MPJ: MPI-like message passing for Java

Carpenter, Bryan; Getov, Vladimir; Judd, Glenn; Skjellum, Anthony; Fox, Geoffrey

doi:10.1002/1096-9128(200009)12:11<1019::aid-cpe518>3.0.co;2-g

Cited by 115 publications

(63 citation statements)

References 7 publications

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“…Saikat et al [10] also showed that TCP forwarding scheme was successful at a average rate of 88% for existing NATs and a 100% for pairs of certain common type of NATs. These results show that running parallel processes over private clusters does not require a special mechanism or device and our scheme can be applied to many parallel systems such as OpenMP [11] and MPJ [12].…”

Section: Discussionmentioning

confidence: 96%

Universal Execution of Parallel Processes: Penetrating NATs over the Grid

Han

Yeom

et al. 2007

Computational Science – ICCS 2007

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Abstract. Today, clusters are very important computing resources and many computing centers manage their clusters in private networks. But parallel programs may not work in private clusters. Because hosts in private clusters are not globally reachable, hosts behind different private clusters cannot be reached directly in order to communicate. It will certainly be a huge loss of resources if private clusters are excluded from the computing due to this reason. There has been much research on this issue, but most of them concentrate on user-level relaying because it is a general and easily-implementable solution. However, even wellimplemented, user-level solutions result in much longer communication latency than kernel-level solutions. This paper adopted a novel kernellevel solution and applied it to MPICH-G2. Our scheme is generally applicable, simple and efficient. The experimental results show that our scheme incurs very little overhead except when small messages are transmitted. That is, it supports a more universal computing environment by including private clusters with remarkably little overhead.

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Section: Discussionmentioning

confidence: 96%

Universal Execution of Parallel Processes: Penetrating NATs over the Grid

Han

Yeom

et al. 2007

Computational Science – ICCS 2007

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“…In the experiment presented in this paper we have considered just Amazon's micro types (EC2 ID: t1.micro -613 MB RAM, 30 GB of EBS storage only, 1 core). Each instantiated VM uses Linux Cent OS 5 (64-bit), and it was configured with the necessary software, libraries like MPJ [27], and the bioinformatics applications. All instances are based on the same image (AMI ID ami-7d865614) and it was used to execute SciCumulus.…”

Section: Environment and Experiments Setupmentioning

confidence: 99%

Using Domain-Specific Data to Enhance Scientific Workflow Steering Queries

Gonçalves

Oliveira

Ocaña

et al. 2012

Lecture Notes in Computer Science

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Abstract. In scientific workflows, provenance data helps scientists in understanding, evaluating and reproducing their results. Provenance data generated at runtime can also support workflow steering mechanisms. Steering facilities for workflows is considered a challenge due to its dynamic demands during execution. To steer, for example, scientists should be able to suspend (or stop) a workflow execution when the approximate solution meets (or deviates) preset criteria. These criteria are commonly evaluated based on provenance data (execution data) and domain-specific data. We claim that the final decision on whether to interfere on the workflow execution may only become feasible when workflows can be steered by scientists using provenance data enriched with domain-specific data. In this paper we propose an approach based on specialized software components, named Data Extractor (DE), to acquire domain-specific data from data files produced during a scientific workflow execution. DE gathers domain-specific data from produced data files and associates it to existing provenance data on the provenance repository. We have evaluated the proposed approach using a real bioinformatics workflow for comparative genomics executed in SciCumulus cloud workflow parallel engine.

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“…subset of the MPJ speci cation [11]). The core behind the API implements appropriate message handling, and relies on three other modules.…”

Section: The P2p-mpi Middlewarementioning

confidence: 99%

“…The communication are hence almost as e cient as with the underlying MPI library, but the presence of an MPI library and system-dependent generated bindings reduce the portability advantage of Java programs. Later, MPJ [11] has been adopted by the Java Grande forum as a common MPI language bindings to Java, merging the above proposals. However, we know of very few MPJ implementations: mpiJava claims to move towards this speci cation, and recently, an implementation in pure Java from Vrije University [6] called MPJ/Ibis has been proposed.…”

Section: Mpi and Javamentioning

confidence: 99%