FPGA Accelerators for Computing Interatomic Potential-Based Molecular Dynamics Simulation for Gold Nanoparticles:Exploring Different Communication Protocols

Molecular Dynamics(MD)simulation for computing Interatomic Potential(IAP)is a very important High-Performance Computing(HPC)application.MD simulation on particles of experimental relevance takes huge computation time,despite using an expensive high-end server.Heterogeneous computing,a combination of the Field Programmable Gate Array(FPGA)and a computer,is proposed as a solution to compute MD simulation efficiently.In such heterogeneous computation,communication between FPGA and Computer is necessary.One such MD simulation,explained in the paper,is the(Artificial Neural Network)ANN-based IAP computation of gold(Au_(147)&Au_(309))nanoparticles.MD simulation calculates the forces between atoms and the total energy of the chemical system.This work proposes the novel design and implementation of an ANN IAP-based MD simulation for Au_(147)&Au_(309) using communication protocols,such as Universal Asynchronous Receiver-Transmitter(UART)and Ethernet,for communication between the FPGA and the host computer.To improve the latency of MD simulation through heterogeneous computing,Universal Asynchronous Receiver-Transmitter(UART)and Ethernet communication protocols were explored to conduct MD simulation of 50,000 cycles.In this study,computation times of 17.54 and 18.70 h were achieved with UART and Ethernet,respectively,compared to the conventional server time of 29 h for Au_(147) nanoparticles.The results pave the way for the development of a Lab-on-a-chip application.

Design of Parallel Electrical Resistance Tomography System for Measuring Multiphase Flow

ERT(electrical resistance tomography) is effective method for visualization of multiphase flows,offering some advantages of rapid response and low cost,so as to explore the transient hydrodynamics.Aiming at this target,a fully programmable and reconfigurable FPGA(field programmable gate array)-based Compact PCI(peripheral component interconnect) bus linked sixteen-channel ERT system has been presented.The data acquisition system is carefully designed with function modules of signal generator module;Compact PCI transmission module and data processing module(including data sampling,filtering and demodulating).The processing module incorporates a powerful FPGA with Compact PCI bus for communication,and the measurement process management is conducted in FPGA.Image reconstruction algorithms with different speed and accuracy are also coded for this system.The system has been demonstrated in real time(1400 frames per second for 50 kHz excitation) with signal-noise-ratio above 62 dB and repeatability error below 0.7%.Static experiments have been conducted and the images manifested good resolution relative to the actual object distribution.The parallel ERT system has provided alternative experimental platform for the multiphase flow measurements by the dynamic experiments in terms of concentration and velocity.

Design of shared bus DSP board in vector network analyzer

Currently,the mainstream vector network analyzer employs embedded computer module with a digital intermediate frequency(IF)board to form a high performance windows platform.Under this structure,the vector network analyzer needs a powerful encoding system to arbitrate the bus acquirement,which is usually realized by field-programmable gate array(FPGA)chip.The paper explores the shared bus design method of the digital signal processing(DSP)board in network analyzer.Firsty,it puts an emphasis on the system structure,and then the shared bus communication method is described in detail;Finally,the advantages of the shared bus communication mechanism are summanzed.