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CONCURRENCY-PRACTICE AND EXPERIENCE 2000年第12期12卷 1165-1176页

作者： Kuhn, B Petersen, P O'Toole, E Kuck & Associates Inc Champaign IL 61820 USA Compaq Comp Corp Galway Ireland

When comparing OpenMP to other parallel programming models, it is easier to choose between OpenMP and MPI than between OpenMP and POSIX Threads (Pthreads). With languages like C and C++, developers have frequently chosen Pthreads to incorporate parallelism in applications. Few developers are currently using OpenMP C/C++, but they should. We show that converting Genehunter, a hand-threaded C program, to OpenMP increases robustness without sacrificing performance. It is also a good case study as it highlights several issues that are important in understanding how OpenMP uses threads, Genehunter is a genetics program which analyzes DNA assays from members of a family tree where a disease is present in certain members and not in others. This analysis is done in an attempt to identify the gene most likely to cause the disease. This problem is called linkage analysis. The same sections of Genehunter were parallelized first by hand-threading and then with OpenMP on Compaq Alpha Tru64 systems. We present examples using both methods and illustrate the tools that proved useful in the process. Our basic conclusion is that, although we could express the parallelism using either Pthreads or OpenMP, it was easier to express the parallelism at a higher level of abstraction. OpenMP allowed enough control to express the parallelism without exposing the implementation details. Also, due to the higher level specification of parallelism with OpenMP, the tools available to assist in the construction of correct and efficient programs provide more useful information than the equivalent tools available for hand-threaded programs, The following concepts are presented: . differences between coding styles for OpenMP and Pthreads;. data scoping specification for correct parallel programming;. adapting a signal based exception mechanism to a parallel program;. OpenMP tools: Debuggers-Ladebug, TotalView and Assure;Profilers-Hiprof and GuideView;. performance tuning with memory allocation, synchr

关键词： OpenMP for C/C plus Posix Threads smp programming techniques parallel programming tools

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OpenMP versus threading in C/C++

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Concurrency and Computation: Practice and Experience 2000年第12期12卷

作者： Bob Kuhn Paul Petersen Eamonn O'Toole Kuck & Associates Inc. 1906 Fox Drive Champaign IL 61820 U.S.A. Compaq Computer Corporation Ballybrit Industrial Estate Ballybrit Galway Ireland

When comparing OpenMP to other parallel programming models, it is easier to choose between OpenMP and MPI than between OpenMP and POSIX Threads (Pthreads). With languages like C and C++, developers have frequently chosen Pthreads to incorporate parallelism in applications. Few developers are currently using OpenMP C/C++, but they should. We show that converting Genehunter, a hand-threaded C program, to OpenMP increases robustness without sacrificing performance. It is also a good case study as it highlights several issues that are important in understanding how OpenMP uses threads. Genehunter is a genetics program which analyzes DNA assays from members of a family tree where a disease is present in certain members and not in others. This analysis is done in an attempt to identify the gene most likely to cause the disease. This problem is called linkage analysis. The same sections of Genehunter were parallelized first by hand-threading and then with OpenMP on Compaq Alpha Tru64 systems. We present examples using both methods and illustrate the tools that proved useful in the process. Our basic conclusion is that, although we could express the parallelism using either Pthreads or OpenMP, it was easier to express the parallelism at a higher level of abstraction. OpenMP allowed enough control to express the parallelism without exposing the implementation details. Also, due to the higher level specification of parallelism with OpenMP, the tools available to assist in the construction of correct and efficient programs provide more useful information than the equivalent tools available for hand-threaded programs. The following concepts are presented: differences between coding styles for OpenMP and Pthreads; data scoping specification for correct parallel programming; adapting a signal based exception mechanism to a parallel program; OpenMP tools: Debuggers—Ladebug, TotalView and Assure; Profilers—Hiprof and GuideView; performance tuning with memory allocation, synchroniza

关键词： OpenMP for C/C++ Posix Threads smp programming techniques parallel programming tools

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