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Parallel bisection mesh refinement algorithm for distributed memory parallel computers

Jisuan Wuli/Chinese Journal of Computational Physics 2005年第5期22卷 399-406页

作者： Liu, Qing-Kai Zhang, Lin-Bo Institute of Computational Mathematics and Scientific/Engineering Computing Academy of Mathematics and Systems Science Chinese Academy of Sciences Beijing 100080 China Graduate School Chinese Academy of Sciences Beijing 100080 China

We present a parallel bisection mesh refinement algorithm based on ALBERT (Adaptive multi-Level finite element toolbox using Bisection refinement and Error control by Residual Techniques). The goal is to develop a parallel adaptive finite element code suitable for distributed memory parallel computers or PC clusters. An overview on the basic strategy for the parallelization of ALBERT is given. Issues on the parallel mesh refinement are addressed. A modified mesh refinement algorithm, which can be implemented efficiently on distributed memory parallel computers, is proposed and its properties are discussed. Numerical experiments with parallel bisection mesh refinement algorithm are shown.

关键词： Parallel algorithms

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Semantic interoperability in tools for intercultural collaboration

Semantic interoperability in tools for intercultural collabo...

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3rd International Conference on Active Media Technology

作者： Funakoshi, K Sugiyama, K Ishida, T Yoshino, T Munemori, J Zhang, HJ So, ZZ NTT Communication Science Laboratories NTT Corporation Japan Graduate School of Informatics Kyoto University Japan Faculty of Systems Engineering Wakayama University Japan Institute of Computing Technology Chinese Academy of Science China

ISBN: (纸本)0780390350

In software/content development in intercultural environments, collaboration among participants and effective administration are crucial for overall successful projects. Various tools are used to achieve the collaboration and the administration of the project: no single groupware is sufficient for both collaboration support and management. Therefore, interoperability among various tools employed in one project is essential for efficient collaboration. To establish semantic interoperability of collaboration tools, we have designed an RDF tag set that can function as vocabulary to describe information interoperably among the tools. In this paper, we propose a tag set to describe information in intercultural projects and show how the data in collaboration tools and project management tools are integrated with those semantic tags. With the tag set and the supporting method, it is expected that the members and the administrators do not have to pay much efforts to keep the collaboration status.

关键词： Semantics

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A New Way to High Performance NFS for Clusters

A New Way to High Performance NFS for Clusters

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IEEE International Conference on Parallel and Distributed computing, Applications and Technologies (PDCAT)

作者： Rongfeng Tang Jin Xiong Jie Ma Dan Meng National Research Center for Intelligent Computing Systems Institute of Computing Technology Graduate School of Chinese Academy of Sciences China

For its simplicity, reliability and maturity, NFS is widely-used in clusters. However, due to its high overheads and implementation limitations, the standard NFS cannot fully exert the potential abilities provided by multiple network channels and multiple SCSI channels on the server. In this paper, we present a new efficient way to high performance NFS implementation for cluster applications. By adding mechanisms to make good use of NFS server's multiple communication channels and multiple I/O channels, CluserNFS can potentially provide better I/O performance than standard NFS, as illustrated by our simulation experiment results.

关键词： File systems Network servers File servers Network interfaces Hardware Protocols Communication standards Sun Bandwidth Intelligent systems

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High performance Sockets over kernel level virtual interface architecture

High performance Sockets over kernel level virtual interface...

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International Conference on High Performance computing in the Asia-Pacific Region

作者： Zhigang Huo Yansong Yu Ninghui Sun Graduate School of Chinese Academy of Sciences China National Research Center for Intelligent Computing Systems Institute of Computing Technology Chinese Academy and Sciences China

The Sockets application programming interface is the de facto standard in network programming. Sockets emulation over high performance networks has being pursued by many researchers. Most projects in this area favor user level communication, but this approach has resulted in some compatibility problems. In this paper, after the reexamination of the tradeoff between user level and kernel level communication, the design and implementation of Sockvia are discussed which is a kernel level Sockets emulation system based on virtual interface architecture. Sockvia emulates Sockets streaming semantics and achieves full compatibility with Sockets over TCP/IP. Through performance optimization methods such as lightweight flow control and private buffer, the performance of Sockvia is very attractive compared with that of Sockets over GM-IP or SGM. The half round-trip latency of Sockvia is below 12 us and the peak bandwidth is over 240 MBytes. The results of real-world application tests are also presented

关键词： Sockets Kernel Emulation TCPIP Optimization Lighting control Communication system control Delay Bandwidth Testing

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A storage space management policy for a cluster file system

A storage space management policy for a cluster file system

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International Conference on High Performance computing in the Asia-Pacific Region

作者： Jin Xiong Rongfeng Tang Zhihua Fan Jie Ma Hui Li Dan Meng Ninghui Sun Guojie Li Graduate School of Chinese Academy of Sciences China National Research Center for Intelligent Computing Systems (NCIC) Institute of Computing Technology Chinese Academy and Sciences China

The major challenge in designing cluster file systems is to provide high aggregate I/O bandwidth and high metadata processing throughput for applications running on large-scale cluster systems. And with the rapid increase of required data storage, how to improve access performance of a PB-scale cluster file system is also a challenging issue. In this paper, we introduce the storage space management policy for a PB-scale cluster file system. Our performance results showed that compared with Lustre and GFS, DCFS2 is able to provide comparable or even better aggregate I/O bandwidth

关键词： File systems Bandwidth Aggregates Large-scale systems Computers Space technology Multiprocessor interconnection networks File servers Scalability Sun

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Experience Of OS Optimization For Linpack On Dawning4000A

Experience Of OS Optimization For Linpack On Dawning4000A

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IEEE International Conference on Cluster computing

作者： Zhou Ying-chao Meng Dan Zhou Xiao-cheng Chen Yao Graduate School of Chinese Academy of Sciences China National Research Center for Intelligent Computing Systems Institute of Computing Technology Chinese Academy and Sciences Beijing China

Summary form only given. Clusters equipped with Linux, a commonly available operating system, are very popular in the supercomputer industry. While as a general-purpose operating system, Linux probably contains some redundant properties that are unbefitting or unnecessary for HPC applications, and moreover, the design tradeoff cannot take some special applications' features into account excessively. This has the potential to optimize Linux for special applications such as Linpack. In this paper, we present experiences of optimizing Linux for Linpack, which is a standard benchmark for supercomputer, on Dawning4000A - an HTFlops Linux/PC cluster system. Based on observation, the implementation of optimization involves three aspects: memory management system - superpage support, light little-noise kernel and process management system. Measurements show that superpage support produces 2-3 percent performance improvement, light little-noise kernel and optimization on process management give only faint or even negative performance advantage. Despite Linux, issues identified should be also relevant to other general-purpose operating systems

关键词： Linux Operating systems Supercomputers Kernel Intelligent systems Computers Memory management

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To accelerate multiple sequence alignment using FPGAs

To accelerate multiple sequence alignment using FPGAs

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International Conference on High Performance computing in the Asia-Pacific Region

作者： Xu Lin Zhang Peiheng Bu Dongbo Feng Shengzhong Sun Ninghui Graduate School of Chinese Academy of Sciences Beijing China National Research Center for Intellegent Computing Systems Institute of Computing Technology Chinese Academy and Sciences Beijing China

Multiple sequence alignment is a fundamental and challenging problem in computational molecular biology. ClustalW, the most widely used multiple sequence alignment software, performs very slowly on hundreds of sequence. Here, we analyze the algorithm complexity of ClustalW as well as the time profile in practice, and then propose a strategy which uses the reconfigurable hardware FPGA to accelerate ClustalW. Comparison with other coarse-grained parallel strategies demonstrates a fine speedup of this strategy and savage of computing resource

关键词： Acceleration Field programmable gate arrays Sequences Biology computing Hardware Concurrent computing Bioinformatics Sun Computers Computational biology

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An Efficient Metadata Distribution Policy for Cluster File systems

An Efficient Metadata Distribution Policy for Cluster File S...

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IEEE International Conference on Cluster computing

作者： Jin Xiong Rongfeng Tang Sining Wu Dan Meng Ninghui Sun Graduate School of Chinese Academy of Sciences China National Research Centerfor Intelligent Computing Systems Institute of Computing Technology Chinese Academy and Sciences China Cranfield University UK

How to distribute the items in the file system hierarchy across a group of metadata servers is an important issue that determines the holistic metadata processing performance (HMPP) of a cluster file system which manages its metadata by a group of metadata servers. The HMPP is affected by two factors: balance degree of metadata distribution and number of branch points. Two types of well-used metadata distribution policies are the dynamic subtree policy and the random policy. Both of them emphasize one factor and neglect the other factor. As a result, their HMPP is low. In order to make good use of processing capacity of all metadata servers, we present a novel metadata distribution policy, called dynamic dir-grain (DDG) policy, which takes both factors into account. Our performance results show that this policy is potentially more efficient than the other two types of policies under real environments, as well as the conditions of creation or removal of a large hierarchy

关键词： File systems File servers Throughput Intelligent systems Distributed computing Computers Electronic mail Technology management Large-scale systems Scientific computing

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HDL modeling for analysis and optimization of asynchronous controllers

HDL modeling for analysis and optimization of asynchronous c...

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2005 International Symposium on Intelligent Signal Processing and Communication systems, ISPACS 2005

作者： Yang, Jung-Lin Brunvand, Erik Lin, Sung-Min Institute of Electronic Engineering Southern Taiwan University of Technology Tainan County 71005 Taiwan School of Computing University of Utah Salt Lake City UT 84112 United States Graduate School of Information Production and Systems Waseda University Fukuoka 808-0135 Japan

ISBN: (纸本)0780392663

We propose a simulation-based technique for analysis and optimization of extended burst-mode (XBM) asynchronous controllers. In asynchronous controllers of this sort, timing information on control signals is significant both for performance enhancement and timing validation. Timing information, specifically information about relative signal arrival times, helps us improve the controller's response time and to detect delay faults within controllers in the early synthesis stage. If the timing information of the controller's environment is also known, we can use this information to identify fundamental mode violations. Our approach uses stochastic simulation of HDL programs derived from the original XBM specifications to gather information about signal timing and long-term transition probabilities. © 2005 IEEE.

关键词： Control equipment

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A New Four-Fingered Robot Hand with Dual Turning Mechanism

A New Four-Fingered Robot Hand with Dual Turning Mechanism

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IEEE International Conference on Robotics and Automation (ICRA)

作者： M. Higashimori Hieyong Jeong I. Ishii M. Kaneko A. Namiki M. Ishikawa Department of Artificial Complex Systems Engineering Graduate School of Engineering Hiroshima University Higashihiroshima Japan Department of Information Physics and Computing Graduate School of Information Science and Technology University of Tokyo Bunkyo Tokyo Japan

This paper newly proposes the four-fingered robot hand with dual turning mechanism where two and two other fingers can independently rotate inner and outer circles with the common center, respectively. Due to this mechanical configuration, it has the particular rotating axis where the manipulation around the axis can be completely decomposed into the velocity control around the axis and the internal force control in the contact plane. We achieved a manipulation task around the axis with the time of 0.8[sec] for one rotation, while it is relatively slow for another axis.

关键词： Robots Turning Fingers Actuators Force control Velocity control Robotics and automation Grasping systems engineering and theory Physics

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