Due to the restricted satellite payloads in LEO mega-constellation networks(LMCNs),remote sensing image analysis,online learning and other big data services desirably need onboard distributed processing(OBDP).In exist...Due to the restricted satellite payloads in LEO mega-constellation networks(LMCNs),remote sensing image analysis,online learning and other big data services desirably need onboard distributed processing(OBDP).In existing technologies,the efficiency of big data applications(BDAs)in distributed systems hinges on the stable-state and low-latency links between worker nodes.However,LMCNs with high-dynamic nodes and long-distance links can not provide the above conditions,which makes the performance of OBDP hard to be intuitively measured.To bridge this gap,a multidimensional simulation platform is indispensable that can simulate the network environment of LMCNs and put BDAs in it for performance testing.Using STK's APIs and parallel computing framework,we achieve real-time simulation for thousands of satellite nodes,which are mapped as application nodes through software defined network(SDN)and container technologies.We elaborate the architecture and mechanism of the simulation platform,and take the Starlink and Hadoop as realistic examples for simulations.The results indicate that LMCNs have dynamic end-to-end latency which fluctuates periodically with the constellation movement.Compared to ground data center networks(GDCNs),LMCNs deteriorate the computing and storage job throughput,which can be alleviated by the utilization of erasure codes and data flow scheduling of worker nodes.展开更多
The widespread utilisation of tunnel boring machines(TBMs)in underground construction engineering requires a detailed investigation of the cutter-rock interaction.In this paper,we conduct a series of largescale standi...The widespread utilisation of tunnel boring machines(TBMs)in underground construction engineering requires a detailed investigation of the cutter-rock interaction.In this paper,we conduct a series of largescale standing rotary cutting tests on granite in conjunction with high-fidelity numerical simulations based on a particle-type discrete element method(DEM)to explore the effects of key cutting parameters on the TBM cutter performance and the distribution of cutter-rock contact stresses.The assessment results of cutter performance obtained from the cutting tests and numerical simulations reveal similar dependencies on the key cutting parameters.More specifically,the normal and rolling forces exhibit a positive correlation with penetration but are slightly influenced by the cutting radius.In contrast,the side force decreases as the cutting radius increases.Additionally,the side force shows a positive relationship with the penetration for smaller cutting radii but tends to become negative as the cutting radius increases.The cutter's relative effectiveness in rock breaking is significantly impacted by the penetration but shows little dependency on the cutting radius.Consequently,an optimal penetration is identified,leading to a low boreability index and specific energy.A combined Hertz-Weibull function is developed to fit the cutter-rock contact stress distribution obtained in DEM simulations,whereby an improved CSM(Colorado School of Mines)model is proposed by replacing the original monotonic cutting force distribution with this combined Hertz-Weibull model.The proposed model outperforms the original CSM model as demonstrated by a comparison of the estimated cutting forces with those from the tests/simulations.The findings from this work that advance our understanding of TBM cutter performance have important implications for improving the efficiency and reliability of TBM tunnelling in granite.展开更多
Three-dimensional normal grain growth was appropriately simulated using a Potts model Monte Carlo algorithm. The quasi-stationary grain size distribution obtained from simulation agreed well with the experimental resu...Three-dimensional normal grain growth was appropriately simulated using a Potts model Monte Carlo algorithm. The quasi-stationary grain size distribution obtained from simulation agreed well with the experimental result of pure iron. The Weibull function with a parameter β=2.77 and the Yu-Liu function with a parameter v =2.71 fit the quasi-stationary grain size distribution well. The grain volume distribution is a function that decreased exponentially with increasing grain volume. The distribution of boundary area of grains has a peak at S/〈S〉=0.5, where S is the boundary area of a grain and 〈S〉 is the mean boundary area of all grains in the system. The lognormal function fits the face number distribution well and the peak of the face number distribution is f=10. The mean radius off-faced grains is not proportional to the face number, but appears to be related by a curve convex upward. In the 2D cross-section, both the perimeter law and the Aboav-Weaire law are observed to hold.展开更多
An attempt has been made to develop a distributed software infrastructure model for onboard data fusion system simulation, which is also applied to netted radar systems, onboard distributed detection systems and advan...An attempt has been made to develop a distributed software infrastructure model for onboard data fusion system simulation, which is also applied to netted radar systems, onboard distributed detection systems and advanced C3I systems. Two architectures are provided and verified: one is based on pure TCP/IP protocol and C/S model, and implemented with Winsock, the other is based on CORBA (common object request broker architecture). The performance of data fusion simulation system, i.e. reliability, flexibility and scalability, is improved and enhanced by two models. The study of them makes valuable explore on incorporating the distributed computation concepts into radar system simulation techniques.展开更多
Based on MATRIXx, a universal real-time visual distributed simulation system is developed. The system can receive different input data from network or local terminal. Application models in the simulation modules can a...Based on MATRIXx, a universal real-time visual distributed simulation system is developed. The system can receive different input data from network or local terminal. Application models in the simulation modules can automatically get such data to be analyzed and calculated, and then produce real-time simulation control information. Meanwhile, this paper designs relevant simulation components to implement the input and output data, which can guarantee the real-time and universal of the data transmission. Result of the experimental system shows that the real-time performance of the simulation is perfect.展开更多
The microstructures and thermodynamic properties of mixed systems comprising pyridinium ionic liquid[HPy][BF_(4)]and acetonitrile at different mole fractions were studied using molecular dynamics simulation in this wo...The microstructures and thermodynamic properties of mixed systems comprising pyridinium ionic liquid[HPy][BF_(4)]and acetonitrile at different mole fractions were studied using molecular dynamics simulation in this work.The following properties were determined:density,self-diffusion coefficient,excess molar volume,and radial distribution function.The results show that with an increase in the mole fraction of[HPy][BF_(4)],the self-diffusion coefficient decreases.Additionally,the excess molar volume initially decreases,reaches a minimum,and then increases.The rules of radial distribution functions(RDFs)of characteristic atoms are different.With increasing the mole fraction of[HPy][BF_(4)],the first peak of the RDFs of HA1-F decreases,while that of CT6-CT6 rises at first and then decreases.This indicates that the solvent molecules affect the polar and non-polar regions of[HPy][BF_(4)]differently.展开更多
A solution scheme is proposed in this paper for an existing RTDHT system to simulate large-scale finite element (FE) numerical substructures. The analysis of the FE numerical substructure is split into response anal...A solution scheme is proposed in this paper for an existing RTDHT system to simulate large-scale finite element (FE) numerical substructures. The analysis of the FE numerical substructure is split into response analysis and signal generation tasks, and executed in two different target computers in real-time. One target computer implements the response analysis task, wherein a large time-step is used to solve the FE substructure, and another target computer implements the signal generation task, wherein an interpolation program is used to generate control signals in a small time-step to meet the input demand of the controller. By using this strategy, the scale of the FE numerical substructure simulation may be increased significantly. The proposed scheme is initially verified by two FE numerical substructure models with 98 and 1240 degrees of freedom (DOFs). Thereafter, RTDHTs of a single frame-foundation structure are implemented where the foundation, considered as the numerical substructure, is simulated by the FE model with 1240 DOFs. Good agreements between the results of the RTDHT and those from the FE analysis in ABAQUS are obtained.展开更多
The development process as well as the core theory of distributed interactive simulation and high level architecture are discussed, and combined with graphics features, a system of real time distributed visual simula...The development process as well as the core theory of distributed interactive simulation and high level architecture are discussed, and combined with graphics features, a system of real time distributed visual simulation is established. Based on computer network, simulation platform is built by installing related software and modeling object, and the interactive functions are extended by programming. A set of solutions for building a distributed visual simulation system that include both hardware and software are put forward, and a practical instance is also provided. The whole building process can be summarized into two steps that are scheme consideration and system realization.展开更多
Aiming at the problems of unreliable data transmission,poor steadiness,nonsupport of complex data types,direct couple between data transmission and exchange,a high-level method based on advanced message queuing protoc...Aiming at the problems of unreliable data transmission,poor steadiness,nonsupport of complex data types,direct couple between data transmission and exchange,a high-level method based on advanced message queuing protocol( AMQP) is proposed to integrate naval distributed tactical training simulation system after serious consideration with current information exchange features of military combat system. Transferring layer in traditional user datagram protocol is implemented by publishing and subscribing scheme of message middleware. By creating message model to standardize message structure,integration architecture is formulated to resolve potential information security risks from inconsistent data type and express data transmission. Meanwhile,a communication model is put forward based on AMQP,which is in the center position of the whole transmission framework and responsible for reliably transferring battlefield data among subsystems. Experiments show that the method can accurately post amounts of data to the subscriber without error and loss,and can get excellent real-time performance of data exchange.展开更多
Protein-protein interactions are of great significance for human to understand the functional mechanisms of proteins.With the rapid development of high-throughput genomic technologies,massive protein-protein interacti...Protein-protein interactions are of great significance for human to understand the functional mechanisms of proteins.With the rapid development of high-throughput genomic technologies,massive protein-protein interaction(PPI)data have been generated,making it very difficult to analyze them efficiently.To address this problem,this paper presents a distributed framework by reimplementing one of state-of-the-art algorithms,i.e.,CoFex,using MapReduce.To do so,an in-depth analysis of its limitations is conducted from the perspectives of efficiency and memory consumption when applying it for large-scale PPI data analysis and prediction.Respective solutions are then devised to overcome these limitations.In particular,we adopt a novel tree-based data structure to reduce the heavy memory consumption caused by the huge sequence information of proteins.After that,its procedure is modified by following the MapReduce framework to take the prediction task distributively.A series of extensive experiments have been conducted to evaluate the performance of our framework in terms of both efficiency and accuracy.Experimental results well demonstrate that the proposed framework can considerably improve its computational efficiency by more than two orders of magnitude while retaining the same high accuracy.展开更多
Simulation of a class of delay stochastic system with distributed parameter is discussed. Difference schemes for the numerical computation of delay stochastic system are obtained. The precision of the difference schem...Simulation of a class of delay stochastic system with distributed parameter is discussed. Difference schemes for the numerical computation of delay stochastic system are obtained. The precision of the difference scheme and the efficiency of the difference scheme in simulation of delay stochastic system with distributed parameter are analyzed. Examples are given to illustrate the application of the method.展开更多
We analyze a large-scale molecular dynamics simulation of work hardening in a model system of a ductile solid. With tensile loading, we observe emission of thousands of dislocations from two sharp cracks. The dislocat...We analyze a large-scale molecular dynamics simulation of work hardening in a model system of a ductile solid. With tensile loading, we observe emission of thousands of dislocations from two sharp cracks. The dislocations interact in a complex way, revealing three fundamental mechanisms of work-hardening in this ductile material. These are (1) dislocation cutting processes, jog formation and generation of trails of point defects; (2) activation of secondary slip systems by Frank-Read and cross-slip mechanisms; and (3) formation of sessile dislocations such as Lomer-Cottrell locks. We report the discovery of a new class of point defects referred to as trail of partial point defects, which could play an important role in situations when partial dislocations dominate plasticity. Another important result of the present work is the rediscovery of the Fleischer-mechanism of cross-slip of partial dislocations that was theoretically proposed more than 50 years ago, and is now, for the first time, confirmed by atomistic simulation. On the typical time scale of molecular dynamics simulations, the dislocations self-organize into a complex sessile defect topology. Our analysis illustrates numerous mechanisms formerly only conjectured in textbooks and observed indirectly in experiments. It is the first time that such a rich set of fundamental phenomena have been revealed in a single computer simulation, and its dynamical evolution has been studied. The present study exemplifies the simulation and analysis of the complex nonlinear dynamics of a many-particle system during failure using ultra-large scale computing.展开更多
With the purpose of making calculation more efficient in practical hydraulic simulations, an improved algorithm was proposed and was applied in the practical water distribution field. This methodology was developed by...With the purpose of making calculation more efficient in practical hydraulic simulations, an improved algorithm was proposed and was applied in the practical water distribution field. This methodology was developed by expanding the traditional loop-equation theory through utilization of the advantages of the graph theory in efficiency. The utilization of the spanning tree technique from graph theory makes the proposed algorithm efficient in calculation and simple to use for computer coding. The algorithms for topological generation and practical implementations are presented in detail in this paper. Through the application to a practical urban system, the consumption of the CPU time and computation memory were decreased while the accuracy was greatly enhanced compared with the present existing methods.展开更多
In the large-scale distributed hardware-in-the-loop radar simulation system based on HLA, a new solution of processing after acquisition is proposed, which separates the software subsystem from the hardware jammer sub...In the large-scale distributed hardware-in-the-loop radar simulation system based on HLA, a new solution of processing after acquisition is proposed, which separates the software subsystem from the hardware jammer subsystem by a response database, so as to settle the problem, that the software subsystem can not meet the real-time need of the hardware, with very little increment of code. And the data completeness and feasibility of this solution are discussed.展开更多
In order to improve the efficiency of data distributed management service in distributed interactive simulation based on high level architecture (HLA) and to reduce the network traffic and save the system resource, th...In order to improve the efficiency of data distributed management service in distributed interactive simulation based on high level architecture (HLA) and to reduce the network traffic and save the system resource, the approaches of multicast grouping in HLA-based distributed interactive simulation are discussed. Then a new dynamic multicast grouping approach is proposed. This approach is based on the current publication and subscription region in the process of simulation. The results of simulation experiment show that this approach can significantly reduce the message overhead and use fewer multicast groups.展开更多
The dynamics of secondary large-scale structures in electron-temperature-gradient (ETG) turbulence is investigated based on gyrofluid simulations in sheared slab geometry. It is found that structural bifurcation to ...The dynamics of secondary large-scale structures in electron-temperature-gradient (ETG) turbulence is investigated based on gyrofluid simulations in sheared slab geometry. It is found that structural bifurcation to zonal flow dominated or streamer-like states depends on the spectral anisotropy of turbulent ETG fluctuation, which is governed by the magnetic shear. The turbulent electron transport is suppressed by enhanced zonal flows. However, it is still low even if the streamer is formed in ETG turbulence with strong shears. It is shown that the low transport may be related to the secondary excitation of poloidal long-wavelength mode due to the beat wave of the most unstable components or a modulation instability. This large-scale structure with a low frequency and a long wavelength may saturate, or at least contribute to the saturation of ETG fluctuations through a poloidal mode coupling. The result suggests a low fluctuation level in ETG turbulence.展开更多
Simulation has become the evaluation method of choice for many areas of distributing computing research. Simulation has been applied successfully for modeling small and large complex systems and understanding their be...Simulation has become the evaluation method of choice for many areas of distributing computing research. Simulation has been applied successfully for modeling small and large complex systems and understanding their behavior, especially in the area of distributed systems or parallel environment. The aim of my research is to study and qualitative analysis of simulation on a single server & on distributed environment and finding the related issues & its comparison.展开更多
An antenna selection algorithm based on large-scale fading between the transmitter and receiver is proposed for the uplink receive antenna selection in distributed multiple-input multiple-output(D-MIMO) systems. By ut...An antenna selection algorithm based on large-scale fading between the transmitter and receiver is proposed for the uplink receive antenna selection in distributed multiple-input multiple-output(D-MIMO) systems. By utilizing the radio access units(RAU) selection based on large-scale fading,the proposed algorithm decreases enormously the computational complexity. Based on the characteristics of distributed systems,an improved particle swarm optimization(PSO) has been proposed for the antenna selection after the RAU selection. In order to apply the improved PSO algorithm better in antenna selection,a general form of channel capacity was transformed into a binary expression by analyzing the formula of channel capacity. The proposed algorithm can make full use of the advantages of D-MIMO systems,and achieve near-optimal performance in terms of channel capacity with low computational complexity.展开更多
This paper investigates large-scale distributed system design. It looks at features, main design considerations and provides the Netflix API, Cassandra and Oracle as examples of such systems. Moreover, the paper inves...This paper investigates large-scale distributed system design. It looks at features, main design considerations and provides the Netflix API, Cassandra and Oracle as examples of such systems. Moreover, the paper investigates the challenges of designing, developing, deploying, and maintaining such systems, in regard to the features presented. Finally, the paper discusses aspects of available solutions and current practices to challenges that large-scale distributed systems face.展开更多
基金supported by National Natural Sciences Foundation of China(No.62271165,62027802,62201307)the Guangdong Basic and Applied Basic Research Foundation(No.2023A1515030297)+2 种基金the Shenzhen Science and Technology Program ZDSYS20210623091808025Stable Support Plan Program GXWD20231129102638002the Major Key Project of PCL(No.PCL2024A01)。
文摘Due to the restricted satellite payloads in LEO mega-constellation networks(LMCNs),remote sensing image analysis,online learning and other big data services desirably need onboard distributed processing(OBDP).In existing technologies,the efficiency of big data applications(BDAs)in distributed systems hinges on the stable-state and low-latency links between worker nodes.However,LMCNs with high-dynamic nodes and long-distance links can not provide the above conditions,which makes the performance of OBDP hard to be intuitively measured.To bridge this gap,a multidimensional simulation platform is indispensable that can simulate the network environment of LMCNs and put BDAs in it for performance testing.Using STK's APIs and parallel computing framework,we achieve real-time simulation for thousands of satellite nodes,which are mapped as application nodes through software defined network(SDN)and container technologies.We elaborate the architecture and mechanism of the simulation platform,and take the Starlink and Hadoop as realistic examples for simulations.The results indicate that LMCNs have dynamic end-to-end latency which fluctuates periodically with the constellation movement.Compared to ground data center networks(GDCNs),LMCNs deteriorate the computing and storage job throughput,which can be alleviated by the utilization of erasure codes and data flow scheduling of worker nodes.
基金supported by the National Natural Science Foundation of China(Grant Nos.52278407 and 52378407)the China Postdoctoral Science Foundation(Grant No.2023M732670)the support by the Postdoctoral Fellowship Program of China Postdoctoral Science Foundation.
文摘The widespread utilisation of tunnel boring machines(TBMs)in underground construction engineering requires a detailed investigation of the cutter-rock interaction.In this paper,we conduct a series of largescale standing rotary cutting tests on granite in conjunction with high-fidelity numerical simulations based on a particle-type discrete element method(DEM)to explore the effects of key cutting parameters on the TBM cutter performance and the distribution of cutter-rock contact stresses.The assessment results of cutter performance obtained from the cutting tests and numerical simulations reveal similar dependencies on the key cutting parameters.More specifically,the normal and rolling forces exhibit a positive correlation with penetration but are slightly influenced by the cutting radius.In contrast,the side force decreases as the cutting radius increases.Additionally,the side force shows a positive relationship with the penetration for smaller cutting radii but tends to become negative as the cutting radius increases.The cutter's relative effectiveness in rock breaking is significantly impacted by the penetration but shows little dependency on the cutting radius.Consequently,an optimal penetration is identified,leading to a low boreability index and specific energy.A combined Hertz-Weibull function is developed to fit the cutter-rock contact stress distribution obtained in DEM simulations,whereby an improved CSM(Colorado School of Mines)model is proposed by replacing the original monotonic cutting force distribution with this combined Hertz-Weibull model.The proposed model outperforms the original CSM model as demonstrated by a comparison of the estimated cutting forces with those from the tests/simulations.The findings from this work that advance our understanding of TBM cutter performance have important implications for improving the efficiency and reliability of TBM tunnelling in granite.
基金supported by the National Natural Science Foundation of China (No.50671010)
文摘Three-dimensional normal grain growth was appropriately simulated using a Potts model Monte Carlo algorithm. The quasi-stationary grain size distribution obtained from simulation agreed well with the experimental result of pure iron. The Weibull function with a parameter β=2.77 and the Yu-Liu function with a parameter v =2.71 fit the quasi-stationary grain size distribution well. The grain volume distribution is a function that decreased exponentially with increasing grain volume. The distribution of boundary area of grains has a peak at S/〈S〉=0.5, where S is the boundary area of a grain and 〈S〉 is the mean boundary area of all grains in the system. The lognormal function fits the face number distribution well and the peak of the face number distribution is f=10. The mean radius off-faced grains is not proportional to the face number, but appears to be related by a curve convex upward. In the 2D cross-section, both the perimeter law and the Aboav-Weaire law are observed to hold.
文摘An attempt has been made to develop a distributed software infrastructure model for onboard data fusion system simulation, which is also applied to netted radar systems, onboard distributed detection systems and advanced C3I systems. Two architectures are provided and verified: one is based on pure TCP/IP protocol and C/S model, and implemented with Winsock, the other is based on CORBA (common object request broker architecture). The performance of data fusion simulation system, i.e. reliability, flexibility and scalability, is improved and enhanced by two models. The study of them makes valuable explore on incorporating the distributed computation concepts into radar system simulation techniques.
文摘Based on MATRIXx, a universal real-time visual distributed simulation system is developed. The system can receive different input data from network or local terminal. Application models in the simulation modules can automatically get such data to be analyzed and calculated, and then produce real-time simulation control information. Meanwhile, this paper designs relevant simulation components to implement the input and output data, which can guarantee the real-time and universal of the data transmission. Result of the experimental system shows that the real-time performance of the simulation is perfect.
文摘The microstructures and thermodynamic properties of mixed systems comprising pyridinium ionic liquid[HPy][BF_(4)]and acetonitrile at different mole fractions were studied using molecular dynamics simulation in this work.The following properties were determined:density,self-diffusion coefficient,excess molar volume,and radial distribution function.The results show that with an increase in the mole fraction of[HPy][BF_(4)],the self-diffusion coefficient decreases.Additionally,the excess molar volume initially decreases,reaches a minimum,and then increases.The rules of radial distribution functions(RDFs)of characteristic atoms are different.With increasing the mole fraction of[HPy][BF_(4)],the first peak of the RDFs of HA1-F decreases,while that of CT6-CT6 rises at first and then decreases.This indicates that the solvent molecules affect the polar and non-polar regions of[HPy][BF_(4)]differently.
基金National Natural Science Foundation under Grant Nos.51179093,91215301 and 41274106the Specialized Research Fund for the Doctoral Program of Higher Education under Grant No.20130002110032Tsinghua University Initiative Scientific Research Program under Grant No.20131089285
文摘A solution scheme is proposed in this paper for an existing RTDHT system to simulate large-scale finite element (FE) numerical substructures. The analysis of the FE numerical substructure is split into response analysis and signal generation tasks, and executed in two different target computers in real-time. One target computer implements the response analysis task, wherein a large time-step is used to solve the FE substructure, and another target computer implements the signal generation task, wherein an interpolation program is used to generate control signals in a small time-step to meet the input demand of the controller. By using this strategy, the scale of the FE numerical substructure simulation may be increased significantly. The proposed scheme is initially verified by two FE numerical substructure models with 98 and 1240 degrees of freedom (DOFs). Thereafter, RTDHTs of a single frame-foundation structure are implemented where the foundation, considered as the numerical substructure, is simulated by the FE model with 1240 DOFs. Good agreements between the results of the RTDHT and those from the FE analysis in ABAQUS are obtained.
文摘The development process as well as the core theory of distributed interactive simulation and high level architecture are discussed, and combined with graphics features, a system of real time distributed visual simulation is established. Based on computer network, simulation platform is built by installing related software and modeling object, and the interactive functions are extended by programming. A set of solutions for building a distributed visual simulation system that include both hardware and software are put forward, and a practical instance is also provided. The whole building process can be summarized into two steps that are scheme consideration and system realization.
基金Supported by the National Natural Science Foundation of China(No.61401496)
文摘Aiming at the problems of unreliable data transmission,poor steadiness,nonsupport of complex data types,direct couple between data transmission and exchange,a high-level method based on advanced message queuing protocol( AMQP) is proposed to integrate naval distributed tactical training simulation system after serious consideration with current information exchange features of military combat system. Transferring layer in traditional user datagram protocol is implemented by publishing and subscribing scheme of message middleware. By creating message model to standardize message structure,integration architecture is formulated to resolve potential information security risks from inconsistent data type and express data transmission. Meanwhile,a communication model is put forward based on AMQP,which is in the center position of the whole transmission framework and responsible for reliably transferring battlefield data among subsystems. Experiments show that the method can accurately post amounts of data to the subscriber without error and loss,and can get excellent real-time performance of data exchange.
基金This work was supported in part by the National Natural Science Foundation of China(61772493)the CAAI-Huawei MindSpore Open Fund(CAAIXSJLJJ-2020-004B)+4 种基金the Natural Science Foundation of Chongqing(China)(cstc2019jcyjjqX0013)Chongqing Research Program of Technology Innovation and Application(cstc2019jscx-fxydX0024,cstc2019jscx-fxydX0027,cstc2018jszx-cyzdX0041)Guangdong Province Universities and College Pearl River Scholar Funded Scheme(2019)the Pioneer Hundred Talents Program of Chinese Academy of Sciencesthe Deanship of Scientific Research(DSR)at King Abdulaziz University(G-21-135-38).
文摘Protein-protein interactions are of great significance for human to understand the functional mechanisms of proteins.With the rapid development of high-throughput genomic technologies,massive protein-protein interaction(PPI)data have been generated,making it very difficult to analyze them efficiently.To address this problem,this paper presents a distributed framework by reimplementing one of state-of-the-art algorithms,i.e.,CoFex,using MapReduce.To do so,an in-depth analysis of its limitations is conducted from the perspectives of efficiency and memory consumption when applying it for large-scale PPI data analysis and prediction.Respective solutions are then devised to overcome these limitations.In particular,we adopt a novel tree-based data structure to reduce the heavy memory consumption caused by the huge sequence information of proteins.After that,its procedure is modified by following the MapReduce framework to take the prediction task distributively.A series of extensive experiments have been conducted to evaluate the performance of our framework in terms of both efficiency and accuracy.Experimental results well demonstrate that the proposed framework can considerably improve its computational efficiency by more than two orders of magnitude while retaining the same high accuracy.
文摘Simulation of a class of delay stochastic system with distributed parameter is discussed. Difference schemes for the numerical computation of delay stochastic system are obtained. The precision of the difference scheme and the efficiency of the difference scheme in simulation of delay stochastic system with distributed parameter are analyzed. Examples are given to illustrate the application of the method.
文摘We analyze a large-scale molecular dynamics simulation of work hardening in a model system of a ductile solid. With tensile loading, we observe emission of thousands of dislocations from two sharp cracks. The dislocations interact in a complex way, revealing three fundamental mechanisms of work-hardening in this ductile material. These are (1) dislocation cutting processes, jog formation and generation of trails of point defects; (2) activation of secondary slip systems by Frank-Read and cross-slip mechanisms; and (3) formation of sessile dislocations such as Lomer-Cottrell locks. We report the discovery of a new class of point defects referred to as trail of partial point defects, which could play an important role in situations when partial dislocations dominate plasticity. Another important result of the present work is the rediscovery of the Fleischer-mechanism of cross-slip of partial dislocations that was theoretically proposed more than 50 years ago, and is now, for the first time, confirmed by atomistic simulation. On the typical time scale of molecular dynamics simulations, the dislocations self-organize into a complex sessile defect topology. Our analysis illustrates numerous mechanisms formerly only conjectured in textbooks and observed indirectly in experiments. It is the first time that such a rich set of fundamental phenomena have been revealed in a single computer simulation, and its dynamical evolution has been studied. The present study exemplifies the simulation and analysis of the complex nonlinear dynamics of a many-particle system during failure using ultra-large scale computing.
文摘With the purpose of making calculation more efficient in practical hydraulic simulations, an improved algorithm was proposed and was applied in the practical water distribution field. This methodology was developed by expanding the traditional loop-equation theory through utilization of the advantages of the graph theory in efficiency. The utilization of the spanning tree technique from graph theory makes the proposed algorithm efficient in calculation and simple to use for computer coding. The algorithms for topological generation and practical implementations are presented in detail in this paper. Through the application to a practical urban system, the consumption of the CPU time and computation memory were decreased while the accuracy was greatly enhanced compared with the present existing methods.
基金the Ministerial Level Advanced Research Foundation
文摘In the large-scale distributed hardware-in-the-loop radar simulation system based on HLA, a new solution of processing after acquisition is proposed, which separates the software subsystem from the hardware jammer subsystem by a response database, so as to settle the problem, that the software subsystem can not meet the real-time need of the hardware, with very little increment of code. And the data completeness and feasibility of this solution are discussed.
文摘In order to improve the efficiency of data distributed management service in distributed interactive simulation based on high level architecture (HLA) and to reduce the network traffic and save the system resource, the approaches of multicast grouping in HLA-based distributed interactive simulation are discussed. Then a new dynamic multicast grouping approach is proposed. This approach is based on the current publication and subscription region in the process of simulation. The results of simulation experiment show that this approach can significantly reduce the message overhead and use fewer multicast groups.
基金supported in part by the National Natural Science Foundation of China(Nos.10135020 and 10575032)
文摘The dynamics of secondary large-scale structures in electron-temperature-gradient (ETG) turbulence is investigated based on gyrofluid simulations in sheared slab geometry. It is found that structural bifurcation to zonal flow dominated or streamer-like states depends on the spectral anisotropy of turbulent ETG fluctuation, which is governed by the magnetic shear. The turbulent electron transport is suppressed by enhanced zonal flows. However, it is still low even if the streamer is formed in ETG turbulence with strong shears. It is shown that the low transport may be related to the secondary excitation of poloidal long-wavelength mode due to the beat wave of the most unstable components or a modulation instability. This large-scale structure with a low frequency and a long wavelength may saturate, or at least contribute to the saturation of ETG fluctuations through a poloidal mode coupling. The result suggests a low fluctuation level in ETG turbulence.
文摘Simulation has become the evaluation method of choice for many areas of distributing computing research. Simulation has been applied successfully for modeling small and large complex systems and understanding their behavior, especially in the area of distributed systems or parallel environment. The aim of my research is to study and qualitative analysis of simulation on a single server & on distributed environment and finding the related issues & its comparison.
基金Supported by the National Natural Science Foundation of China(No.61201086,61272495)the China Scholarship Council(No.201506375060)+1 种基金the Planned Science and Technology Project of Guangdong Province(No.2013B090500007) the Dongguan Project on the Integration of Industry,Education and Research(No.2014509102205)
文摘An antenna selection algorithm based on large-scale fading between the transmitter and receiver is proposed for the uplink receive antenna selection in distributed multiple-input multiple-output(D-MIMO) systems. By utilizing the radio access units(RAU) selection based on large-scale fading,the proposed algorithm decreases enormously the computational complexity. Based on the characteristics of distributed systems,an improved particle swarm optimization(PSO) has been proposed for the antenna selection after the RAU selection. In order to apply the improved PSO algorithm better in antenna selection,a general form of channel capacity was transformed into a binary expression by analyzing the formula of channel capacity. The proposed algorithm can make full use of the advantages of D-MIMO systems,and achieve near-optimal performance in terms of channel capacity with low computational complexity.
文摘This paper investigates large-scale distributed system design. It looks at features, main design considerations and provides the Netflix API, Cassandra and Oracle as examples of such systems. Moreover, the paper investigates the challenges of designing, developing, deploying, and maintaining such systems, in regard to the features presented. Finally, the paper discusses aspects of available solutions and current practices to challenges that large-scale distributed systems face.