Last Half-Century: a Cautionary Tale
Phys. Perspect. Ó 2015 The Author(s). This article is published with open access at Springerlink.com DOI 10.1007/s00016-015-0158-8 Physics in Perspective US Neutron Facility Development in the Last Half-Century: A Cautionary Tale John J. Rush* Large multi-user facilities serve many thousands of researchers in fields from particle physics to fundamental biology. The great expense—up to billions of current-day dollars— and the complexity of such facilities required access to extensive engineering and research infrastructures, most often found at national laboratories and the largest research univer- sities. Although the development of such facilities has been largely successful and the research results unique and often spectacular, the processes for choosing, funding, and locating them were complex and not always productive. In this review, I describe the troubled efforts over the past fifty years to develop neutron research facilities in the United States. During this period, the US has moved from a preeminent position in neutron-based science to a lesser status with respect to Europe. Several major US centers of excellence have been shut down and replaced with more focused capabilities. I compare the US efforts in neutron facilities with parallel developments in Europe and Asia, discuss the reasons for this state of affairs, and make some suggestions to help prevent similar consequences in the future. Key words: neutron research; national laboratories; Department of Energy; National Institute of Standards and Technology; research reactors; spallation neutron sources; Institut Laue-Langevin; National Academy of Sciences. Introduction A major element in the great expansion both of US and international science since the Second World War has been the development of large multi-user facilities to serve many thousands of researchers around the world with applications in almost all fields, ranging from particle physics to fundamental biology. -
ECP Software Technology Capability Assessment Report
ECP-RPT-ST-0001-2018 ECP Software Technology Capability Assessment Report Michael A. Heroux, Director ECP ST Jonathan Carter, Deputy Director ECP ST Rajeev Thakur, Programming Models & Runtimes Lead Jeffrey Vetter, Development Tools Lead Lois Curfman McInnes, Mathematical Libraries Lead James Ahrens, Data & Visualization Lead J. Robert Neely, Software Ecosystem & Delivery Lead July 1, 2018 DOCUMENT AVAILABILITY Reports produced after January 1, 1996, are generally available free via US Department of Energy (DOE) SciTech Connect. Website http://www.osti.gov/scitech/ Reports produced before January 1, 1996, may be purchased by members of the public from the following source: National Technical Information Service 5285 Port Royal Road Springfield, VA 22161 Telephone 703-605-6000 (1-800-553-6847) TDD 703-487-4639 Fax 703-605-6900 E-mail [email protected] Website http://www.ntis.gov/help/ordermethods.aspx Reports are available to DOE employees, DOE contractors, Energy Technology Data Exchange representatives, and International Nuclear Information System representatives from the following source: Office of Scientific and Technical Information PO Box 62 Oak Ridge, TN 37831 Telephone 865-576-8401 Fax 865-576-5728 E-mail [email protected] Website http://www.osti.gov/contact.html This report was prepared as an account of work sponsored by an agency of the United States Government. Neither the United States Government nor any agency thereof, nor any of their employees, makes any warranty, express or implied, or assumes any legal liability or responsibility for the accuracy, completeness, or usefulness of any information, apparatus, product, or process disclosed, or represents that its use would not infringe privately owned rights. -
Exascale Workshop Panel Report Meeting
DISCLAIMER This report was prepared as an account of a workshop sponsored by the U.S. Department of Energy. Neither the United States Government nor any agency thereof, nor any of their employees or officers, makes any warranty, express or implied, or assumes any legal liability or responsibility for the accuracy, completeness, or usefulness of any information, apparatus, product, or process disclosed, or represents that its use would not infringe privately owned rights. Reference herein to any specific commercial product, process, or service by trade name, trademark, manufacturer, or otherwise, does not necessarily constitute or imply its endorsement, recommendation, or favoring by the United States Government or any agency thereof. The views and opinions of document authors expressed herein do not necessarily state or reflect those of the United States Government or any agency thereof. Copyrights to portions of this report (including graphics) are reserved by original copyright holders or their assignees, and are used by the Government’s license and by permission. Requests to use any images must be made to the provider identified in the image credits. On the cover: Oak Ridge National Laboratory’s Cray XT5TM supercomputer. The computer, dubbed Jaguar, is the largest in the U.S. Department of Energy’s Office of Science. The Jaguar’s computing power makes it among the most powerful open scientific systems in the world. Future reports in the Scientific Grand Challenges workshop series will feature different Office of Science computers on their covers. EXASCALE WORKSHOP PANEL MEETING REPORT Report from the Meeting Held January 19-20, 2010 Sponsored by the U.S. -
Experimental and Analytical Study of Xeon Phi Reliability
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Lume 5.8 Experimental and Analytical Study of Xeon Phi Reliability Daniel Oliveira Laércio Pilla Nathan DeBardeleben Institute of Informatics, UFRGS Department of Informatics and Los Alamos National Laboratory Porto Alegre, RS, Brazil Statistics, UFSC Los Alamos, NM, US Florianópolis, SC, Brazil Sean Blanchard Heather Quinn Israel Koren Los Alamos National Laboratory Los Alamos National Laboratory University of Massachusetts, UMass Los Alamos, NM, US Los Alamos, NM, US Amherst, MA, US Philippe Navaux Paolo Rech Institute of Informatics, UFRGS Institute of Informatics, UFRGS Porto Alegre, RS, Brazil Porto Alegre, RS, Brazil ABSTRACT 1 INTRODUCTION We present an in-depth analysis of transient faults effects on HPC Accelerators are extensively used to expedite calculations in large applications in Intel Xeon Phi processors based on radiation experi- HPC centers. Tianhe-2, Cori, Trinity, and Oakforest-PACS use Intel ments and high-level fault injection. Besides measuring the realistic Xeon Phi and many other top supercomputers use other forms of error rates of Xeon Phi, we quantify Silent Data Corruption (SDCs) accelerators [17]. The main reasons to use accelerators are their by correlating the distribution of corrupted elements in the out- high computational capacity, low cost, reduced per-task energy put to the application’s characteristics. We evaluate the benefits consumption, and flexible development platforms. Unfortunately, of imprecise computing for reducing the programs’ error rate. For accelerators are also extremely likely to experience transient errors example, for HotSpot a 0.5% tolerance in the output value reduces as they are built with cutting-edge technology, have very high the error rate by 85%. -
Technical Challenges of Exascale Computing
Technical Challenges of Exascale Computing Contact: Dan McMorrow — [email protected] April 2013 JSR-12-310 Approved for public release; distribution unlimited. JASON The MITRE Corporation 7515 Colshire Drive McLean, Virginia 22102-7508 (703) 983-6997 Contents 1 ABSTRACT 1 2 EXECUTIVE SUMMARY 3 2.1 Overview . 4 2.2 Findings . 7 2.3 Recommendations . 9 3 DOE/NNSA COMPUTING CHALLENGES 11 3.1 Study Charge from DOE/NNSA . 11 3.2 Projected Configuration of an Exascale Computer . 13 3.3 Overview of DOE Exascale Computing Initiative . 15 3.4 The 2008 DARPA Study . 17 3.5 Overview of the Report . 19 4 HARDWARE CHALLENGES FOR EXASCALE COMPUTING 21 4.1 Evolution of Moore’s Law . 21 4.2 Evolution of Memory Size and Memory Bandwidth . 25 4.3 Memory Access Patterns of DOE/NNSA Applications . 32 4.4 The Roof-Line Model . 39 4.5 Energy Costs of Computation . 46 4.6 Memory Bandwidth and Energy . 48 4.7 Some Point Designs for Exascale Computers . 50 4.8 Resilience . 52 4.9 Storage . 57 4.9.1 Density . 58 4.9.2 Power . 60 4.9.3 Storage system reliability . 67 4.10 Summary and Conclusions . 71 5 REQUIREMENTS FOR DOE/NNSA APPLICATIONS 73 5.1 Climate Simulation . 73 5.2 Combustion . 78 5.3 NNSA Applications . 89 5.4 Summary and Conclusion . 90 iii 6 RESEARCH DIRECTIONS 93 6.1 Breaking the Memory Wall . 93 6.2 Role of Photonics for Exascale Computing . 96 6.3 Computation and Communication Patterns of DOE/NNSA Appli- cations . 99 6.4 Optimizing Hardware for Computational Patterns . -
The US DOE Exascale Computing Project (ECP) Perspective for the HEP Community
The US DOE Exascale Computing Project (ECP) Perspective for the HEP Community Douglas B. Kothe (ORNL), ECP Director Lori Diachin (LLNL), ECP Deputy Director Erik Draeger (LLNL), ECP Deputy Director of Application Development Tom Evans (ORNL), ECP Energy Applications Lead Blueprint Workshop on A Coordinated Ecosystem for HL-LHC Computing R&D Washington, DC October 23, 2019 DOE Exascale Program: The Exascale Computing Initiative (ECI) Three Major Components of the ECI ECI US DOE Office of Science (SC) and National partners Nuclear Security Administration (NNSA) Exascale Selected program Computing office application Project development ECI Accelerate R&D, acquisition, and deployment to (BER, BES, (ECP) deliver exascale computing capability to DOE NNSA) mission national labs by the early- to mid-2020s Exascale system ECI Delivery of an enduring and capable exascale procurement projects & computing capability for use by a wide range facilities focus of applications of importance to DOE and the US ALCF-3 (Aurora) OLCF-5 (Frontier) ASC ATS-4 (El Capitan) 2 ECP Mission and Vision Enable US revolutions in technology development; scientific discovery; healthcare; energy, economic, and national security ECP ECP mission vision Develop exascale-ready applications Deliver exascale simulation and and solutions that address currently data science innovations and intractable problems of strategic solutions to national problems importance and national interest. that enhance US economic competitiveness, change our quality Create and deploy an expanded and of life, and strengthen our national vertically integrated software stack on security. DOE HPC exascale and pre-exascale systems, defining the enduring US exascale ecosystem. Deliver US HPC vendor technology advances and deploy ECP products to DOE HPC pre-exascale and exascale systems. -
Advanced Scientific Computing Research
Advanced Scientific Computing Research Overview The Advanced Scientific Computing Research (ASCR) program’s mission is to advance applied mathematics and computer science; deliver the most sophisticated computational scientific applications in partnership with disciplinary science; advance computing and networking capabilities; and develop future generations of computing hardware and software tools for science and engineering in partnership with the research community, including U.S. industry. ASCR supports state-of- the-art capabilities that enable scientific discovery through computation. The Computer Science and Applied Mathematics activities in ASCR provide the foundation for increasing the capability of the national high performance computing (HPC) ecosystem by focusing on long-term research to develop innovative software, algorithms, methods, tools and workflows that anticipate future hardware challenges and opportunities as well as science application needs. ASCR’s partnerships and coordination with the other Office of Science (SC) programs and with industry are essential to these efforts. At the same time, ASCR partners with disciplinary sciences to deliver some of the most advanced scientific computing applications in areas of strategic importance to SC and the Department of Energy (DOE). ASCR also deploys and operates world-class, open access high performance computing facilities and a high performance network infrastructure for scientific research. For over half a century, the U.S. has maintained world-leading computing capabilities -
Developing Exascale Computing at JSC
Developing Exascale Computing at JSC E. Suarez, W. Frings, S. Achilles, N. Attig, J. de Amicis, E. Di Napoli, Th. Eickermann, E. B. Gregory, B. Hagemeier, A. Herten, J. Jitsev, D. Krause, J. H. Meinke, K. Michielsen, B. Mohr, D. Pleiter, A. Strube, Th. Lippert published in NIC Symposium 2020 M. Muller,¨ K. Binder, A. Trautmann (Editors) Forschungszentrum Julich¨ GmbH, John von Neumann Institute for Computing (NIC), Schriften des Forschungszentrums Julich,¨ NIC Series, Vol. 50, ISBN 978-3-95806-443-0, pp. 1. http://hdl.handle.net/2128/24435 c 2020 by Forschungszentrum Julich¨ Permission to make digital or hard copies of portions of this work for personal or classroom use is granted provided that the copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. To copy otherwise requires prior specific permission by the publisher mentioned above. Developing Exascale Computing at JSC Estela Suarez1, Wolfgang Frings1, Sebastian Achilles2, Norbert Attig1, Jacopo de Amicis1, Edoardo Di Napoli1, Thomas Eickermann1, Eric B. Gregory1, Bjorn¨ Hagemeier1, Andreas Herten1, Jenia Jitsev1, Dorian Krause1, Jan H. Meinke1, Kristel Michielsen1, Bernd Mohr1, Dirk Pleiter1, Alexandre Strube1, and Thomas Lippert1 1 Julich¨ Supercomputing Centre (JSC), Institute for Advanced Simulation (IAS), Forschungszentrum Julich,¨ 52425 Julich,¨ Germany E-mail: fe.suarez, w.frings, [email protected] 2 RWTH Aachen University, 52062 Aachen, Germany The first Exaflop-capable systems will be installed in the USA and China beginning in 2020. Europe intends to have its own machines starting in 2023. It is therefore very timely for com- puter centres, software providers, and application developers to prepare for the challenge of operating and efficiently using such Exascale systems.