Memory Access Patterns for Cellular Automata Using GPGPUs

Today\u27s graphical processing units have hundreds of individual processing cores that can be used for general purpose computation of mathematical and scientific problems. Due to their hardware architecture, these devices are especially effective when solving problems that exhibit a high degree of spatial locality. Cellular automata use small, local neighborhoods to determine successive states of individual elements and therefore, provide an excellent opportunity for the application of general purpose GPU computing. However, the GPU presents a challenging environment because it lacks many of the features of traditional CPUs, such as automatic, on-chip caching of data. To fully realize the potential of a GPU, specialized memory techniques and patterns must be employed to account for their unique architecture. Several techniques are presented which not only dramatically improve performance, but, in many cases, also simplify implementation. Many of the approaches discussed relate to the organization of data in memory or patterns for accessing that data, while others detail methods of increasing the computation to memory access ratio. The ideas presented are generic, and applicable to cellular automata models as a whole. Example implementations are given for several problems, including the Game of Life and Gaussian blurring, while performance characteristics, such as instruction and memory accesses counts, are analyzed and compared. A case study is detailed, showing the effectiveness of the various techniques when applied to a larger, real-world problem. Lastly, the reasoning behind each of the improvements is explained, providing general guidelines for determining when a given technique will be most and least effective

Proceedings, MSVSCC 2015

The Virginia Modeling, Analysis and Simulation Center (VMASC) of Old Dominion University hosted the 2015 Modeling, Simulation, & Visualization Student capstone Conference on April 16th. The Capstone Conference features students in Modeling and Simulation, undergraduates and graduate degree programs, and fields from many colleges and/or universities. Students present their research to an audience of fellow students, faculty, judges, and other distinguished guests. For the students, these presentations afford them the opportunity to impart their innovative research to members of the M&S community from academic, industry, and government backgrounds. Also participating in the conference are faculty and judges who have volunteered their time to impart direct support to their students’ research, facilitate the various conference tracks, serve as judges for each of the tracks, and provide overall assistance to this conference. 2015 marks the ninth year of the VMASC Capstone Conference for Modeling, Simulation and Visualization. This year our conference attracted a number of fine student written papers and presentations, resulting in a total of 51 research works that were presented. This year’s conference had record attendance thanks to the support from the various different departments at Old Dominion University, other local Universities, and the United States Military Academy, at West Point. We greatly appreciated all of the work and energy that has gone into this year’s conference, it truly was a highly collaborative effort that has resulted in a very successful symposium for the M&S community and all of those involved. Below you will find a brief summary of the best papers and best presentations with some simple statistics of the overall conference contribution. Followed by that is a table of contents that breaks down by conference track category with a copy of each included body of work. Thank you again for your time and your contribution as this conference is designed to continuously evolve and adapt to better suit the authors and M&S supporters. Dr.Yuzhong Shen Graduate Program Director, MSVE Capstone Conference Chair John ShullGraduate Student, MSVE Capstone Conference Student Chai

Proceedings of the First International Workshop on Sustainable Ultrascale Computing Systems (NESUS 2014): Porto, Portugal

Proceedings of: First International Workshop on Sustainable Ultrascale Computing Systems (NESUS 2014). Porto (Portugal), August 27-28, 2014

Energy and Performance: Management of Virtual Machines: Provisioning, Placement, and Consolidation

Cloud computing is a new computing paradigm that offers scalable storage and compute resources to users on demand through Internet. Public cloud providers operate large-scale data centers around the world to handle a large number of users request. However, data centers consume an immense amount of electrical energy that can lead to high operating costs and carbon emissions. One of the most common and effective method in order to reduce energy consumption is Dynamic Virtual Machines Consolidation (DVMC) enabled by the virtualization technology. DVMC dynamically consolidates Virtual Machines (VMs) into the minimum number of active servers and then switches the idle servers into a power-saving mode to save energy. However, maintaining the desired level of Quality-of-Service (QoS) between data centers and their users is critical for satisfying users’ expectations concerning performance. Therefore, the main challenge is to minimize the data center energy consumption while maintaining the required QoS. This thesis address this challenge by presenting novel DVMC approaches to reduce the energy consumption of data centers and improve resource utilization under workload independent quality of service constraints. These approaches can be divided into three main categories: heuristic, meta-heuristic and machine learning. Our first contribution is a heuristic algorithm for solving the DVMC problem. The algorithm uses a linear regression-based prediction model to detect over-loaded servers based on the historical utilization data. Then it migrates some VMs from the over-loaded servers to avoid further performance degradations. Moreover, our algorithm consolidates VMs on fewer number of server for energy saving. The second and third contributions are two novel DVMC algorithms based on the Reinforcement Learning (RL) approach. RL is interesting for highly adaptive and autonomous management in dynamic environments. For this reason, we use RL to solve two main sub-problems in VM consolidation. The first sub-problem is the server power mode detection (sleep or active). The second sub-problem is to find an effective solution for server status detection (overloaded or non-overloaded). The fourth contribution of this thesis is an online optimization meta-heuristic algorithm called Ant Colony System-based Placement Optimization (ACS-PO). ACS is a suitable approach for VM consolidation due to the ease of parallelization, that it is close to the optimal solution, and its polynomial worst-case time complexity. The simulation results show that ACS-PO provides substantial improvement over other heuristic algorithms in reducing energy consumption, the number of VM migrations, and performance degradations. Our fifth contribution is a Hierarchical VM management (HiVM) architecture based on a three-tier data center topology which is very common use in data centers. HiVM has the ability to scale across many thousands of servers with energy efficiency. Our sixth contribution is a Utilization Prediction-aware Best Fit Decreasing (UP-BFD) algorithm. UP-BFD can avoid SLA violations and needless migrations by taking into consideration the current and predicted future resource requirements for allocation, consolidation, and placement of VMs. Finally, the seventh and the last contribution is a novel Self-Adaptive Resource Management System (SARMS) in data centers. To achieve scalability, SARMS uses a hierarchical architecture that is partially inspired from HiVM. Moreover, SARMS provides self-adaptive ability for resource management by dynamically adjusting the utilization thresholds for each server in data centers.Siirretty Doriast

On Energy Efficient Computing Platforms

In accordance with the Moore's law, the increasing number of on-chip integrated transistors has enabled modern computing platforms with not only higher processing power but also more affordable prices. As a result, these platforms, including portable devices, work stations and data centres, are becoming an inevitable part of the human society. However, with the demand for portability and raising cost of power, energy efficiency has emerged to be a major concern for modern computing platforms. As the complexity of on-chip systems increases, Network-on-Chip (NoC) has been proved as an efficient communication architecture which can further improve system performances and scalability while reducing the design cost. Therefore, in this thesis, we study and propose energy optimization approaches based on NoC architecture, with special focuses on the following aspects. As the architectural trend of future computing platforms, 3D systems have many bene ts including higher integration density, smaller footprint, heterogeneous integration, etc. Moreover, 3D technology can signi cantly improve the network communication and effectively avoid long wirings, and therefore, provide higher system performance and energy efficiency. With the dynamic nature of on-chip communication in large scale NoC based systems, run-time system optimization is of crucial importance in order to achieve higher system reliability and essentially energy efficiency. In this thesis, we propose an agent based system design approach where agents are on-chip components which monitor and control system parameters such as supply voltage, operating frequency, etc. With this approach, we have analysed the implementation alternatives for dynamic voltage and frequency scaling and power gating techniques at different granularity, which reduce both dynamic and leakage energy consumption. Topologies, being one of the key factors for NoCs, are also explored for energy saving purpose. A Honeycomb NoC architecture is proposed in this thesis with turn-model based deadlock-free routing algorithms. Our analysis and simulation based evaluation show that Honeycomb NoCs outperform their Mesh based counterparts in terms of network cost, system performance as well as energy efficiency.Siirretty Doriast

High-Performance Modelling and Simulation for Big Data Applications

This open access book was prepared as a Final Publication of the COST Action IC1406 “High-Performance Modelling and Simulation for Big Data Applications (cHiPSet)“ project. Long considered important pillars of the scientific method, Modelling and Simulation have evolved from traditional discrete numerical methods to complex data-intensive continuous analytical optimisations. Resolution, scale, and accuracy have become essential to predict and analyse natural and complex systems in science and engineering. When their level of abstraction raises to have a better discernment of the domain at hand, their representation gets increasingly demanding for computational and data resources. On the other hand, High Performance Computing typically entails the effective use of parallel and distributed processing units coupled with efficient storage, communication and visualisation systems to underpin complex data-intensive applications in distinct scientific and technical domains. It is then arguably required to have a seamless interaction of High Performance Computing with Modelling and Simulation in order to store, compute, analyse, and visualise large data sets in science and engineering. Funded by the European Commission, cHiPSet has provided a dynamic trans-European forum for their members and distinguished guests to openly discuss novel perspectives and topics of interests for these two communities. This cHiPSet compendium presents a set of selected case studies related to healthcare, biological data, computational advertising, multimedia, finance, bioinformatics, and telecommunications

Advanced Optimization Techniques For Monte Carlo Simulation On Graphics Processing Units

The objective of this work is to design and implement a self-adaptive parallel GPU optimized Monte Carlo algorithm for the simulation of adsorption in porous materials. We focus on Nvidia\u27s GPUs and CUDA\u27s Fermi architecture specifically. The resulting package supports the different ensemble methods for the Monte Carlo simulation, which will allow for the simulation of multi-component adsorption in porous solids. Such an algorithm will have broad applications to the development of novel porous materials for the sequestration of CO2 and the filtration of toxic industrial chemicals. The primary objective of this work is the release of a massively parallel open source Monte Carlo simulation engine implemented using GPUs, called GOMC. The code will utilize the canonical ensemble, and the Gibbs ensemble method, which will allow for the simulation of multiple phenomena, including liquid-vapor phase coexistence, and single and multi-component adsorption in porous materials. In addition, the grand canonical ensemble and the configurational-bias algorithms have been implemented so that polymeric materials and small proteins may be simulated. This simulation engine is the only open source GPU optimized Monte Carlo code available for the generalized simulation of adsorption and phase equilibria on a very large scale. As a result of conducting many optimization techniques and allowing the system to adjust for the change of simulation state, the original MC algorithm has been rewritten based on an existing serial algorithm to suit the massive parallel devices resulting in reductions in computational time. This large time reduction allow for the simulation of significantly larger systems for longer timescales than is currently possible with existing implementations. Results of the extensive research and applying device specific optimizations resulted in significant speedup. First, for the NVT method, a fully optimized serial algorithm has been implemented and the performance results has been compared to Towhee. A speedup of about 438 times has been achieved for a relatively small size problem of 4096 particles. In addition, two algorithms to run on the GPU with and without cell list structure have been implemented. The total speedup of the parallel code with cell list over the serial code was more than 160x faster. Moreover, for the grand canonical ensemble, a serial and two parallel algorithms have been developed. The simulation box in this method can be resized, which added a change to the algorithm that needed to adapt with the box size and adjust itself. The performance of running the CUDA code with cell list versus the serial code that doesn\u27t have a cell list structure is a factor of 130 times faster. More MC ensembles have been transferred to the GPU. The Gibbs ensemble method has two simulation boxes and three types of moves. This method has been studied carefully and the GPU algorithm has been implemented to port the computation intensive functions to the GPU. The performance of the GPU code was about 50x faster than the serial code. Finally, an extension of the Gibbs method has been implemented on the GPU. The particle transfer from one box to the other is the affected move type by this extension. CUDA streams are used to parallelize K trials for this method. A factor of three times speedup for the particle transfer move has been achieved for the best case. However, due to the low execution rate of the particle transfer move, just 10% of the total moves, the speedup has minimal effect on overall execution time of the simulation. Furthermore, a different run with all move types on Kepler K20c card has been executed, and a factor of 2 times speedup has been reported over the CUDA code on the GeForce GTX 480 card. The main contribution of this work to society is when the above implementations become open source to the public through http://gomc.eng.wayne.edu. Also, other researchers can take advantage of the lessons learned with advanced optimizations and self-adapting mechanisms specific to the GPU. On the application level, the current code can be used by the chemical engineering community to explore accurate and affordable simulations that were not possible before

High-Performance Modelling and Simulation for Big Data Applications

This open access book was prepared as a Final Publication of the COST Action IC1406 “High-Performance Modelling and Simulation for Big Data Applications (cHiPSet)“ project. Long considered important pillars of the scientific method, Modelling and Simulation have evolved from traditional discrete numerical methods to complex data-intensive continuous analytical optimisations. Resolution, scale, and accuracy have become essential to predict and analyse natural and complex systems in science and engineering. When their level of abstraction raises to have a better discernment of the domain at hand, their representation gets increasingly demanding for computational and data resources. On the other hand, High Performance Computing typically entails the effective use of parallel and distributed processing units coupled with efficient storage, communication and visualisation systems to underpin complex data-intensive applications in distinct scientific and technical domains. It is then arguably required to have a seamless interaction of High Performance Computing with Modelling and Simulation in order to store, compute, analyse, and visualise large data sets in science and engineering. Funded by the European Commission, cHiPSet has provided a dynamic trans-European forum for their members and distinguished guests to openly discuss novel perspectives and topics of interests for these two communities. This cHiPSet compendium presents a set of selected case studies related to healthcare, biological data, computational advertising, multimedia, finance, bioinformatics, and telecommunications

Design Space Exploration for MPSoC Architectures

Multiprocessor system-on-chip (MPSoC) designs utilize the available technology and communication architectures to meet the requirements of the upcoming applications. In MPSoC, the communication platform is both the key enabler, as well as the key differentiator for realizing efficient MPSoCs. It provides product differentiation to meet a diverse, multi-dimensional set of design constraints, including performance, power, energy, reconfigurability, scalability, cost, reliability and time-to-market. The communication resources of a single interconnection platform cannot be fully utilized by all kind of applications, such as the availability of higher communication bandwidth for computation but not data intensive applications is often unfeasible in the practical implementation. This thesis aims to perform the architecture-level design space exploration towards efficient and scalable resource utilization for MPSoC communication architecture. In order to meet the performance requirements within the design constraints, careful selection of MPSoC communication platform, resource aware partitioning and mapping of the application play important role. To enhance the utilization of communication resources, variety of techniques such as resource sharing, multicast to avoid re-transmission of identical data, and adaptive routing can be used. For implementation, these techniques should be customized according to the platform architecture. To address the resource utilization of MPSoC communication platforms, variety of architectures with different design parameters and performance levels, namely Segmented bus (SegBus), Network-on-Chip (NoC) and Three-Dimensional NoC (3D-NoC), are selected. Average packet latency and power consumption are the evaluation parameters for the proposed techniques. In conventional computing architectures, fault on a component makes the connected fault-free components inoperative. Resource sharing approach can utilize the fault-free components to retain the system performance by reducing the impact of faults. Design space exploration also guides to narrow down the selection of MPSoC architecture, which can meet the performance requirements with design constraints.Siirretty Doriast