Porting Decision Tree Algorithms to Multicore using FastFlow

The whole computer hardware industry embraced multicores. For these machines, the extreme optimisation of sequential algorithms is no longer sufficient to squeeze the real machine power, which can be only exploited via thread-level parallelism. Decision tree algorithms exhibit natural concurrency that makes them suitable to be parallelised. This paper presents an approach for easy-yet-efficient porting of an implementation of the C4.5 algorithm on multicores. The parallel porting requires minimal changes to the original sequential code, and it is able to exploit up to 7X speedup on an Intel dual-quad core machine.Comment: 18 pages + cove

A design methodology for soft-core platforms on FPGA with SMP Linux, OpenMP support, and distributed hardware profiling system

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High-level Multicore Programming with C++11

Nowadays, one of the most important challenges in programming is the efficient usage of multicore processors. All modern programming languages support multicore programming at native or library level. C++11, the next standard of the C++ programming language, also supports multithreading at a low level. In this paper we argue for some extensions of the C++ Standard Template Library based on the features of C++11. These extensions enhance the standard library to be more powerful in the multicore realm. Our approach is based on functors and lambda expressions, which are major extensions in the language. We contribute three case studies: how to efficiently compose functors in pipelines, how to evaluate boolean operators in parallel, and how to efficiently accumulate over associative functors

Parallel Stochastic Simulators in System Biology: The Evolution of the Species

Abstract—The stochastic simulation of biological systems is an increasingly popular technique in Bioinformatics. It is often an enlightening technique, especially for multi-stable systems which dynamics can be hardly captured with ordinary differential equations. To be effective, stochastic simulations should be supported by powerful statistical analysis tools. The simulation-analysis workflow may however result in being computationally expensive, thus compromising the interactivity required in model tuning. In this work we advocate the high-level design of simulators for stochastic systems as a vehicle for building efficient and portable parallel simulators. In particular, the Calculus of Wrapped Components (CWC) simulator, which is designed according to the FastFlow’s pattern-based approach, is presented and discussed in this work. FastFlow has been extended to support also clusters of multi-cores with minimal coding effort, assessing the portability of the approach. Keywords-Parallel patterns; multi-core; distributed computing; stochastic simulation; systems biology. I