introduction to high performance computing for scientists and engineers chapman hall crc computational science

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Introduction To High Performance Computing For Scientists And Engineers

Author : Georg Hager
ISBN : 1439811938
Genre : Computers
File Size : 65. 71 MB
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Written by high performance computing (HPC) experts, Introduction to High Performance Computing for Scientists and Engineers provides a solid introduction to current mainstream computer architecture, dominant parallel programming models, and useful optimization strategies for scientific HPC. From working in a scientific computing center, the authors gained a unique perspective on the requirements and attitudes of users as well as manufacturers of parallel computers. The text first introduces the architecture of modern cache-based microprocessors and discusses their inherent performance limitations, before describing general optimization strategies for serial code on cache-based architectures. It next covers shared- and distributed-memory parallel computer architectures and the most relevant network topologies. After discussing parallel computing on a theoretical level, the authors show how to avoid or ameliorate typical performance problems connected with OpenMP. They then present cache-coherent nonuniform memory access (ccNUMA) optimization techniques, examine distributed-memory parallel programming with message passing interface (MPI), and explain how to write efficient MPI code. The final chapter focuses on hybrid programming with MPI and OpenMP. Users of high performance computers often have no idea what factors limit time to solution and whether it makes sense to think about optimization at all. This book facilitates an intuitive understanding of performance limitations without relying on heavy computer science knowledge. It also prepares readers for studying more advanced literature. Read about the authors’ recent honor: Informatics Europe Curriculum Best Practices Award for Parallelism and Concurrency

Introduction To High Performance Computing For Scientists And Engineers

Author : Georg Hager
ISBN : 1138470899
Genre :
File Size : 87. 80 MB
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Written by high performance computing (HPC) experts, Introduction to High Performance Computing for Scientists and Engineers provides a solid introduction to current mainstream computer architecture, dominant parallel programming models, and useful optimization strategies for scientific HPC. From working in a scientific computing center, the authors gained a unique perspective on the requirements and attitudes of users as well as manufacturers of parallel computers. The text first introduces the architecture of modern cache-based microprocessors and discusses their inherent performance limitations, before describing general optimization strategies for serial code on cache-based architectures. It next covers shared- and distributed-memory parallel computer architectures and the most relevant network topologies. After discussing parallel computing on a theoretical level, the authors show how to avoid or ameliorate typical performance problems connected with OpenMP. They then present cache-coherent non-uniform memory access (ccNUMA) optimization techniques, examine distributed-memory parallel programming with message passing interface (MPI), and explain how to write efficient MPI code. The final chapter focuses on hybrid programming with MPI and OpenMP. Users of high performance computers often have no idea what factors limit time to solution and whether it makes sense to think about optimization at all. This book facilitates an intuitive understanding of performance limitations without relying on heavy computer science knowledge. It also prepares readers for studying more advanced literature. Read about the authors' recent honor: Informatics Europe Curriculum Best Practices Award for Parallelism and Concurrency.

High Performance Computing

Author : John Levesque
ISBN : 1420077066
Genre : Computers
File Size : 83. 6 MB
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High Performance Computing: Programming and Applications presents techniques that address new performance issues in the programming of high performance computing (HPC) applications. Omitting tedious details, the book discusses hardware architecture concepts and programming techniques that are the most pertinent to application developers for achieving high performance. Even though the text concentrates on C and Fortran, the techniques described can be applied to other languages, such as C++ and Java. Drawing on their experience with chips from AMD and systems, interconnects, and software from Cray Inc., the authors explore the problems that create bottlenecks in attaining good performance. They cover techniques that pertain to each of the three levels of parallelism: Message passing between the nodes Shared memory parallelism on the nodes or the multiple instruction, multiple data (MIMD) units on the accelerator Vectorization on the inner level After discussing architectural and software challenges, the book outlines a strategy for porting and optimizing an existing application to a large massively parallel processor (MPP) system. With a look toward the future, it also introduces the use of general purpose graphics processing units (GPGPUs) for carrying out HPC computations. A companion website at www.hybridmulticoreoptimization.com contains all the examples from the book, along with updated timing results on the latest released processors.

Contemporary High Performance Computing

Author : Jeffrey S. Vetter
ISBN : 9781351103954
Genre : Computers
File Size : 86. 36 MB
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Contemporary High Performance Computing: From Petascale toward Exascale focuses on the ecosystems surrounding the world’s leading centers for high performance computing (HPC). It covers many of the important factors involved in each ecosystem: computer architectures, software, applications, facilities, and sponsors. The first part of the book examines significant trends in HPC systems, including computer architectures, applications, performance, and software. It discusses the growth from terascale to petascale computing and the influence of the TOP500 and Green500 lists. The second part of the book provides a comprehensive overview of 18 HPC ecosystems from around the world. Each chapter in this section describes programmatic motivation for HPC and their important applications; a flagship HPC system overview covering computer architecture, system software, programming systems, storage, visualization, and analytics support; and an overview of their data center/facility. The last part of the book addresses the role of clouds and grids in HPC, including chapters on the Magellan, FutureGrid, and LLGrid projects. With contributions from top researchers directly involved in designing, deploying, and using these supercomputing systems, this book captures a global picture of the state of the art in HPC.

High Performance Visualization

Author : E. Wes Bethel
ISBN : 9781439875735
Genre : Computers
File Size : 48. 27 MB
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Visualization and analysis tools, techniques, and algorithms have undergone a rapid evolution in recent decades to accommodate explosive growth in data size and complexity and to exploit emerging multi- and many-core computational platforms. High Performance Visualization: Enabling Extreme-Scale Scientific Insight focuses on the subset of scientific visualization concerned with algorithm design, implementation, and optimization for use on today’s largest computational platforms. The book collects some of the most seminal work in the field, including algorithms and implementations running at the highest levels of concurrency and used by scientific researchers worldwide. After introducing the fundamental concepts of parallel visualization, the book explores approaches to accelerate visualization and analysis operations on high performance computing platforms. Looking to the future and anticipating changes to computational platforms in the transition from the petascale to exascale regime, it presents the main research challenges and describes several contemporary, high performance visualization implementations. Reflecting major concepts in high performance visualization, this book unifies a large and diverse body of computer science research, development, and practical applications. It describes the state of the art at the intersection of scientific visualization, large data, and high performance computing trends, giving readers the foundation to apply the concepts and carry out future research in this area.

Scientific Computing With Multicore And Accelerators

Author : Jakub Kurzak
ISBN : 9781439825372
Genre : Computers
File Size : 84. 62 MB
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The hybrid/heterogeneous nature of future microprocessors and large high-performance computing systems will result in a reliance on two major types of components: multicore/manycore central processing units and special purpose hardware/massively parallel accelerators. While these technologies have numerous benefits, they also pose substantial performance challenges for developers, including scalability, software tuning, and programming issues. Researchers at the Forefront Reveal Results from Their Own State-of-the-Art Work Edited by some of the top researchers in the field and with contributions from a variety of international experts, Scientific Computing with Multicore and Accelerators focuses on the architectural design and implementation of multicore and manycore processors and accelerators, including graphics processing units (GPUs) and the Sony Toshiba IBM (STI) Cell Broadband Engine (BE) currently used in the Sony PlayStation 3. The book explains how numerical libraries, such as LAPACK, help solve computational science problems; explores the emerging area of hardware-oriented numerics; and presents the design of a fast Fourier transform (FFT) and a parallel list ranking algorithm for the Cell BE. It covers stencil computations, auto-tuning, optimizations of a computational kernel, sequence alignment and homology, and pairwise computations. The book also evaluates the portability of drug design applications to the Cell BE and illustrates how to successfully exploit the computational capabilities of GPUs for scientific applications. It concludes with chapters on dataflow frameworks, the Charm++ programming model, scan algorithms, and a portable intracore communication framework. Explores the New Computational Landscape of Hybrid Processors By offering insight into the process of constructing and effectively using the technology, this volume provides a thorough and practical introduction to the area of hybrid computing. It discusses introductory concepts and simple examples of parallel computing, logical and performance debugging for parallel computing, and advanced topics and issues related to the use and building of many applications.

Petascale Computing

Author : David A. Bader
ISBN : 1584889101
Genre : Computers
File Size : 44. 89 MB
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Although the highly anticipated petascale computers of the near future will perform at an order of magnitude faster than today’s quickest supercomputer, the scaling up of algorithms and applications for this class of computers remains a tough challenge. From scalable algorithm design for massive concurrency toperformance analyses and scientific visualization, Petascale Computing: Algorithms and Applications captures the state of the art in high-performance computing algorithms and applications. Featuring contributions from the world’s leading experts in computational science, this edited collection explores the use of petascale computers for solving the most difficult scientific and engineering problems of the current century. Covering a wide range of important topics, the book illustrates how petascale computing can be applied to space and Earth science missions, biological systems, weather prediction, climate science, disasters, black holes, and gamma ray bursts. It details the simulation of multiphysics, cosmological evolution, molecular dynamics, and biomolecules. The book also discusses computational aspects that include the Uintah framework, Enzo code, multithreaded algorithms, petaflops, performance analysis tools, multilevel finite element solvers, finite element code development, Charm++, and the Cactus framework. Supplying petascale tools, programming methodologies, and an eight-page color insert, this volume addresses the challenging problems of developing application codes that can take advantage of the architectural features of the new petascale systems in advance of their first deployment.

Introduction To Reversible Computing

Author : Kalyan S. Perumalla
ISBN : 9781439873403
Genre : Computers
File Size : 54. 1 MB
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Few books comprehensively cover the software and programming aspects of reversible computing. Filling this gap, Introduction to Reversible Computing offers an expanded view of the field that includes the traditional energy-motivated hardware viewpoint as well as the emerging application-motivated software approach. Collecting scattered knowledge into one coherent account, the book provides a compendium of both classical and recently developed results on reversible computing. It explores up-and-coming theories, techniques, and tools for the application of reversible computing—the logical next step in the evolution of computing systems. The book covers theory, hardware and software aspects, fundamental limits, complexity analyses, practical algorithms, compilers, efficiency improvement techniques, and application areas. The topics span several areas of computer science, including high-performance computing, parallel/distributed systems, computational theory, compilers, power-aware computing, and supercomputing. The book presents sufficient material for newcomers to easily get started. It provides citations to original articles on seminal results so that readers can consult the corresponding publications in the literature. Pointers to additional resources are included for more advanced topics. For those already familiar with a certain topic within reversible computing, the book can serve as a one-stop reference to other topics in the field.

High Performance Parallel I O

Author : Prabhat
ISBN : 9781466582347
Genre : Computers
File Size : 25. 13 MB
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Gain Critical Insight into the Parallel I/O Ecosystem Parallel I/O is an integral component of modern high performance computing (HPC), especially in storing and processing very large datasets to facilitate scientific discovery. Revealing the state of the art in this field, High Performance Parallel I/O draws on insights from leading practitioners, researchers, software architects, developers, and scientists who shed light on the parallel I/O ecosystem. The first part of the book explains how large-scale HPC facilities scope, configure, and operate systems, with an emphasis on choices of I/O hardware, middleware, and applications. The book then traverses up the I/O software stack. The second part covers the file system layer and the third part discusses middleware (such as MPIIO and PLFS) and user-facing libraries (such as Parallel-NetCDF, HDF5, ADIOS, and GLEAN). Delving into real-world scientific applications that use the parallel I/O infrastructure, the fourth part presents case studies from particle-in-cell, stochastic, finite volume, and direct numerical simulations. The fifth part gives an overview of various profiling and benchmarking tools used by practitioners. The final part of the book addresses the implications of current trends in HPC on parallel I/O in the exascale world.

High Performance Computing

Author : Thomas Sterling
ISBN : 9780124202153
Genre : Computers
File Size : 88. 73 MB
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High Performance Computing: Modern Systems and Practices is a fully comprehensive and easily accessible treatment of high performance computing, covering fundamental concepts and essential knowledge while also providing key skills training. With this book, domain scientists will learn how to use supercomputers as a key tool in their quest for new knowledge. In addition, practicing engineers will discover how supercomputers can employ HPC systems and methods to the design and simulation of innovative products, and students will begin their careers with an understanding of possible directions for future research and development in HPC. Those who maintain and administer commodity clusters will find this textbook provides essential coverage of not only what HPC systems do, but how they are used. Covers enabling technologies, system architectures and operating systems, parallel programming languages and algorithms, scientific visualization, correctness and performance debugging tools and methods, GPU accelerators and big data problems Provides numerous examples that explore the basics of supercomputing, while also providing practical training in the real use of high-end computers Helps users with informative and practical examples that build knowledge and skills through incremental steps Features sidebars of background and context to present a live history and culture of this unique field Includes online resources, such as recorded lectures from the authors’ HPC courses

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