State-of-the-Art in Parallel Computing with R

R is a mature open-source programming language for statistical computing and graphics. Many areas of statistical research are experiencing rapid growth in the size of data sets. Methodological advances drive increased use of simulations. A common approach is to use parallel computing. This paper presents an overview of techniques for parallel computing with R on computer clusters, on multi-core systems, and in grid computing. It reviews sixteen different packages, comparing them on their state of development, the parallel technology used, as well as on usability, acceptance, and performance. Two packages (snow, Rmpi) stand out as particularly useful for general use on computer clusters. Packages for grid computing are still in development, with only one package currently available to the end user. For multi-core systems four different packages exist, but a number of issues pose challenges to early adopters. The paper concludes with ideas for further developments in high performance computing with R. Example code is available in the appendix

Parallel implementation of the TRANSIMS micro-simulation

This paper describes the parallel implementation of the TRANSIMS traffic micro-simulation. The parallelization method is domain decomposition, which means that each CPU of the parallel computer is responsible for a different geographical area of the simulated region. We describe how information between domains is exchanged, and how the transportation network graph is partitioned. An adaptive scheme is used to optimize load balancing. We then demonstrate how computing speeds of our parallel micro-simulations can be systematically predicted once the scenario and the computer architecture are known. This makes it possible, for example, to decide if a certain study is feasible with a certain computing budget, and how to invest that budget. The main ingredients of the prediction are knowledge about the parallel implementation of the micro-simulation, knowledge about the characteristics of the partitioning of the transportation network graph, and knowledge about the interaction of these quantities with the computer system. In particular, we investigate the differences between switched and non-switched topologies, and the effects of 10 Mbit, 100 Mbit, and Gbit Ethernet. keywords: Traffic simulation, parallel computing, transportation planning, TRANSIM

Parallel Aerodynamic Simulation on Open Workstation Clusters. Department of Aerospace Engineering Report no. 9830

The parallel execution of an aerodynamic simulation code on a non-dedicated, heterogeneous cluster of workstations is examined. This type of facility is commonly available to CFD developers and users in academia, industry and government laboratories and is attractive in terms of cost for CFD simulations. However, practical considerations appear at present to be discouraging widespread adoption of this technology. The main obstacles to achieving an efficient, robust parallel CFD capability in a demanding multi-user environment are investigated. A static load-balancing method, which takes account of varying processor speeds, is described. A dynamic re-allocation method to account for varying processor loads has been developed. Use of proprietary management software has facilitated the implementation of the method

Performance measurement and analysis of PC based cluster server using SET of Architecture and modeling a scalable High performance cluster

Not availabl

Grid Portal Application

This project concerns EMMIL (E-Marketplace Model Integrated with Logistics) and its viability as a grid application. The model was evaluated on a single processor and on the SEEGRID network using MTA-SZTAKI\u27s P-GRADE Portal. A granularity heuristic was developed to guide the mapping of EMMIL datasets to processes. A portlet for P-GRADE Portal was also created to aid in data entry. Finally, pre-processing filters were added. These were designed to discard useless combinations and reduce overall computing time

High performance computing of explicit schemes for electrofusion jointing process based on message-passing paradigm

The research focused on heterogeneous cluster workstations comprising of a number of CPUs in single and shared architecture platform. The problem statements under consideration involved one dimensional parabolic equations. The thermal process of electrofusion jointing was also discussed. Numerical schemes of explicit type such as AGE, Brian, and Charlies Methods were employed. The parallelization of these methods were based on the domain decomposition technique. Some parallel performance measurement for these methods were also addressed. Temperature profile of the one dimensional radial model of the electrofusion process were also given

A Pure Java Parallel Flow Solver

In this paper an overview is given on the "Have Java" project to attain a pure Java parallel Navier-Stokes flow solver (JParNSS) based on the thread concept and remote method invocation (RMI). The goal of this project is to produce an industrial flow solver running on an arbitrary sequential or parallel architecture, utilizing the Internet, capable of handling the most complex 3D geometries as well as flow physics, and also linking to codes in other areas such as aeroelasticity etc. Since Java is completely object-oriented the code has been written in an object-oriented programming (OOP) style. The code also includes a graphics user interface (GUI) as well as an interactive steering package for the parallel architecture. The Java OOP approach provides profoundly improved software productivity, robustness, and security as well as reusability and maintainability. OOP allows code construction similar to the aerodynamic design process because objects can be software coded and integrated, reflecting actual design procedures. In addition, Java is the programming language of the Internet and thus Java is the programming language of the Internet and thus Java objects on disparate machines or even separate networks can be connected. We explain the motivation for the design of JParNSS along with its capabilities that set it apart from other solvers. In the first two sections we present a discussion of the Java language as the programming tool for aerospace applications. In section three the objectives of the Have Java project are presented. In the next section the layer structures of JParNSS are discussed with emphasis on the parallelization and client-server (RMI) layers. JParNSS, like its predecessor ParNSS (ANSI-C), is based on the multiblock idea, and allows for arbitrarily complex topologies. Grids are accepted in GridPro property settings, grids of any size or block number can be directly read by JParNSS without any further modifications, requiring no additional preparation time for the solver input. In the last section, computational results are presented, with emphasis on multiprocessor Pentium and Sun parallel systems run by the Solaris operating system (OS)