The MPI Message Passing Interface Standard

Clarke, L. J.; Glendinning, I.; Hempel, Rolf

doi:10.1007/978-3-0348-8534-8_21

Cited by 121 publications

(66 citation statements)

References 1 publication

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“…Figure from Dobrzelecki et al , shows the latest architecture of SPRINT. Since its original description in Hill et al , the SPRINT architecture has been extended further to allow the underlying workers to exploit also the existing serial R functionality as well as functionality written specifically in C and Message Passing Interface (MPI) .…”

Section: Sprint and Related Workmentioning

confidence: 99%

“…Given the popularity of accelerator technologies, the obvious question to ask is why are platforms with GPUs or similar accelerators not included in the benchmark systems. The answer to this betrays the current portability and standards issues associated with such accelerators ‐ parallelism in SPRINT is based on the recent incarnations of the MPI standard . This obviously means that SPRINT can run without modification on a variety of cluster configurations and shared memory multi‐processor platforms.…”

Section: Benchmarksmentioning

confidence: 99%

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Optimization of a parallel permutation testing function for the SPRINT R package

Petrou

Sloan

Mewissen

et al. 2011

Concurrency and Computation

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The statistical language R and its Bioconductor package are favoured by many biostatisticians for processing microarray data. The amount of data produced by some analyses has reached the limits of many common bioinformatics computing infrastructures. High Performance Computing systems offer a solution to this issue. The Simple Parallel R Interface (SPRINT) is a package that provides biostatisticians with easy access to High Performance Computing systems and allows the addition of parallelized functions to R. Previous work has established that the SPRINT implementation of an R permutation testing function has close to optimal scaling on up to 512 processors on a supercomputer. Access to supercomputers, however, is not always possible, and so the work presented here compares the performance of the SPRINT implementation on a supercomputer with benchmarks on a range of platforms including cloud resources and a common desktop machine with multiprocessing capabilities. Copyright © 2011 John Wiley & Sons, Ltd.

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Section: Sprint and Related Workmentioning

confidence: 99%

Section: Benchmarksmentioning

confidence: 99%

Optimization of a parallel permutation testing function for the SPRINT R package

Petrou

Sloan

Mewissen

et al. 2011

Concurrency and Computation

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“…In many respects, JavaNOW can be viewed as a hybrid system: some PVM (Parallel Virtual Machine [2]), some Linda [5], some MPI (Message Passing Interface [6,7]), and some experimental components. From a usage standpoint, JavaNOW provides a simple facility for starting tasks that is reminiscent of the PVM software.…”

Section: Overview Of Javanow and Its Relation To Linda Pvm And Mpimentioning

confidence: 99%

Java on networks of workstations (JavaNOW): a parallel computing framework inspired by Linda and the Message Passing Interface (MPI)

Thiruvathukal

Dickens

Bhatti³

2000

Concurrency: Pract. Exper.

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SUMMARYNetworks of workstations are a dominant force in the distributed computing arena, due primarily to the excellent price/performance ratio of such systems when compared to traditionally massively parallel architectures. It is therefore critical to develop programming languages and environments that can help harness the raw computational power available on these systems. In this article, we present JavaNOW (Java on Networks of Workstations), a Java-based framework for parallel programming on networks of workstations. It creates a virtual parallel machine similar to the MPI (Message Passing Interface) model, and provides distributed associative shared memory similar to the Linda memory model but with a richer set of primitive operations.JavaNOW provides a simple yet powerful framework for performing computation on networks of workstations. In addition to the Linda memory model, it provides for shared objects, implicit multithreading, implicit synchronization, object dataflow, and collective communications similar to those defined in MPI. JavaNOW is also a component of the Computational Neighborhood, a Java-enabled suite of services for desktop computational sharing. The intent of JavaNOW is to present an environment for parallel computing that is both expressive and reliable and ultimately can deliver good to excellent performance. As JavaNOW is a work in progress, this article emphasizes the expressive potential of the JavaNOW environment and presents preliminary performance results only.

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“…MPICH is a portable implementation of the Message Passing Interface OMPI) [3] standard developed jointly by Argonne National Laboratory and Mississippi State University. MPICH contains an abstract device interface (ADD upon which a high-level message passing application programmer interface such as MPI can be implemented.…”

Section: Mpichmentioning

confidence: 99%