High Performance Computing on Vector Systems 2009

The book presents the state of the art in high performance computing and simulation on modern supercomputer architectures. It covers trends in hardware and software development in general and specifically the future of vector-based systems and heterogeneous architectures. The application contributions cover computational fluid dynamics, fluid-structure interaction, physics, chemistry, astrophysics, and climate research. Innovative fields like coupled multi-physics or multi-scale simulations are presented. All papers were chosen from presentations given at the 9th Teraflop Workshop held in November 2008 at Tohoku University, Japan, and the 10th Teraflop Workshop held in April 2009 at Höchstleistungsrechenzentrum Stuttgart (HLRS), Germany. Front Matter....Pages I-XIII Front Matter....Pages 1-1 Lessons Learned from 1-Year Experience with SX-9 and Toward the Next Generation Vector Computing....Pages 3-22 BSC-CNS Research and Supercomputing Resources....Pages 23-30 Challenges and Opportunities of Hybrid Computing Systems....Pages 31-39 Going Forward with GPU Computing....Pages 41-52 Optical Interconnection Technology for the Next Generation Supercomputers....Pages 53-58 HPC Architecture from Application Perspectives....Pages 59-67 Front Matter....Pages 69-69 A Language for Fortran Source to Source Transformation....Pages 71-78 The SX-Linux Project: A Progress Report....Pages 79-96 Development of APIs for Desktop Supercomputing....Pages 97-107 The Grid Middleware on SX and Its Operation for Nation-Wide Service....Pages 109-119 Front Matter....Pages 121-121 From Static Domains to Graph Decomposition for Heterogeneous Cluster Programming....Pages 123-147 Front Matter....Pages 149-149 Direct Numerical Simulations of Turbulent Shear Flows....Pages 151-165 Large-Scale Flow Computation of Complex Geometries by Building-Cube Method....Pages 167-178 A New Parallel SPH Method for 3D Free Surface Flows....Pages 179-188 Front Matter....Pages 189-189 The Agulhas System as a Prime Example for the Use of Nesting Capabilities in Ocean Modelling....Pages 191-198 Seamless Simulations in Climate Variability and HPC....Pages 199-219 Front Matter....Pages 221-221 Construction of Vibration Table in an Extended World for Safety Assessment of Nuclear Power Plants....Pages 223-232 Understanding Electron Transport in Atomic Nanowires from Large-Scale Numerical Calculations....Pages 233-242 Multi-scale Simulations for Laser Plasma Physics....Pages 243-250 This book covers the results of the Tera op Workbench, other projects related to High Performance Computing, and the usage of HPC installations at HLRS. The Tera op Workbench project is a collaboration between the High Performance C- puting Center Stuttgart (HLRS) and NEC Deutschland GmbH (NEC-HPCE) to s- port users in achieving their research goals using High Performance Computing. The rst stage of the Tera op Workbench project (2004–2008) concentrated on user's applications and their optimization for the former ag ship of HLRS, a - node NEC SX-8 installation. During this stage, numerous individual codes, dev- oped and maintained by researchers or commercial organizations, have been a- lyzed and optimized. Within the project, several of the codes have shown the ability to outreach the TFlop/s threshold of sustained performance. This created the pos- bility for new science and a deeper understanding of the underlying physics. The second stage of the Tera op Workbench project (2008–2012) focuses on c- rent and future trends of hardware and software developments. We observe a strong tendency to heterogeneous environments on the hardware level, while at the same time, applications become increasingly heterogeneous by including multi-physics or multi-scale effects. The goal of the current studies of the Tera op Workbench is to gain insight in the developments of both components. The overall target is to help scientists to run their application in the most ef cient and most convenient way on the hardware best suited for their purposes. Annotation The book presents the state of the art in high performance computing and simulation on modern supercomputer architectures. It covers trends in hardware and software development in general and specifically the future of vector-based systems and heterogeneous architectures. The application contributions cover computational fluid dynamics, fluid-structure interaction, physics, chemistry, astrophysics, and climate research. Innovative fields like coupled multi-physics or multi-scale simulations are presented. All papers were chosen from presentations given at the 9th Teraflop Workshop held in November 2008 at Tohoku University, Japan, and the 10th Teraflop Workshop held in April 2009 at Hchstleistungsrechenzentrum Stuttgart (HLRS), Germany