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Search results for: parallel computational implementation
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DL_MG: A Parallel Multigrid Poisson and Poisson–Boltzmann Solver for Electronic Structure Calculations in Vacuum and Solution
PublicationThe solution of the Poisson equation is a crucial step in electronic structure calculations, yielding the electrostatic potential -- a key component of the quantum mechanical Hamiltonian. In recent decades, theoretical advances and increases in computer performance have made it possible to simulate the electronic structure of extended systems in complex environments. This requires the solution of more complicated variants of the...
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Computer experiments with a parallel clonal selection algorithm for the graph coloring problem
PublicationArtificial immune systems (AIS) are algorithms that are based on the structure and mechanisms of the vertebrate immune system. Clonal selection is a process that allows lymphocytes to launch a quick response to known pathogens and to adapt to new, previously unencountered ones. This paper presents a parallel island model algorithm based on the clonal selection principles for solving the Graph Coloring Problem. The performance of...
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Acceleration of the discrete Green's function computations
PublicationResults of the acceleration of the 3-D discrete Green's function (DGF) computations on the multicore processor are presented. The code was developed in the multiple precision arithmetic with use of the OpenMP parallel programming interface. As a result, the speedup factor of three orders of magnitude compared to the previous implementation was obtained thus applicability of the DGF in FDTD simulations was significantly improved.
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Symposium on Networked Systems, Design and Implementation
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International Conference on Implementation and Application of Automata
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A Workflow Application for Parallel Processing of Big Data from an Internet Portal
PublicationThe paper presents a workflow application for efficient parallel processing of data downloaded from an Internet portal. The workflow partitions input files into subdirectories which are further split for parallel processing by services installed on distinct computer nodes. This way, analysis of the first ready subdirectories can start fast and is handled by services implemented as parallel multithreaded applications using multiple...
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FPGA Acceleration of Matrix-Assembly Phase of RWG-Based MoM
PublicationIn this letter, the field-programmable-gate-array accelerated implementation of matrix-assembly phase of the method of moments (MoM) is presented. The solution is based on a discretization of the frequency-domain mixed potential integral equation using the Rao-Wilton-Glisson basis functions and their extension to wire-to-surface junctions. To take advantage of the given hardware resources (i.e., Xilinx Alveo U200 accelerator card),...
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Network-aware Data Prefetching Optimization of Computations in a Heterogeneous HPC Framework
PublicationRapid development of diverse computer architectures and hardware accelerators caused that designing parallel systems faces new problems resulting from their heterogeneity. Our implementation of a parallel system called KernelHive allows to efficiently run applications in a heterogeneous environment consisting of multiple collections of nodes with different types of computing devices. The execution engine of the system is open for...
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Testing for conformance of parallel programming pattern languages
PublicationThis paper reports on the project being run by TUG and IMAG, aimed at reducing the volume of tests required to exercise parallel programming language compilers and libraries. The idea is to use the ISO STEP standard scheme for conformance testing of software products. A detailed example illustrating the ongoing work is presented.
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Improving Effectiveness of SVM Classifier for Large Scale Data
PublicationThe paper presents our approach to SVM implementation in parallel environment. We describe how classification learning and prediction phases were pararellised. We also propose a method for limiting the number of necessary computations during classifier construction. Our method, named one-vs-near, is an extension of typical one-vs-all approach that is used for binary classifiers to work with multiclass problems. We perform experiments...
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Parallel Programming for Modern High Performance Computing Systems
PublicationIn view of the growing presence and popularity of multicore and manycore processors, accelerators, and coprocessors, as well as clusters using such computing devices, the development of efficient parallel applications has become a key challenge to be able to exploit the performance of such systems. This book covers the scope of parallel programming for modern high performance computing systems. It first discusses selected and...
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Computational Study of Molecular Interactions in ZnCl2(urea)2 Crystals as Precursors for Deep Eutectic Solvents
PublicationDeep eutectic solvents (DESs) are now enjoying an increased scientific interest due to their interesting properties and growing range of possible applications. Computational methods are at the forefront of deciphering their structure and dynamics. Type IV DESs, composed of metal chloride and a hydrogen bond donor, are among the less studied systems when it comes to their understanding at a molecular level. An important example...
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Bounds on the Cover Time of Parallel Rotor Walks
PublicationThe rotor-router mechanism was introduced as a deterministic alternative to the random walk in undirected graphs. In this model, a set of k identical walkers is deployed in parallel, starting from a chosen subset of nodes, and moving around the graph in synchronous steps. During the process, each node maintains a cyclic ordering of its outgoing arcs, and successively propagates walkers which visit it along its outgoing arcs in...
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Mechanism of recognition of parallel G-quadruplexes by DEAH/RHAU helicase DHX36 explored by molecular dynamics simulations
PublicationBecause of high stability and slow unfolding rates of G-quadruplexes (G4), cells have evolved specialized helicases that disrupt these non-canonical DNA and RNA structures in an ATP-dependent manner. One example is DHX36, a DEAH-box helicase, which participates in gene expression and replication by recognizing and unwinding parallel G4s. Here, we studied the molecular basis for the high affinity and specificity of DHX36 for parallel-type...
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Effective configuration of a double triad planar parallel manipulator for precise positioning of heavy details during their assembling process
PublicationIn the paper, dynamics analysis of a parallel manipulator is presented. It is an atypical manipulator, devoted to help in assembling of heavy industrial constructions. Few atypical properties are required: small workspace; slow velocities; high loads. Initially, a short discussion about definition of the parallel manipulators is presented, as well as the sketch of the proposed structure. In parallel, some definitions, assumptions...
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Performance evaluation of unified memory and dynamic parallelism for selected parallel CUDA applications
PublicationThe aim of this paper is to evaluate performance of new CUDA mechanisms—unified memory and dynamic parallelism for real parallel applications compared to standard CUDA API versions. In order to gain insight into performance of these mechanisms, we decided to implement three applications with control and data flow typical of SPMD, geometric SPMD and divide-and-conquer schemes, which were then used for tests and experiments. Specifically,...
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Parallel immune system for graph coloring
PublicationThis paper presents a parallel artificial immune system designed forgraph coloring. The algorithm is based on the clonal selection principle. Each processor operates on its own pool of antibodies and amigration mechanism is used to allow processors to exchange information. Experimental results show that migration improves the performance of the algorithm. The experiments were performed using a high performance cluster on a set...
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In-ADC, Rank-Order Filter for Digital Pixel Sensors
PublicationThis paper presents a new implementation of the rank-order filter, which is established on a parallel-operated array of single-slope (SS) analog-to-digital converters (ADCs). The SS ADCs use an “on-the-ramp processing” technique, i.e., filtration is performed along with analog-to-digital conversion, so the final states of the converters represent a filtered image. A proof-of-concept 64 × 64 array of SS ADCs, integrated with MOS...
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Optimization of Data Assignment for Parallel Processing in a Hybrid Heterogeneous Environment Using Integer Linear Programming
PublicationIn the paper we investigate a practical approach to application of integer linear programming for optimization of data assignment to compute units in a multi-level heterogeneous environment with various compute devices, including CPUs, GPUs and Intel Xeon Phis. The model considers an application that processes a large number of data chunks in parallel on various compute units and takes into account computations, communication including...
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Video Analytics-Based Algorithm for Monitoring Egress from Buildings
PublicationA concept and practical implementation of the algorithm for detecting of potentially dangerous situations of crowding in passages is presented. An example of such situation is a crush which may be caused by obstructed pedestrian pathway. Surveillance video camera signal analysis performed on line is employed in order to detect hold-ups near bottlenecks like doorways or staircases. The details of implemented algorithm which uses...
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Performance and Power-Aware Modeling of MPI Applications for Cluster Computing
PublicationThe paper presents modeling of performance and power consumption when running parallel applications on modern cluster-based systems. The model includes basic so-called blocks representing either computations or communication. The latter includes both point-to-point and collective communication. Real measurements were performed using MPI applications and routines run on three different clusters with both Infiniband and Gigabit Ethernet...
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Parallel multithread computing for spectroscopic analysis in optical coherence tomography
PublicationSpectroscopic Optical Coherence Tomography (SOCT) is an extension of Optical Coherence Tomography (OCT). It allows gathering spectroscopic information from individual scattering points inside the sample. It is based on time-frequency analysis of interferometric signals. Such analysis requires calculating hundreds of Fourier transforms while performing a single A-scan. Additionally, further processing of acquired spectroscopic information...
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International Conference on Experimental Implementation of Quantum Computation
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Symposium on Programming Language Implementation and Logic Programming
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Usenix Symposium on Operating Systems Design and Implementation
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Unix Symposium on Operating Systems Design and Implementation
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A New Approach for the Mitigating of Flow Maldistribution in Parallel Microchannel Heat Sink
PublicationThe problem of flow maldistribution is very critical in microchannel heat sinks (MCHS). It induces temperature nonuniformity, which may ultimately lead to the breakdown of associated system. In the present communication, a novel approach for the mitigation of flow maldistribution problem in parallel MCHS has been proposed using variable width microchannels. Numerical simulation of copper made parallel MCHS consisting of 25 channels...
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MERPSYS: An environment for simulation of parallel application execution on large scale HPC systems
PublicationIn this paper we present a new environment called MERPSYS that allows simulation of parallel application execution time on cluster-based systems. The environment offers a modeling application using the Java language extended with methods representing message passing type communication routines. It also offers a graphical interface for building a system model that incorporates various hardware components such as CPUs, GPUs, interconnects...
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Optimization of Execution Time under Power Consumption Constraints in a Heterogeneous Parallel System with GPUs and CPUs
PublicationThe paper proposes an approach for parallelization of computations across a collection of clusters with heterogeneous nodes with both GPUs and CPUs. The proposed system partitions input data into chunks and assigns to par- ticular devices for processing using OpenCL kernels defined by the user. The sys- tem is able to minimize the execution time of the application while maintaining the power consumption of the utilized GPUs and...
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Low-Power Receivers for Wireless Capacitive Coupling Transmission in 3-D-Integrated Massively Parallel CMOS Imager
PublicationThe paper presents pixel receivers for massively parallel transmission of video signal between capacitive coupled integrated circuits (ICs). The receivers meet the key requirements for massively parallel transmission, namely low-power consumption below a single μW, small area of less than 205 μm2, high sensitivity better than 160 mV, and good immunity to crosstalk. The receivers were implemented and measured in a 3-D IC (two face-to-face...
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Survey of Methodologies, Approaches, and Challenges in Parallel Programming Using High-Performance Computing Systems
PublicationThis paper provides a review of contemporary methodologies and APIs for parallel programming, with representative technologies selected in terms of target system type (shared memory, distributed, and hybrid), communication patterns (one-sided and two-sided), and programming abstraction level. We analyze representatives in terms of many aspects including programming model, languages, supported platforms, license, optimization goals,...
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Adaptive system for recognition of sounds indicating threats to security of people and property employing parallel processing of audio data streams
PublicationA system for recognition of threatening acoustic events employing parallel processing on a supercomputing cluster is featured. The methods for detection, parameterization and classication of acoustic events are introduced. The recognition engine is based onthreshold-based detection with adaptive threshold and Support Vector Machine classifcation. Spectral, temporal and mel-frequency descriptors are used as signal features. The...
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Massively parallel linear-scaling Hartree–Fock exchange and hybrid exchange–correlation functionals with plane wave basis set accuracy
PublicationWe extend our linear-scaling approach for the calculation of Hartree–Fock exchange energy using localized in situ optimized orbitals [Dziedzic et al., J. Chem. Phys. 139, 214103 (2013)] to leverage massive parallelism. Our approach has been implemented in the ONETEP (Order-N Electronic Total Energy Package) density functional theory framework, which employs a basis of non-orthogonal generalized Wannier functions (NGWFs) to achieve...
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Wpływ uwarunkowań rzeczywistych na pracę równoległego filtru aktywnego sterowanego ze sprzężeniem od prądu zasilającego
PublicationW artykule przedstawiono wpływ uwarunkowań rzeczywistych na pracę równoległego filtru aktywnego i zdolność kompensacji prądów harmonicznych. Zbadano wpływ opóźnień czasowych wynikających z implementacji cyfrowej sterowania, wpływ impedancji zwarciowej sieci zasilającej oraz błędów generowania napięcia przekształtnika na jakość kompensacji filtru. Badania symulacyjne przeprowadzono dla trzech układów sterowania: otwartego, zamkniętego...
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ACM-SIGPLAN Conference on Programming Language Design and Implementation
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Extended investigation of performance-energy trade-offs under power capping in HPC environments
Publication—In the paper we present investigation of performance-energy trade-offs under power capping using modern processors. The results are presented for systems targeted at both server and client markets and were collected from Intel Xeon E5 and Intel Xeon Phi server processors as well as from desktop and mobile Intel Core i7 processors. The results, when using power capping, show that we can find various interesting combinations of...
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Recognition of hazardous acoustic events employing parallel processing on a supercomputing cluster . Rozpoznawanie niebezpiecznych zdarzeń dźwiękowych z wykorzystaniem równoległego przetwarzania na klastrze superkomputerowym
PublicationA method for automatic recognition of hazardous acoustic events operating on a super computing cluster is introduced. The methods employed for detecting and classifying the acoustic events are outlined. The evaluation of the recognition engine is provided: both on the training set and using real-life signals. The algorithms yield sufficient performance in practical conditions to be employed in security surveillance systems. The...
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Single and Dual-GPU Generalized Sparse Eigenvalue Solvers for Finding a Few Low-Order Resonances of a Microwave Cavity Using the Finite-Element Method
PublicationThis paper presents two fast generalized eigenvalue solvers for sparse symmetric matrices that arise when electromagnetic cavity resonances are investigated using the higher-order finite element method (FEM). To find a few loworder resonances, the locally optimal block preconditioned conjugate gradient (LOBPCG) algorithm with null-space deflation is applied. The computations are expedited by using one or two graphical processing...
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Sensorless predictive control of three-phase parallel active filter
PublicationThe paper presents the control system of parallel active power filter (APF) with predictive reference current calculation and model based predictive current control. The novel estimator and predictor of grid emf is proposed for AC voltage sensorless operation of APF, regardless of distortion of this voltage. Proposed control system provides control of APF current with high precision and dynamics limited only by filter circuit parameters....
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Decentralized control of a different rated parallel UPS systems
PublicationThe paper presents the single phase uninterruptible power supply (UPS) system with galvanic separated DC-AC-DC-AC converters operating in parallel. The CAN physical layer based system of communication between converters has been developed and applied, which allow to utilize a decentralized master-slave control providing high availability factor of the whole UPS system. The control system of particular converters has been developed...
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Comparison of EHD devices with parallel and in series spiked electrodes
PublicationIn this paper two electrohydrodynamic (EHD) devices for gas pumping and cleaning are presented. In both cases to induce an airflow in these EHD devices corona discharge was used. The discharge was generated between the spiked electrodes set parallel (the first case) or in series (the second case) and the plate electrodes. An asymmetric electric field and generated discharge result in unidirectional gas flow through the EHD device....
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Assessment of OpenMP Master–Slave Implementations for Selected Irregular Parallel Applications
PublicationThe paper investigates various implementations of a master–slave paradigm using the popular OpenMP API and relative performance of the former using modern multi-core workstation CPUs. It is assumed that a master partitions available input into a batch of predefined number of data chunks which are then processed in parallel by a set of slaves and the procedure is repeated until all input data has been processed. The paper experimentally...
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Auto-tuning methodology for configuration and application parameters of hybrid CPU + GPU parallel systems based on expert knowledge
PublicationAuto-tuning of configuration and application param- eters allows to achieve significant performance gains in many contemporary compute-intensive applications. Feasible search spaces of parameters tend to become too big to allow for exhaustive search in the auto-tuning process. Expert knowledge about the utilized computing systems becomes useful to prune the search space and new methodologies are needed in the face of emerging heterogeneous...
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A new look at the statistical identification of nonstationary systems
PublicationThe paper presents a new, two-stage approach to identification of linear time-varying stochastic systems, based on the concepts of preestimation and postfiltering. The proposed preestimated parameter trajectories are unbiased but have large variability. Hence, to obtain reliable estimates of system parameters, the preestimated trajectories must be further filtered (postfiltered). It is shown how one can design and optimize such...
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A CMOS Pixel With Embedded ADC, Digital CDS and Gain Correction Capability for Massively Parallel Imaging Array
PublicationIn the paper, a CMOS pixel has been proposed for imaging arrays with massively parallel image acquisition and simultaneous compensation of dark signal nonuniformity (DSNU) as well as photoresponse nonuniformity (PRNU). In our solution the pixel contains all necessary functional blocks: a photosensor and an analog-to-digital converter (ADC) with built-in correlated double sampling (CDS) integrated together. It is implemented in...
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Performance Evaluation of the Parallel Codebook Algorithm for Background Subtraction in Video Stream
PublicationA background subtraction algorithm based on the codebook approach was implemented on a multi-core processor in a parallel form, using the OpenMP system. The aim of the experiments was to evaluate performance of the multithreaded algorithm in processing video streams recorded from monitoring cameras, depending on a number of computer cores used, method of task scheduling, image resolution and degree of image content variability....
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Further Developments of the Online Sound Restoration System for Digital Library Applications
PublicationNew signal processing algorithms were introduced to the online service for audio restoration available at the web address: www.youarchive.net. Missing or distorted audio samples are estimated using a specific implementation of the Jannsen interpolation method. The algorithm is based on the autoregressive model (AR) combined with the iterative complementation of signal samples. Since the interpolation algorithm is computationally...
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Online sound restoration system for digital library applications.
PublicationAudio signal processing algorithms were introduced to the new online non-commercial service for audio restoration intended to enhance the content of digitized audio repositories. Missing or distorted audio samples are predicted using neural networks and a specific implementation of the Jannsen interpolation method based on the autoregressive model (AR) combined with the iterative restoring of missing signal samples. Since the distortion...
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Edge-Guided Mode Performance and Applications in Nonreciprocal Millimeter-Wave Gyroelectric Components
PublicationThe analogies between the behavior of gyromagnetic and gyroelectric nonreciprocal structures, the use of the simple transfer matrix approach, and the edge-guided (EG) wave property, supported in a parallel plate model for integrated magnetized semiconductor waveguide, are investigated in those frequency regions, where the effective permittivity is negative or positive. As with their ferrite counterparts, the leakage of the EG waves...
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Benchmarking Parallel Chess Search in Stockfish on Intel Xeon and Intel Xeon Phi Processors
PublicationThe paper presents results from benchmarking the parallel multithreaded Stockfish chess engine on selected multi- and many-core processors. It is shown how the strength of play for an n-thread version compares to 1-thread version on both Intel Xeon and latest Intel Xeon Phi x200 processors. Results such as the number of wins, losses and draws are presented and how these change for growing numbers of threads. Impact of using particular...