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Wyniki wyszukiwania dla: molecular dynamic simulation
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Simulation of Parallel Applications on Large-scale Distributed Systems
PublikacjaThis chapter has a form of a review article in the field of simulating High-Performance Computing systems. We justify the need for a new versatile simulator considering heterogeneity, energy efficiency and reliability of HPC systems. We sketch the problems that need to be solved by such simulator and rationalize using discrete-event simulation for this purpose. Based on a review of existing discrete-event HPC simulation solutions...
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Dynamic load tests of piles in non-cohesive soils.
PublikacjaThe results of investigations of various types of piles, the analysis of dynamic tests carried out recently in Poland and the correlations between the results of dynamic and static tests of piles are presented. Przedstawiono wyniki badań nośności różnych rodzajów pali, analizę badań dynamicznych wykonanych w Polsce w ostatnich latach oraz korelacje pomiędzy wynikami badań statycznych i dynamicznych.
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Anisotropic mechanical behavior and auxeticity of penta-graphene: Molecular statics/molecular dynamics studies
PublikacjaWe investigate the mechanical properties of penta-graphene (PG), a recently proposed two-dimensional carbon allotrope using atomistic simulation techniques combined with the empirical description of interatomic interactions. We report on the dependence of its three in-plane mechanical moduli (i.e. Young's modulus, Poisson's ratio and shear modulus) on the deformation direction, strain and temperature. We show that PG displays a...
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Electromagnetic Simulation with 3D FEM for Design Automation in 5G Era
PublikacjaElectromagnetic simulation and electronic design automation (EDA) play an important role in the design of 5G antennas and radio chips. The simulation challenges include electromagnetic effects and long simulation time and this paper focuses on simulation software based on finite-element method (FEM). The state-of-the-art EDA software using novel computational techniques based on FEM can not only accelerate numerical analysis, but...
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The modyfication of the dynamic characteristics of vibratory conveyor
PublikacjaThe vibratory conveyors are used in the industry for continuous transportation of loose substances on distance up to 20meters. These conveyors are often suspended on expensive and massive frames, which are softly vibroisolated from the ground. As a result, they transfer significant dynamic forces on the ground. In case of 5 - 20 meter-long devices, the biggest construction problems are proper vibrations of the panel caused by bilateral...
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Dynamic variables limitation for backstepping control of induction machine and voltage source converter
PublikacjaDynamic variables limitation for backstepping control of induction machine and voltage source converter The paper presents the method of control of an induction squirrel-cage machine supplied by a voltage source converter. The presented idea is based on an innovative method of the voltage source converter control, consisting in direct joining of the motor control system with the voltage source rectifier control system. The combined...
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Evolutionary Algorithm for Selecting Dynamic Signatures Partitioning Approach
PublikacjaIn the verification of identity, the aim is to increase effectiveness and reduce involvement of verified users. A good compromise between these issues is ensured by dynamic signature verification. The dynamic signature is represented by signals describing the position of the stylus in time. They can be used to determine the velocity or acceleration signal. Values of these signals can be analyzed, interpreted, selected, and compared....
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Multi-agent large-scale parallel crowd simulation
PublikacjaThis paper presents design, implementation and performance results of a new modular, parallel, agent-based and large scale crowd simulation environment. A parallel application, implemented with C and MPI, was implemented and run in this parallel environment for simulation and visualization of an evacuation scenario at Gdansk University of Technology, Poland and further in the area of districts of Gdansk. The application uses a...
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Mechanical simulation of artificial gravity in torus-shaped and cylindrical spacecraft
PublikacjaLarge deformations and stress analyses in two types of space structures that are intended for people to live in space have been studied in this research. The structure under analysis is assumed to rotate around the central axis to create artificial gravitational acceleration equal to the gravity on the Earth's surface. The analysis is fully dynamic, which is formulated based on the energy method by using the first-order shear deformation...
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Evaluating experimental molecular physics studies of radiation damage in DNA*
PublikacjaThe field of Atomic and Molecular Physics (AMP) is a mature field exploring the spectroscopy, excitation, ionisation of atoms and molecules in all three phases. Understanding of the spectroscopy and collisional dynamics of AMP has been fundamental to the development and application of quantum mechanics and is applied across a broad range of disparate disciplines including atmospheric sciences, astrochemistry, combustion and environmental...
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Molecular properties with dual basis set methods
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Experimentation, material modelling and simulation of bonded joints with a flexible adhesive
PublikacjaThe paper deals with material parameters identification of a flexible adhesive and the numerical simulation of its behaviour in a single lap bonded joint. The material modelling was based on the simple shear and tensile-shear laboratory tests of the bonded joints made of thin aluminium and polyurethane plates with the flexible adhesive Terostat MS 9360 manufactured by Henkel AG & Co. The adhesive was considered as a hyperelastic...
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Model-based testing for execution algorithms in the simulation of cyber-physical systems
PublikacjaThe understanding of simulation semantics of a hybrid system is a challenge for computational engineers as it requires expertise in computer science, engineering, numerical methods, and mathematics at once. The testing methods for the execution of a simulation are being researched but not yet applied on the industrial level. Consequently, the semantics of the simulation becomes a critical artifact in the system development process....
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Dynamic Tests and Technical Monitoring of a Novel Sandwich Footbridge
PublikacjaA novel sandwich composite footbridge is described in this paper, for the first time after it has been put into operation over the Radunia River in the Pruszcz Gdański municipality. This paper presents results of dynamic tests and describes technical monitoring of the footbridge. The dynamic tests were conducted to estimate pedestrian comfort and were compared with the ones from numerical simulations made in the environment of...
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Fractional Order Dynamic Positioning Controller
PublikacjaImproving the performance of Dynamic Positioning System in such applications as station keeping, position mooring and slow speed references tracking requires improving the position and heading control precision. These goals can be achieved through the improvement of the ship control system. Fractional-order calculus is a very useful tool which extends classical, integer-order calculus and is used in contemporary modeling and control...
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Electrochemical simulation of enzymatic transformations studied for the selected antitumor acridine derivatives
PublikacjaThe elucidation of the metabolic pathways and the biotransformation mechanisms of potential drugs is a crucial point in drug development. It allows to know the activation routes of the new biologically active compounds, especially in respect to their possible toxicity. Generally, in vivo or in vitro experiments with liver microsomes or hepatocytes are performed. However, these testing schemes are tedious, time consuming and of...
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Active Dynamic Thermography in Medical Diagnostics
PublikacjaThis is an overview of active thermal imaging methods in medical diagnostics using external thermal stimulation. In this chapter, several clinical cases diagnosed using the active dynamic thermography method, ADT, are presented. Features of this technology are discussed and main advantages underlined. Applications in skin burn diagnostics and quantitative evaluation leading to modern classification of burned patients for further...
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Positron binding to alkali-metal hydrides: The role of molecular vibrations
PublikacjaThe bound vibrational levels for J=0 have been computed for the series of alkali-metal hydride molecules from LiH to RbH, including NaH and KH. For all four molecules the corresponding potential-energy curves have been obtained for each isolated species and for its positron-bound complex (e+XH). It is found that the calculated positron affinity values strongly depend on the molecular vibrational state for which they are obtained...
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Molecular Dynamics simulations of thermal conductivity of penta-graphene
PublikacjaThe thermal conductivity of penta-graphene (PG), a new two dimensional carbon allotrope and its dependence on temperature, strain, and direction are studied in this paper. The thermal conductivity of PG is investigated using a non-equilibrium molecular dynamics simulation (NEMD) with the Two Region Method by applying the optimized Tersoff interatomic potential. Our study shows that the thermal conductivity of PG (determined for...
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Consideration of dynamic loads in the determination of axle load spectra for pavement design
PublikacjaAxle load spectra constitute a crucial part of the data for pavement design and pavement distress analysis. Typically, axle load spectra represent static load from vehicles and do not include dynamic loads generated by vehicles in motion. While dynamic loads can significantly contribute to faster pavement distress, this fact is mostly omitted in pavement design methods. The paper presents a methodology for consideration of dynamic...
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Molecular Recognition in Complexes of TRF Proteins with Telomeric DNA
PublikacjaTelomeres are specialized nucleoprotein assemblies that protect the ends of linear chromosomes. In humans and many other species, telomeres consist of tandem TTAGGG repeats bound by a protein complex known as shelterin that remodels telomeric DNA into a protective loop structure and regulates telomere homeostasis. Shelterin recognizes telomeric repeats through its two major components known as Telomere Repeat-Binding Factors, TRF1...
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A Surveillance Of Dynamic Processes in Selected Mechatronic Systems
PublikacjaThe paper concerns development of original method of optimal control at energy performance index and its application to dynamic processes surveillance of some mechatronic systems. The latter concerns chatter vibration surveillance during highspeed slender milling of rigid details, as well as motion control of two-wheeled mobile platform. Results of on-line computer simulations and real performance on the target objects reflect...
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Static and dynamic concrete calculations: Breakable aggregates in DEM model
PublikacjaThe paper deals with the calculations of a 3-point bending beam under static and dynamic loads. The real microstructure was obtained from laboratory tests using micro-tomography images. The quasi-static results were compared directly with experimental data at both macro and micro levels. Subsequently, higher strain rates were applied to investigate dynamic effects. The study focused on the influence of dynamic loading on the macroscopic...
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Simulation model of IMS/NGN call processing performance
PublikacjaIn current telecommunications it is assumed that demands of the information society for quickly delivered services will be satisfied by the Next Generation Network (NGN) architecture, which includes IP Multimedia Subsystem (IMS) elements. To guarantee Quality of Service (QoS), proper design and dimensioning of NGN is absolutely necessary, for which appropriate models have to be proposed. As the NGN architecture is very complicated,...
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Mechanism of Binding of Antifungal Antibiotic Amphotericin B to Lipid Membranes: An Insight from Combined Single-Membrane Imaging, Microspectroscopy, and Molecular Dynamics
PublikacjaAmphotericin B is a lifesaving polyene antibiotic used in the treatment of systemic mycoses. Unfortunately, the pharmacological applicability of this drug is limited because of its severe toxic side effects. At the same time, the lack of a well-defined mechanism of selectivity hampers the efforts to rationally design safer derivatives. As the drug primarily targets the biomembranes of both fungi and humans, new insights into the...
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Simulation-Driven Design of Microstrip Antenna Subarrays
PublikacjaA methodology for computationally efficient simulation-driven design of microstrip antenna subarrays is presented. Our approach takes into account the effect of the feed (e.g., a corporate network) on the subarray side lobe level and allows adjusting both radiation and reflection responses of the structure under design within a single automated process. This process is realized as surrogate-based optimization that produces designs...
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Modelling of high frequency dynamic responses of engineering structures
PublikacjaModelling of high frequency dynamic responses of engineering structures, especially those related to wave propagation, is a real numerical challenge. Nowadays most of numerical models, used for that purpose, are based on the application of various finite element techniques. However, finite element discrete models may also be considered as possessing certain periodic structures, which may manifest themselves in particular scenarios....
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Simulation model for evaluation of packet sequence changed order of stream in DiffServ network
PublikacjaCurrent packet networks use a large variety of mechanisms which should support QoS (Quality of Service). One of those mechanisms is routing (calculating connection paths for incoming service requests). The most effective mechanism in QoS context is dynamic routing, which is based on the current network state described by the offered traffic matrix and link states. After switching between calculated available paths, connection...
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Control strategies and comparison of the Dynamic Voltage Restorer
PublikacjaThis paper focuses on a selection problems of mitigation of the voltage disturbance by of the Dynamic Voltage Restorers (DVR’s). In short form presented and discussed are the basis of different control strategies of the DVR. The main emphasis is placed on application of modern power electronic devices. Authors of this paper in particular occupy oneself with analysis of the power rating of the typically DVR topologies. These problems...
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Modeling and analysis of the effectiveness of the guard systemswith dynamic graphs
PublikacjaIn the following paper it will be presented a new model for analysis (in polynomial time) of the effectiveness of the guard systems. Therewill be presented its practical applications in problems such as searching for the weakest points of the system, planning guards' paths or cameras deployment, switching image from multiple cameras on several monitors, or interception of the intruder. This model is based on describing the guarded...
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Dynamic analysis of the railway bridge span under moving loads
PublikacjaThe first part of this paper provides a review of the state of knowledge of the dynamic behaviour of railway bridges under moving loads. Particular attention is paid to developments in modelling railway bridge loading and dynamic vehicle-span (structure) interaction. The most important aspects determining the advancements in this area of knowledge are identified. The contemporary techniques for defining bridge span finite element...
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Modeling and simulation of tool cycle in manufacturing cell
PublikacjaThe paper addresses issues concerning modeling and analysis of tool flow within a three-machine manufacturing cell used for small batch manufacturing of a definite spectrum of prismatic parts. The approach utilizes a method for job and tool allocation to work centers with limited number of machines and capacity of tool resources, based on the analysis of formalized relations: job - tool sets required. Selected tool flow control...
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Modelling, Simulation and Optimization of the Wavemaker in a Towing Tank
PublikacjaThe paper analyses the problem of experimental identification (frequency response), modelling and optimization of the towing tank wavemaker in the Scilab/Xcos environment. The experimental identification of the objects (the towing tank wavemaker placed in the hydrodynamic laboratory of the CTO S.A. Ship Design and Research Centre (CTO)) and the implementation of the models in the simulation environment, enable to perform: 1. tuning...
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DYNAMIC ANALYSIS OF THE RAILWAY BRIDGES IN POLAND WITH REGARDS TO HIGH-SPEED TRAINS PASSAGE ADJUSTMENT
PublikacjaThe dynamic analysis of the railway bridge in Tczew was carried out in the article as an example of such bridges adaptation suitability to handle high-speed trains. Calculations of railway bridges are greatly complicated and labor-consuming. The bridge model and a rolling stock passage simulation were developed in the SOFISTIK software. Three types of elements were used for the correct mapping of the structure in the calculation...
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Adaptive dynamic control allocation for over-actuated dynamic positioning system based on backstepping method in case of thruster faults
PublikacjaThe objective of the research considered in this paper is dynamic positioning of a nonlinear over-actuated marine vessel in the presence of limited information about thruster forces. First, the adaptive backstepping method is used to estimate the input matrix which will compensate partial loss of actuator effectiveness in the presence of actuator dynamics. Then, the adaptive commanded virtual forces and moment are allocated into...
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Transmission Protocol Simulation Framework For The Resource-Constrained Wireless Sensor Network
PublikacjaIn this paper a prototype framework for simulation of wireless sensor network and its protocols are presented. The framework simulates operation of a sensor network with data transmission, which enables simultaneous development of the sensor network software, its hardware and the protocols for wireless data transmission. An advantage of using the framework is converging simulation with the real software. Instead of creating...
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YADE - An extensible framework for the interactive simulation of multiscale, multiphase, and multiphysics particulate systems
PublikacjaThis contribution presents the key elements of YADE, an extensible open-source framework for dynamic simulations. During the past 19 years, YADE has evolved from "Yet Another Dynamic Engine"' to a versatile multiscale and multiphysics solver, counting a large, active, and growing community of users and developers. The computationally intense parts of the source code are written in C++, using flexible object models that allow for...
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Experimental study on static and dynamic properties of polymer mass
PublikacjaA new method of repairing damaged structures by filling the cracks with a specially prepared polymer mass has been recently proposed. This new and innovative technique, known as the Flexible Joint Method (FJM), is mainly dedicated to masonries and historical objects, where minimum intervention is permitted. The flexible joint bonds the disrupted elements and ensures further safe exploitation of a damaged structure. The aim of the...
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Dynamic Positioning Capability Assessment for Ship Design Purposes
PublikacjaThe article focuses on solving a problem of optimal thrust distribution over the actuators in a ship Dynamic Positioning, according to DNV-ST-0111 standard, Level 1. The classic Quadratic Programming approach is combined with the numerical solusion used to handle the propeller with the rudder constraints in the optimization task and the influence between thrusters and skeg. It is presented as an efficient method of minimizing the...
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Molecular structures of two E-azobenzocrown ethers
PublikacjaRentgenowska analiza strukturalna monokryształów posłużyła do scharakteryzowania struktury izomerów E dwóch azobenzokoron: 13- i 16-członowej. Oba związki krystalizują w układzie jednoskośnym. W komórce elementarnej, w każdym przypadku znajdują się dwie niezależne cząsteczki, różniące się konformacją, szczególnie łańcucha eterowego. Porównując konformacje ''wolnych'' makrocykli z konformacjami ich kompleksów z jonami metali wskazano,...
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Economic benefits of dynamic charging of electric buses
PublikacjaDiesel engines buses are still the most used type of buses. Electric buses provide promising green alternatives and a lot of advantages, but their main disadvantages are limited travel range and long charging time. This article is a presentation of innovative solution for charging of electric busses - Dynamic Charging (IMC). The modern IMC system in Solingen was presented. At the end of the article, a proposal was made to introduce...
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Dynamic tests of composite footbridge segment – experimental and numerical studies
PublikacjaExperimental dynamic tests and numerical simulations of a 3 meters long segment of a footbridge made of polymer composites are presented in the paper. The span-length is reduced, however dimensions of cross-section are the same as the target footbridge. The segment structure is made of sandwich panels, which consist of fibre reinforced polymer (GFRP) laminates (skins) and a PET foam (core). The first part of the paper contains...
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ANALYSIS OF IMPACT of SHIP model parameters on changes of control quality index in ship dynamic positioning system
PublikacjaIn this work there is presented an analysis of impact of ship model parameters on changes of control quality index in a ship dynamic positioning system designed with the use of a backstepping adaptive controller. Assessment of the impact of ship model parameters was performed on the basis of Pareto-Lorentz curves and ABC method in order to determine sets of the parameters which have either crucial, moderate or low impact on objective...
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Explicit solvent repulsive scaling replica exchange molecular dynamics ( RS‐REMD ) in molecular modeling of protein‐glycosaminoglycan complexes
PublikacjaGlycosaminoglcyans (GAGs), linear anionic periodic polysaccharides, are crucial for many biologically relevant functions in the extracellular matrix. By interacting with proteins GAGs mediate processes such as cancer development, cell proliferation and the onset of neurodegenerative diseases. Despite this eminent importance of GAGs, they still represent a limited focus for the computational community in comparison to other classes...
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Simulation of Signal Propagation Along Fractional-Order Transmission Lines
PublikacjaIn this paper, the simulation method of signal propagation along fractional-order (FO) transmission lines is presented. Initially, fractional calculus and the model of FO transmission line are introduced. Then, the algorithm allowing for simulation of the nonmonochromatic wave propagation along FO transmission lines is presented. It employs computations in the frequency domain, i.e., an analytical excitation is transformed to the...
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Fatty acids as molecular carriers in cleavable antifungal conjugates
PublikacjaConjugates composed of C2-18 fatty acid (FA) residues as a molecular carrier and 5-fluorocytosine (5-FC) as an active agent, released upon the action of intracellular esterases on the ester bond between FA and “trimethyl lock” intramolecular linker, demonstrate good in vitro activity against human pathogenic yeasts of Candida spp. The minimal inhibitory concentrations (MIC) values for the most active conjugates containing caprylic...
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Adaptive filtering approach to dynamic weighing: a checkweigher case study
PublikacjaDynamic weighing, i.e., weighing of objects in motion, with out stopping them on the weighing platform, allows one to increase the rate of operation of automatic weighing systems used in industrial production processes without compromising their accuracy. The paper extends and compares two approaches to dynamic weighing, based on system identification and variable-bandwidth filtering, respectively. Experiments, carried on a conveyor...
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Telomerase inhibition - unfulfilled hopes in the perfect molecular target
PublikacjaTelomerase plays a pivotal role in cell proliferation, homeostasis, and neoplastic transformation, making it a promising molecular target for cancer chemotherapy. Of note, although hTERT has been explored thoroughly as a target, none of the promising molecules has been approved as a drug until now. The subject of research conducted as part of my doctoral dissertation is explaining the cellular and molecular mechanism of action...
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Simulation of parallel similarity measure computations for large data sets
PublikacjaThe paper presents our approach to implementation of similarity measure for big data analysis in a parallel environment. We describe the algorithm for parallelisation of the computations. We provide results from a real MPI application for computations of similarity measures as well as results achieved with our simulation software. The simulation environment allows us to model parallel systems of various sizes with various components...
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Simulation Environment in Python for Ship Encounter Situations
PublikacjaTo assess the risk of collision in radar navigation distance-based safety measures such as Distance at the Closest Point of Approach and Time to the Closest Point of Approach are most commonly used. Also Bow Crossing Range and Bow Crossing Time measures are good complement to the picture of the meeting situation. When ship safety domain is considered then Degree of Domain Violation and Time to Domain Violation can be applied. This...