Enzo Rucci, Franco Chichizola, Marcelo Naiouf, and Armando De Giusti
parallel programming, hybrid programming, multicore cluster, performance comparison, Neighbor-Joining method
Currently, most supercomputers are multicore clusters. This type of architectures is said to be hybrid, because they combine distributed memory with shared memory. Traditional parallel programming paradigms (message passing and shared memory) cannot be naturally adapted to the hardware features offered by these architectures. A parallel paradigm that combines message passing with shared memory is expected to better exploit them. Therefore, in this paper the performance of two parallel programming paradigms (message passing and combination of message passing with shared memory) is analyzed for multicore clusters. The study case used is the construction of phylogenetic trees by means of the Neighbor-Joining method. Finally, conclusions and future research lines are presented.
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