Parallel and distributed computing models on a graphics processing unit to accelerate simulation of membrane systems

Maroosi, Ali; Muniyandi, Ravie Chandren; Sundararajan, Elankovan; Zin, Abdullah Mohd

doi:10.1016/j.simpat.2014.05.005

Cited by 25 publications

(14 citation statements)

References 27 publications

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“…Although the nonlinear dynamic analysis of a large finite‐element mesh takes a long time to complete, most of the computing cost is concentrated in comprising numerical integration over the volume of each element and solving the equilibrium equations. The computing of numerical integration of each element is element‐independent, and is relatively capable of being parallelized by using message‐passing parallel, multithreading, or Graphical Processing Unit (GPU) computing techniques (Adeli and Kumar, ; Maroosi et al., ; Yang et al., 2014).…”

Section: The Proposed Hybrid Solutionmentioning

confidence: 99%

Direct‐Iterative Hybrid Solution in Nonlinear Dynamic Structural Analysis

Yang

Wang

Lin

2017

Computer aided Civil Eng

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Although many advanced sparse direct solvers are widely used in structural analysis, these often require longer computing times than iterative solvers for well-conditioned structural systems. However, iterative solvers cannot efficiently solve an ill-conditioned system when a structure becomes highly nonlinear. This work proposes a hybrid solution integrating a direct solver and an iterative solver to reduce overall computing time in solving a series of linear equations arising from nonlinear dynamic structural analysis. The hybrid solution selects the iterative solver, which reuses the factorized matrices for preconditioning, and switches to the direct solver in the initial stage or when factorized matrices need updating. The performance of the hybrid solution is tested on the OpenSees platform. The results show that the hybrid solution outperforms the direct solver, even when the structure becomes highly nonlinear during analysis. C 2017 Computer-Aided Civil and Infrastructure Engineering.

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Section: The Proposed Hybrid Solutionmentioning

confidence: 99%

Direct‐Iterative Hybrid Solution in Nonlinear Dynamic Structural Analysis

Yang

Wang

Lin

2017

Computer aided Civil Eng

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“…• Improvement of the simulation of P systems with active membranes: Maroosi et al [18] started from the GPU-based simulator of P systems with active membranes [3] (the PCUDA project), and improved its performance, achieving up to 82x. Their simulator takes advantage of the shared memory (minimizing data transfers), and avoids communication among threads and also among thread blocks by grouping related objects and membranes, respectively.…”

Section: Related Simulatorsmentioning

confidence: 99%

Simulating P Systems on GPU Devices: A Survey

Amor

García-Quismondo

Macías-Ramos

et al. 2015

Fundamenta Informaticae

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P systems have been proven to be useful as modeling tools in many fields, such as Systems Biology and Ecological Modeling. For such applications, the acceleration of P system simulation is often desired, given the computational needs derived from these kinds of models. One promising solution is to implement the inherent parallelism of P systems on platforms with parallel architectures.In this respect, GPU computing proved to be an alternative to more classic approaches in Parallel Computing. It provides a low cost, and a manycore platform with a high level of parallelism. The GPU has been already employed to speedup the simulation of P systems.In this paper, we look over the available parallel P systems simulators on the GPU, with special emphasis on those included in the PMCGPU project, and analyze some useful guidelines for future implementations and developments.

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“…Subset solutions generated by copies of one active membrane model running independently on different cores will be collected to produce a complete list of solutions after removing repeated solutions. In our previous works we tried to improve simulation of membrane systems on the GPU [17,18] . This study improves the simulation of active membrane system for N -queens on the GPU.…”

Section: Complete Solutions Of N -Queens With An Active Membranementioning

confidence: 99%