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Numerical simulation of the process of activation of the safety valve
Computer Research and Modeling, 2018, v. 10, no. 4, pp. 495-509Views (last year): 34. Citations: 1 (RSCI).The conjugate problem of disk movement into gas-filled volume of the spring-type safety valve is solved. The questions of determining the physically correct value of the disk initial lift are considered. The review of existing approaches and methods for solving of such type problems is conducted. The formulation of the problem about the valve actuation when the vessel pressure rises and the mathematical model of the actuation processes are given. A special attention to the binding of physical subtasks is paid. Used methods, numerical schemes and algorithms are described. The mathematical modeling is performed on basе the fundamental system of differential equations for viscous gas movement with the equation for displacement of disk valve. The solution of this problem in the axe symmetric statement is carried out numerically using the finite volume method. The results obtained by the viscous and inviscid models are compared. In an inviscid formulation this problem is solved using the Godunov scheme, and in a viscous formulation is solved using the Kurganov – Tadmor method. The dependence of the disk displacement on time was obtained and compared with the experimental data. The pressure distribution on the disk surface, velocity profiles in the cross sections of the gap for different disk heights are given. It is shown that a value of initial drive lift it does not affect on the gas flow and valve movement part dynamic. It can significantly reduce the calculation time of the full cycle of valve work. Immediate isotahs for various elevations of the disk are presented. The comparison of jet flow over critical section is given. The data carried out by two numerical experiments are well correlated with each other. So, the inviscid model can be applied to the numerical modeling of the safety valve dynamic.
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Methods and problems in the kinetic approach for simulating biological structures
Computer Research and Modeling, 2018, v. 10, no. 6, pp. 851-866Views (last year): 31.The biological structure is considered as an open nonequilibrium system which properties can be described on the basis of kinetic equations. New problems with nonequilibrium boundary conditions are introduced. The nonequilibrium distribution tends gradually to an equilibrium state. The region of spatial inhomogeneity has a scale depending on the rate of mass transfer in the open system and the characteristic time of metabolism. In the proposed approximation, the internal energy of the motion of molecules is much less than the energy of translational motion. Or in other terms we can state that the kinetic energy of the average blood velocity is substantially higher than the energy of chaotic motion of the same particles. We state that the relaxation problem models a living system. The flow of entropy to the system decreases in downstream, this corresponds to Shrödinger’s general ideas that the living system “feeds on” negentropy. We introduce a quantity that determines the complexity of the biosystem, more precisely, this is the difference between the nonequilibrium kinetic entropy and the equilibrium entropy at each spatial point integrated over the entire spatial region. Solutions to the problems of spatial relaxation allow us to estimate the size of biosystems as regions of nonequilibrium. The results are compared with empirical data, in particular, for mammals we conclude that the larger the size of animals, the smaller the specific energy of metabolism. This feature is reproduced in our model since the span of the nonequilibrium region is larger in the system where the reaction rate is shorter, or in terms of the kinetic approach, the longer the relaxation time of the interaction between the molecules. The approach is also used for estimation of a part of a living system, namely a green leaf. The problems of aging as degradation of an open nonequilibrium system are considered. The analogy is related to the structure, namely, for a closed system, the equilibrium of the structure is attained for the same molecules while in the open system, a transition occurs to the equilibrium of different particles, which change due to metabolism. Two essentially different time scales are distinguished, the ratio of which is approximately constant for various animal species. Under the assumption of the existence of these two time scales the kinetic equation splits in two equations, describing the metabolic (stationary) and “degradative” (nonstationary) parts of the process.
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Application of a balanced identification method for gap-filling in CO2 flux data in a sphagnum peat bog
Computer Research and Modeling, 2019, v. 11, no. 1, pp. 153-171Views (last year): 19.The method of balanced identification was used to describe the response of Net Ecosystem Exchange of CO2 (NEE) to change of environmental factors, and to fill the gaps in continuous CO2 flux measurements in a sphagnum peat bog in the Tver region. The measurements were provided in the peat bog by the eddy covariance method from August to November of 2017. Due to rainy weather conditions and recurrent periods with low atmospheric turbulence the gap proportion in measured CO2 fluxes at our experimental site during the entire period of measurements exceeded 40%. The model developed for the gap filling in long-term experimental data considers the NEE as a difference between Ecosystem Respiration (RE) and Gross Primary Production (GPP), i.e. key processes of ecosystem functioning, and their dependence on incoming solar radiation (Q), soil temperature (T), water vapor pressure deficit (VPD) and ground water level (WL). Applied for this purpose the balanced identification method is based on the search for the optimal ratio between the model simplicity and the data fitting accuracy — the ratio providing the minimum of the modeling error estimated by the cross validation method. The obtained numerical solutions are characterized by minimum necessary nonlinearity (curvature) that provides sufficient interpolation and extrapolation characteristics of the developed models. It is particularly important to fill the missing values in NEE measurements. Reviewing the temporary variability of NEE and key environmental factors allowed to reveal a statistically significant dependence of GPP on Q, T, and VPD, and RE — on T and WL, respectively. At the same time, the inaccuracy of applied method for simulation of the mean daily NEE, was less than 10%, and the error in NEE estimates by the method was higher than by the REddyProc model considering the influence on NEE of fewer number of environmental parameters. Analyzing the gap-filled time series of NEE allowed to derive the diurnal and inter-daily variability of NEE and to obtain cumulative CO2 fluxs in the peat bog for selected summer-autumn period. It was shown, that the rate of CO2 fixation by peat bog vegetation in August was significantly higher than the rate of ecosystem respiration, while since September due to strong decrease of GPP the peat bog was turned into a consistent source of CO2 for the atmosphere.
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Neuro-fuzzy model of fuzzy rules formation for objects state evaluation in conditions of uncertainty
Computer Research and Modeling, 2019, v. 11, no. 3, pp. 477-492Views (last year): 12.This article solves the problem of constructing a neuro-fuzzy model of fuzzy rules formation and using them for objects state evaluation in conditions of uncertainty. Traditional mathematical statistics or simulation modeling methods do not allow building adequate models of objects in the specified conditions. Therefore, at present, the solution of many problems is based on the use of intelligent modeling technologies applying fuzzy logic methods. The traditional approach of fuzzy systems construction is associated with an expert attraction need to formulate fuzzy rules and specify the membership functions used in them. To eliminate this drawback, the automation of fuzzy rules formation, based on the machine learning methods and algorithms, is relevant. One of the approaches to solve this problem is to build a fuzzy neural network and train it on the data characterizing the object under study. This approach implementation required fuzzy rules type choice, taking into account the processed data specificity. In addition, it required logical inference algorithm development on the rules of the selected type. The algorithm steps determine the number and functionality of layers in the fuzzy neural network structure. The fuzzy neural network training algorithm developed. After network training the formation fuzzyproduction rules system is carried out. Based on developed mathematical tool, a software package has been implemented. On its basis, studies to assess the classifying ability of the fuzzy rules being formed have been conducted using the data analysis example from the UCI Machine Learning Repository. The research results showed that the formed fuzzy rules classifying ability is not inferior in accuracy to other classification methods. In addition, the logic inference algorithm on fuzzy rules allows successful classification in the absence of a part of the initial data. In order to test, to solve the problem of assessing oil industry water lines state fuzzy rules were generated. Based on the 303 water lines initial data, the base of 342 fuzzy rules was formed. Their practical approbation has shown high efficiency in solving the problem.
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CFD analysis of hemodynamics in idealized abdominal aorta-renal artery junction: preliminary study to locate atherosclerotic plaque
Computer Research and Modeling, 2019, v. 11, no. 4, pp. 695-706Views (last year): 3.Atherosclerotic diseases such as carotid artery diseases (CAD) and chronic kidney diseases (CKD) are the major causes of death worldwide. The onset of these atherosclerotic diseases in the arteries are governed by complex blood flow dynamics and hemodynamic parameters. Atherosclerosis in renal arteries leads to reduction in arterial efficiency, which ultimately leads to Reno-vascular hypertension. This work attempts to identify the localization of atherosclerotic plaque in human abdominal aorta — renal artery junction using Computational fluid dynamics (CFD).
The atherosclerosis prone regions in an idealized human abdominal aorta-renal artery junction are identified by calculating relevant hemodynamic indicators from computational simulations using the rheologically accurate shear-thinning Yeleswarapu model for human blood. Blood flow is numerically simulated in a 3-D model of the artery junction using ANSYS FLUENT v18.2.
Hemodynamic indicators calculated are average wall shear stress (AWSS), oscillatory shear index (OSI), and relative residence time (RRT). Simulations of pulsatile flow (f=1.25 Hz, Re = 1000) show that low AWSS, and high OSI manifest in the regions of renal artery downstream of the junction and on the infrarenal section of the abdominal aorta lateral to the junction. High RRT, which is a relative index and dependent on AWSS and OSI, is found to overlap with the low AWSS and high OSI at the cranial surface of renal artery proximal to the junction and on the surface of the abdominal aorta lateral to the bifurcation: this indicates that these regions of the junction are prone to atherosclerosis. The results match qualitatively with the findings reported in literature and serve as initial step to illustrate utility of CFD for the location of atherosclerotic plaque.
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Quantitative analysis of “structure – anticancer activity” and rational molecular design of bi-functional VEGFR-2/HDAC-inhibitors
Computer Research and Modeling, 2019, v. 11, no. 5, pp. 911-930Inhibitors of histone deacetylases (HDACi) have considered as a promising class of drugs for the treatment of cancers because of their effects on cell growth, differentiation, and apoptosis. Angiogenesis play an important role in the growth of most solid tumors and the progression of metastasis. The vascular endothelial growth factor (VEGF) is a key angiogenic agent, which is secreted by malignant tumors, which induces the proliferation and the migration of vascular endothelial cells. Currently, the most promising strategy in the fight against cancer is the creation of hybrid drugs that simultaneously act on several physiological targets. In this work, a series of hybrids bearing N-phenylquinazolin-4-amine and hydroxamic acid moieties were studied as dual VEGFR-2/HDAC inhibitors using simplex representation of the molecular structure and Support Vector Machine (SVM). The total sample of 42 compounds was divided into training and test sets. Five-fold cross-validation (5-fold) was used for internal validation. Satisfactory quantitative structure—activity relationship (QSAR) models were constructed (R2test = 0.64–0.87) for inhibitors of HDAC, VEGFR-2 and human breast cancer cell line MCF-7. The interpretation of the obtained QSAR models was carried out. The coordinated effect of different molecular fragments on the increase of antitumor activity of the studied compounds was estimated. Among the substituents of the N-phenyl fragment, the positive contribution of para bromine for all three types of activity can be distinguished. The results of the interpretation were used for molecular design of potential dual VEGFR-2/HDAC inhibitors. For comparative QSAR research we used physicochemical descriptors calculated by the program HYBOT, the method of Random Forest (RF), and on-line version of the expert system OCHEM (https://ochem.eu). In the modeling of OCHEM PyDescriptor descriptors and extreme gradient boosting was chosen. In addition, the models obtained with the help of the expert system OCHEM were used for virtual screening of 300 compounds to select promising VEGFR-2/HDAC inhibitors for further synthesis and testing.
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Mathematical and numerical modeling of a drop-shaped microcavity laser
Computer Research and Modeling, 2019, v. 11, no. 6, pp. 1083-1090This paper studies electromagnetic fields, frequencies of lasing, and emission thresholds of a drop-shaped microcavity laser. From the mathematical point of view, the original problem is a nonstandard two-parametric eigenvalue problem for the Helmholtz equation on the whole plane. The desired positive parameters are the lasing frequency and the threshold gain, the corresponding eigenfunctions are the amplitudes of the lasing modes. This problem is usually referred to as the lasing eigenvalue problem. In this study, spectral characteristics are calculated numerically, by solving the lasing eigenvalue problem on the basis of the set of Muller boundary integral equations, which is approximated by the Nystr¨om method. The Muller equations have weakly singular kernels, hence the corresponding operator is Fredholm with zero index. The Nyström method is a special modification of the polynomial quadrature method for boundary integral equations with weakly singular kernels. This algorithm is accurate for functions that are well approximated by trigonometric polynomials, for example, for eigenmodes of resonators with smooth boundaries. This approach leads to a characteristic equation for mode frequencies and lasing thresholds. It is a nonlinear algebraic eigenvalue problem, which is solved numerically by the residual inverse iteration method. In this paper, this technique is extended to the numerical modeling of microcavity lasers having a more complicated form. In contrast to the microcavity lasers with smooth contours, which were previously investigated by the Nyström method, the drop has a corner. We propose a special modification of the Nyström method for contours with corners, which takes also the symmetry of the resonator into account. The results of numerical experiments presented in the paper demonstrate the practical effectiveness of the proposed algorithm.
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Numerical study of intense shock waves in dusty media with a homogeneous and two-component carrier phase
Computer Research and Modeling, 2020, v. 12, no. 1, pp. 141-154The article is devoted to the numerical study of shock-wave flows in inhomogeneous media–gas mixtures. In this work, a two-speed two-temperature model is used, in which the dispersed component of the mixture has its own speed and temperature. To describe the change in the concentration of the dispersed component, the equation of conservation of “average density” is solved. This study took into account interphase thermal interaction and interphase pulse exchange. The mathematical model allows the carrier component of the mixture to be described as a viscous, compressible and heat-conducting medium. The system of equations was solved using the explicit Mac-Cormack second-order finite-difference method. To obtain a monotone numerical solution, a nonlinear correction scheme was applied to the grid function. In the problem of shock-wave flow, the Dirichlet boundary conditions were specified for the velocity components, and the Neumann boundary conditions were specified for the other unknown functions. In numerical calculations, in order to reveal the dependence of the dynamics of the entire mixture on the properties of the solid component, various parameters of the dispersed phase were considered — the volume content as well as the linear size of the dispersed inclusions. The goal of the research was to determine how the properties of solid inclusions affect the parameters of the dynamics of the carrier medium — gas. The motion of an inhomogeneous medium in a shock duct divided into two parts was studied, the gas pressure in one of the channel compartments is more important than in the other. The article simulated the movement of a direct shock wave from a high-pressure chamber to a low–pressure chamber filled with a dusty medium and the subsequent reflection of a shock wave from a solid surface. An analysis of numerical calculations showed that a decrease in the linear particle size of the gas suspension and an increase in the physical density of the material from which the particles are composed leads to the formation of a more intense reflected shock wave with a higher temperature and gas density, as well as a lower speed of movement of the reflected disturbance reflected wave.
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Simulation of pollution migration processes at municipal solid waste landfills
Computer Research and Modeling, 2020, v. 12, no. 2, pp. 369-385The article reports the findings of an investigation into pollution migration processes at the municipal solid waste (MSW) landfill located in the water protection zone of Lake Seliger (Tver Region). The distribution of pollutants is investigated and migration parameters are determined in field and laboratory conditions at the landfill site. A mathematical model describing physical and chemical processes of substance migration in soil strata is constructed. Pollutant migration is found to be due to a variety of factors. The major ones, having a significant impact on the migration of MSW ingredients and taken into account mathematically, include convective transport, diffusion and sorption processes. A modified mathematical model differs from its conventional counterparts by considering a number of parameters reflecting the decrease in the concentration of ammonium and nitrate nitrogen ions in ground water (transpiration by plant roots, dilution with infiltration waters, etc.). An analytical solution to assess the pollutant spread from the landfill is presented. The mathematical model provides a set of simulation models helping to obtain a computational solution of specific problems, vertical and horizontal migration of substances in the underground flow. Numerical experiments, analytical solutions, as well as field and laboratory data was studied the dynamics of pollutant distribution in the object under study up to the lake. A long-term forecast for the spread of landfill pollution is made. Simulation experiments showed that some zones of clean groundwater interact with those of contaminated groundwater during the pollution migration from the landfill, each characterized by a different pollutant content. The data of a computational experiments and analytical calculations are consistent with the findings of field and laboratory investigations of the object and give grounds to recommend the proposed models for predicting pollution migration from a landfill. The analysis of the pollution migration simulation allows to substantiate the numerical estimates of the increase in $NH_4^+$ and $NO_3^-$ ion concentration with the landfill operation time. It is found that, after 100 years following the landfill opening, toxic filtrate components will fill the entire pore space from the landfill to the lake resulting in a significant deterioration of the ecosystem of Lake Seliger.
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Computer simulation of the process soil treatment by tillage tools of soil processing machines
Computer Research and Modeling, 2020, v. 12, no. 3, pp. 607-627The paper analyzes the methods of studying the process of interaction of soil environments with the tillage tools of soil processing machines. The mathematical methods of numerical modeling are considered in detail, which make it possible to overcome the disadvantages of analytical and empirical approaches. A classification and overview of the possibilities the continuous (FEM — finite element method, CFD — computational fluid dynamics) and discrete (DEM — discrete element method, SPH — hydrodynamics of smoothed particles) numerical methods is presented. Based on the discrete element method, a mathematical model has been developed that represents the soil in the form of a set of interacting small spherical elements. The working surfaces of the tillage tool are presented in the framework of the finite element approximation in the form of a combination of many elementary triangles. The model calculates the movement of soil elements under the action of contact forces of soil elements with each other and with the working surfaces of the tillage tool (elastic forces, dry and viscous friction forces). This makes it possible to assess the influence of the geometric parameters of the tillage tools, technological parameters of the process and soil parameters on the geometric indicators of soil displacement, indicators of the self-installation of tools, power loads, quality indicators of loosening and spatial distribution of indicators. A total of 22 indicators were investigated (or the distribution of the indicator in space). This makes it possible to reproduce changes in the state of the system of elements of the soil (soil cultivation process) and determine the total mechanical effect of the elements on the moving tillage tools of the implement. A demonstration of the capabilities of the mathematical model is given by the example of a study of soil cultivation with a disk cultivator battery. In the computer experiment, a virtual soil channel of 5×1.4 m in size and a 3D model of a disk cultivator battery were used. The radius of the soil particles was taken to be 18 mm, the speed of the tillage tool was 1 m/s, the total simulation time was 5 s. The processing depth was 10 cm at angles of attack of 10, 15, 20, 25 and 30°. The verification of the reliability of the simulation results was carried out on a laboratory stand for volumetric dynamometry by examining a full-scale sample, made in full accordance with the investigated 3D-model. The control was carried out according to three components of the traction resistance vector: $F_x$, $F_y$ and $F_z$. Comparison of the data obtained experimentally with the simulation data showed that the discrepancy is not more than 22.2%, while in all cases the maximum discrepancy was observed at angles of attack of the disk battery of 30°. Good consistency of data on three key power parameters confirms the reliability of the whole complex of studied indicators.
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