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2006
IEEE
13 years 5 months ago
Optimizing MPI collective communication by orthogonal structures
Many parallel applications from scientific computing use MPI collective communication operations to collect or distribute data. Since the execution times of these communication op...
Matthias Kühnemann, Thomas Rauber, Gudula R&u...
IPPS
2009
IEEE
14 years 4 days ago
Dynamic parallelization for RNA structure comparison
In this paper we describe the parallelization of a dynamic programming algorithm used to find common RNA secondary structures including pseudoknots and similar structures. The se...
Eric Snow, Eric Aubanel, Patricia Evans
WSC
1998
13 years 6 months ago
Parallel Implementation of a Molecular Dynamics Simulation Program
We have taken a NIST molecular dynamics simulation program (md3), which was configured as a single sequential process running on a CRAY C90 vector supercomputer, and parallelized ...
Alan Mink, Christophe Bailly
RTAS
2006
IEEE
13 years 11 months ago
Network-Code Machine: Programmable Real-Time Communication Schedules
Distributed hard real-time systems require guaranteed communication. One common approach is to restrict network access by enforcing a time-division multiple access (TDMA) schedule...
Sebastian Fischmeister, Oleg Sokolsky, Insup Lee
PPOPP
2010
ACM
14 years 2 months ago
Scalable communication protocols for dynamic sparse data exchange
Many large-scale parallel programs follow a bulk synchronous parallel (BSP) structure with distinct computation and communication phases. Although the communication phase in such ...
Torsten Hoefler, Christian Siebert, Andrew Lumsdai...