The Message Passing Interface (MPI) standard provides a powerful mechanism for describing non-contiguousmemory locations: derived datatypes. In addition, MPI derived datatypes have a key role in the MPI-2 I/O operations. In principle, MPI derived datatypes allow a user to more efficiently communicate noncontiguous data (for example, strided data) because the MPI implementation can move the data...

This paper describes an implementation of the Message Passing Interface (MPI) on the Portals 3.0 data movement layer. Portals 3.0 provides low-level building blocks that are flexible enough to support higher-level message passing layers such as MPI very efficiently. Portals 3.0 is also designed to allow for programmable network interface cards to offload message processing from the host process...

The Message Passing Interface (MPI) standard provides a powerful mechanism for describing non-contiguous memory locations: derived datatypes. In addition, MPI derived datatypes have a key role in the MPI-2 I/O operations. In principle, MPI derived datatypes allow a user to more efficiently communicate noncontiguous data (for example, strided data) because the MPI implementation can move the dat...

IBM SP{2 has become a popular MPP for scientiic community. Its programming environment includes several message passing libraries. In this paper, we analyse performance of communication operations in 3 libraries installed on SP{2, namely Parallel Virtual Machine (PVM), Message Passing Library (MPL), and Message Passing Interface (MPI).

The original specification for the Message Passing Interface (MPI) included language bindings for C and Fortran 77. C++ programs that used MPI were thus required to use the C bindings. With MPI-2, a C++ interface for all of MPI is specified. In this paper, we describe the design of the C++ interface for MPI and provide some of the history and motivations behind the design decisions.

With petascale systems already available, researchers are devoting their attention to the issues needed to reach the next major level in performance, namely, exascale. Explicit message passing using the Message Passing Interface (MPI) is the most commonly used model for programming petascale systems today. In this paper, we investigate what is needed to enable MPI to scale to exascale, both in ...

jmpi is a 100% Java-based implementation of the Message-Passing Interface (MPI-1) standard. jmpi comes with an efficient and effective MPI implementation in Java and supports a user-friendly Java Application Programming Interface (API) for MPI. We present the implementation details and give some early communication benchmark performance results on a cluster of SUN UltraSparc workstations.

The Message Passing Interface (MPI-1 and MPI-2) provides portability, and a degree of high performance in message passing. A careful review of the design shows many opportunities for performance have been missed, and that these omissions can be corrected. Especially relevant are mechanisms for taking advantage of program characteristics { common to many regular data-parallel and coarse-grain da...

We present a design and an implementation of the MPI (Message Passing Interface) standard in the Java language, called JMPP (Java Message Passing Package). Our implementation is not an interface from the Java language to existing MPI libraries. Rather, the implementation is completely coded in Java. Therefore, JMPP maintains the platform-independence property of Java. Furthermore, JMPP enhances...

ClustalW is a tool for aligning multiple protein or nucleotide sequences. The alignment is achieved via three steps: pairwise alignment, guide-tree generation and progressive alignment. ClustalW-MPI is a distributed and parallel implementation of ClustalW. All three steps have been parallelized to reduce the execution time. The software uses a message-passing library called MPI (Message Passing...