WorldWideScience

Sample records for linear gyrokinetic predictions

  1. Gyrokinetic linearized Landau collision operator

    DEFF Research Database (Denmark)

    Madsen, Jens

    2013-01-01

    , which is important in multiple ion-species plasmas. Second, the equilibrium operator describes drag and diffusion of the magnetic field aligned component of the vorticity associated with the E×B drift. Therefore, a correct description of collisional effects in turbulent plasmas requires the equilibrium......The full gyrokinetic electrostatic linearized Landau collision operator is calculated including the equilibrium operator, which represents the effect of collisions between gyrokinetic Maxwellian particles. First, the equilibrium operator describes energy exchange between different plasma species...... operator, even for like-particle collisions....

  2. Modelling the turbulent transport of angular momentum in tokamak plasmas - A quasi-linear gyrokinetic approach

    International Nuclear Information System (INIS)

    Cottier, Pierre

    2013-01-01

    The magnetic confinement in tokamaks is for now the most advanced way towards energy production by nuclear fusion. Both theoretical and experimental studies showed that rotation generation can increase its performance by reducing the turbulent transport in tokamak plasmas. The rotation influence on the heat and particle fluxes is studied along with the angular momentum transport with the quasi-linear gyro-kinetic eigenvalue code QuaLiKiz. For this purpose, the QuaLiKiz code is modified in order to take the plasma rotation into account and compute the angular momentum flux. It is shown that QuaLiKiz framework is able to correctly predict the angular momentum flux including the E*B shear induced residual stress as well as the influence of rotation on the heat and particle fluxes. The major approximations of QuaLiKiz formalisms are reviewed, in particular the ballooning representation at its lowest order and the eigenfunctions calculated in the hydrodynamic limit. The construction of the quasi-linear fluxes is also reviewed in details and the quasi-linear angular momentum flux is derived. The different contributions to the turbulent momentum flux are studied and successfully compared both against non-linear gyro-kinetic simulations and experimental data. (author) [fr

  3. Linear relativistic gyrokinetic equation in general magnetically confined plasmas

    International Nuclear Information System (INIS)

    Tsai, S.T.; Van Dam, J.W.; Chen, L.

    1983-08-01

    The gyrokinetic formalism for linear electromagnetic waves of arbitrary frequency in general magnetic-field configurations is extended to include full relativistic effects. The derivation employs the small adiabaticity parameter rho/L 0 where rho is the Larmor radius and L 0 the equilibrium scale length. The effects of the plasma and magnetic field inhomogeneities and finite Larmor-radii effects are also contained

  4. Gyrokinetic neoclassical study of the bootstrap current in the tokamak edge pedestal with fully non-linear Coulomb collisions

    Energy Technology Data Exchange (ETDEWEB)

    Hager, Robert, E-mail: rhager@pppl.gov; Chang, C. S., E-mail: cschang@pppl.gov [Princeton Plasma Physics Laboratory, P.O. Box 451, Princeton, New Jersey 08543 (United States)

    2016-04-15

    As a follow-up on the drift-kinetic study of the non-local bootstrap current in the steep edge pedestal of tokamak plasma by Koh et al. [Phys. Plasmas 19, 072505 (2012)], a gyrokinetic neoclassical study is performed with gyrokinetic ions and drift-kinetic electrons. Besides the gyrokinetic improvement of ion physics from the drift-kinetic treatment, a fully non-linear Fokker-Planck collision operator—that conserves mass, momentum, and energy—is used instead of Koh et al.'s linearized collision operator in consideration of the possibility that the ion distribution function is non-Maxwellian in the steep pedestal. An inaccuracy in Koh et al.'s result is found in the steep edge pedestal that originated from a small error in the collisional momentum conservation. The present study concludes that (1) the bootstrap current in the steep edge pedestal is generally smaller than what has been predicted from the small banana-width (local) approximation [e.g., Sauter et al., Phys. Plasmas 6, 2834 (1999) and Belli et al., Plasma Phys. Controlled Fusion 50, 095010 (2008)], (2) the plasma flow evaluated from the local approximation can significantly deviate from the non-local results, and (3) the bootstrap current in the edge pedestal, where the passing particle region is small, can be dominantly carried by the trapped particles in a broad trapped boundary layer. A new analytic formula based on numerous gyrokinetic simulations using various magnetic equilibria and plasma profiles with self-consistent Grad-Shafranov solutions is constructed.

  5. A quasi-linear gyrokinetic transport model for tokamak plasmas

    International Nuclear Information System (INIS)

    Casati, A.

    2009-10-01

    After a presentation of some basics around nuclear fusion, this research thesis introduces the framework of the tokamak strategy to deal with confinement, hence the main plasma instabilities which are responsible for turbulent transport of energy and matter in such a system. The author also briefly introduces the two principal plasma representations, the fluid and the kinetic ones. He explains why the gyro-kinetic approach has been preferred. A tokamak relevant case is presented in order to highlight the relevance of a correct accounting of the kinetic wave-particle resonance. He discusses the issue of the quasi-linear response. Firstly, the derivation of the model, called QuaLiKiz, and its underlying hypotheses to get the energy and the particle turbulent flux are presented. Secondly, the validity of the quasi-linear response is verified against the nonlinear gyro-kinetic simulations. The saturation model that is assumed in QuaLiKiz, is presented and discussed. Then, the author qualifies the global outcomes of QuaLiKiz. Both the quasi-linear energy and the particle flux are compared to the expectations from the nonlinear simulations, across a wide scan of tokamak relevant parameters. Therefore, the coupling of QuaLiKiz within the integrated transport solver CRONOS is presented: this procedure allows the time-dependent transport problem to be solved, hence the direct application of the model to the experiment. The first preliminary results regarding the experimental analysis are finally discussed

  6. Gyrokinetic simulation of finite-β plasmas on parallel architectures

    International Nuclear Information System (INIS)

    Reynders, J.V.W.

    1993-01-01

    Much research exists on the linear and non-linear properties of plasma microinstabilities induced by density and temperature gradients. There has been an interest in the electromagnetic or finite-β effects on these microinstabilities. This thesis focuses on the finite-β modification of an ion temperature gradient (ITG) driven microinstability in a two-dimensional shearless and sheared-slab geometries. A gyrokinetic model is employed in the numerical and analytic studies of this instability. Chapter 1 introduces the electromagnetic gyrokinetic model employed in the numerical and analytic studies of the ITG instability. Some discussion of the Klimontovich particle representation of the gyrokinetic Vlasov equation and a multiple scale model of the background plasma gradient is presented. Chapter 2 details the computational issues facing an electromagnetic gyrokinetic particle simulation of the ITG mode. An electromagnetic extension of the partially linearized algorithm is presented with a comparison of quiet particle initialization routines. Chapter 3 presents and compares algorithms for the gyrokinetic particle simulation technique on SIMD and MIMD computing platforms. Chapter 4 discusses electromagnetic gyrokinetic fluctuation theory and provides a comparison of analytic and numerical results. Chapter 5 contains a linear and a non-linear three-wave coupling analysis of the finite-β modified ITG mode in a shearless slab geometry. Comparisons are made with linear and partially linearized gyrokinetic simulation results. Chapter 6 presents results from a finite-β modified ITG mode in a sheared slab geometry. The linear dispersion relation is derived and results from an integral eigenvalue code are presented. Comparisons are made with the gyrokinetic particle code in a variety of limits with both adiabatic and non-adiabatic electrons. Evidence of ITG driven microtearing is presented

  7. Global gyrokinetic and fluid hybrid simulations of tokamaks and stellarators

    Energy Technology Data Exchange (ETDEWEB)

    Cole, Michael David John

    2016-07-15

    simulations in this TAE case have been performed confirming the analytical prediction of a quadratic relationship between the linear growth rate of the TAE and the saturated amplitude of the TAE for a range of moderate values of the linear growth rate. At higher linear growth rate, a slower scaling of saturated amplitude with linear growth rate is observed. This analysis has been extended to include the non-linear wave-wave coupling between multiple TAE modes. It has been shown that wave-wave coupling results in a significant reduction in the saturated amplitude. It has been demonstrated that both plasma elongation and ion kinetic effects can exert a stabilising influence on the internal kink mode. A population of energetic particles can also exert a stabilising influence at low normalised pressure. At high normalised fast particle pressure the stabilised kink mode has been shown to give way to the m=1 EPM, which has been simulated both linearly and non-linearly (the 'fishbone' mode). The first self-consistent simulations of global modes in the magnetic geometry of the optimised stellarator Wendelstein 7-X have been performed both linearly and non-linearly. Limitations have been encountered in performing simulations in 3D geometry. A hypothesis for the cause of these problems is outlined and ideas for mitigation are briefly described. In addition to the hybrid model simulations, some of the first utilisations of a new scheme for mitigating the cancellation problem in the fully gyrokinetic regime have been carried out in the framework of this thesis. This scheme, which was developed separately, is concisely described in this work. The new scheme has been benchmarked with existing gyrokinetic and hybrid results. The linear Wendelstein 7-X simulations and linear and single mode non-linear TAE simulations have been repeated with the new model. It is shown that bulk plasma kinetics can suppress the growth rate of global modes in Wendelstein 7-X. The results of fully

  8. Global gyrokinetic and fluid hybrid simulations of tokamaks and stellarators

    International Nuclear Information System (INIS)

    Cole, Michael David John

    2016-01-01

    in this TAE case have been performed confirming the analytical prediction of a quadratic relationship between the linear growth rate of the TAE and the saturated amplitude of the TAE for a range of moderate values of the linear growth rate. At higher linear growth rate, a slower scaling of saturated amplitude with linear growth rate is observed. This analysis has been extended to include the non-linear wave-wave coupling between multiple TAE modes. It has been shown that wave-wave coupling results in a significant reduction in the saturated amplitude. It has been demonstrated that both plasma elongation and ion kinetic effects can exert a stabilising influence on the internal kink mode. A population of energetic particles can also exert a stabilising influence at low normalised pressure. At high normalised fast particle pressure the stabilised kink mode has been shown to give way to the m=1 EPM, which has been simulated both linearly and non-linearly (the 'fishbone' mode). The first self-consistent simulations of global modes in the magnetic geometry of the optimised stellarator Wendelstein 7-X have been performed both linearly and non-linearly. Limitations have been encountered in performing simulations in 3D geometry. A hypothesis for the cause of these problems is outlined and ideas for mitigation are briefly described. In addition to the hybrid model simulations, some of the first utilisations of a new scheme for mitigating the cancellation problem in the fully gyrokinetic regime have been carried out in the framework of this thesis. This scheme, which was developed separately, is concisely described in this work. The new scheme has been benchmarked with existing gyrokinetic and hybrid results. The linear Wendelstein 7-X simulations and linear and single mode non-linear TAE simulations have been repeated with the new model. It is shown that bulk plasma kinetics can suppress the growth rate of global modes in Wendelstein 7-X. The results of fully gyrokinetic TAE

  9. Non-linear gyrokinetic simulations of microturbulence in TCV electron internal transport barriers

    Science.gov (United States)

    Lapillonne, X.; Brunner, S.; Sauter, O.; Villard, L.; Fable, E.; Görler, T.; Jenko, F.; Merz, F.

    2011-05-01

    Using the local (flux-tube) version of the Eulerian code GENE (Jenko et al 2000 Phys. Plasmas 7 1904), gyrokinetic simulations of microturbulence were carried out considering parameters relevant to electron-internal transport barriers (e-ITBs) in the TCV tokamak (Sauter et al 2005 Phys. Rev. Lett. 94 105002), generated under conditions of low or negative shear. For typical density and temperature gradients measured in such barriers, the corresponding simulated fluctuation spectra appears to simultaneously contain longer wavelength trapped electron modes (TEMs, for typically k⊥ρi 0.5). The contributions to the electron particle flux from these two types of modes are, respectively, outward/inward and may cancel each other for experimentally realistic gradients. This mechanism may partly explain the feasibility of e-ITBs. The non-linear simulation results confirm the predictions of a previously developed quasi-linear model (Fable et al 2010 Plasma Phys. Control. Fusion 52 015007), namely that the stationary condition of zero particle flux is obtained through the competitive contributions of ITG and TEM. A quantitative comparison of the electron heat flux with experimental estimates is presented as well.

  10. Cross-code gyrokinetic verification and benchmark on the linear collisionless dynamics of the geodesic acoustic mode

    Science.gov (United States)

    Biancalani, A.; Bottino, A.; Ehrlacher, C.; Grandgirard, V.; Merlo, G.; Novikau, I.; Qiu, Z.; Sonnendrücker, E.; Garbet, X.; Görler, T.; Leerink, S.; Palermo, F.; Zarzoso, D.

    2017-06-01

    The linear properties of the geodesic acoustic modes (GAMs) in tokamaks are investigated by means of the comparison of analytical theory and gyrokinetic numerical simulations. The dependence on the value of the safety factor, finite-orbit-width of the ions in relation to the radial mode width, magnetic-flux-surface shaping, and electron/ion mass ratio are considered. Nonuniformities in the plasma profiles (such as density, temperature, and safety factor), electro-magnetic effects, collisions, and the presence of minority species are neglected. Also, only linear simulations are considered, focusing on the local dynamics. We use three different gyrokinetic codes: the Lagrangian (particle-in-cell) code ORB5, the Eulerian code GENE, and semi-Lagrangian code GYSELA. One of the main aims of this paper is to provide a detailed comparison of the numerical results and analytical theory, in the regimes where this is possible. This helps understanding better the behavior of the linear GAM dynamics in these different regimes, the behavior of the codes, which is crucial in the view of a future work where more physics is present, and the regimes of validity of each specific analytical dispersion relation.

  11. Gyrokinetic analysis of linear microinstabilities for the stellarator Wendelstein 7-X

    Science.gov (United States)

    Xanthopoulos, P.; Jenko, F.

    2007-04-01

    A linear collisionless gyrokinetic investigation of ion temperature gradient (ITG) modes—considering both adiabatic and full electron dynamics—and trapped electron modes (TEMs) is presented for the stellarator Wendelstein 7-X (W7-X) [G. Grieger et al., Plasma Physics and Controlled Nuclear Fusion Research 1990 (International Atomic Energy Agency, Vienna, 1991), Vol. 3, p. 525]. The study of ITG modes reveals that in W7-X, microinstabilities of distinct character coexist. The effect of changes in the density gradient and temperature ratio is discussed. Substantial differences with respect to the axisymmetric geometry appear in W7-X, concerning the relative separation of regions with a large fraction of helically trapped particles and those of pronounced bad curvature. For both ITG modes and TEMs, the dependence of their linear growth rates on the background gradients is studied along with their parallel mode structure.

  12. Non-linear gyrokinetic simulations of microturbulence in TCV electron internal transport barriers

    Energy Technology Data Exchange (ETDEWEB)

    Lapillonne, X; Brunner, S; Sauter, O; Villard, L [Centre de Recherches en Physique des Plasmas, Association EURATOM-Confederation Suisse, Ecole Polytechnique Federale de Lausanne, CH-1015 Lausanne (Switzerland); Fable, E; Goerler, T; Jenko, F; Merz, F, E-mail: stephan.brunner@epfl.ch [Max-Planck-Institut fuer Plasmaphysik, EURATOM Association, Boltzmannstrasse 2, D-85748 Garching (Germany)

    2011-05-15

    Using the local (flux-tube) version of the Eulerian code GENE (Jenko et al 2000 Phys. Plasmas 7 1904), gyrokinetic simulations of microturbulence were carried out considering parameters relevant to electron-internal transport barriers (e-ITBs) in the TCV tokamak (Sauter et al 2005 Phys. Rev. Lett. 94 105002), generated under conditions of low or negative shear. For typical density and temperature gradients measured in such barriers, the corresponding simulated fluctuation spectra appears to simultaneously contain longer wavelength trapped electron modes (TEMs, for typically k{sub p}erpendicular{rho}{sub i} < 0.5, k{sub p}erpendicular being the characteristic perpendicular wavenumber and {rho}{sub i} the ion Larmor radius) and shorter wavelength ion temperature gradient modes (ITG, k{sub p}erpendicular{rho}{sub i} > 0.5). The contributions to the electron particle flux from these two types of modes are, respectively, outward/inward and may cancel each other for experimentally realistic gradients. This mechanism may partly explain the feasibility of e-ITBs. The non-linear simulation results confirm the predictions of a previously developed quasi-linear model (Fable et al 2010 Plasma Phys. Control. Fusion 52 015007), namely that the stationary condition of zero particle flux is obtained through the competitive contributions of ITG and TEM. A quantitative comparison of the electron heat flux with experimental estimates is presented as well.

  13. Gyrokinetic simulations of neoclassical transport using a minimal collision operator

    International Nuclear Information System (INIS)

    Dif-Pradalier, G.; Grandgirard, V.; Sarazin, Y.; Garbet, X.; Ghendrih, Ph.; Angelino, P.

    2008-01-01

    Conventional neoclassical predictions are successfully recovered within a gyrokinetic framework using a minimal Fokker-Planck collision operator. This operator is shown to accurately describe some essential features of neoclassical theory, namely the neoclassical transport, the poloidal rotation and the linear damping of axisymmetric flows while interestingly preserving a high numerical efficiency. Its form makes it especially adapted to Eulerian or Semi-Lagrangian schemes.

  14. Linear and nonlinear verification of gyrokinetic microstability codes

    Science.gov (United States)

    Bravenec, R. V.; Candy, J.; Barnes, M.; Holland, C.

    2011-12-01

    Verification of nonlinear microstability codes is a necessary step before comparisons or predictions of turbulent transport in toroidal devices can be justified. By verification we mean demonstrating that a code correctly solves the mathematical model upon which it is based. Some degree of verification can be accomplished indirectly from analytical instability threshold conditions, nonlinear saturation estimates, etc., for relatively simple plasmas. However, verification for experimentally relevant plasma conditions and physics is beyond the realm of analytical treatment and must rely on code-to-code comparisons, i.e., benchmarking. The premise is that the codes are verified for a given problem or set of parameters if they all agree within a specified tolerance. True verification requires comparisons for a number of plasma conditions, e.g., different devices, discharges, times, and radii. Running the codes and keeping track of linear and nonlinear inputs and results for all conditions could be prohibitive unless there was some degree of automation. We have written software to do just this and have formulated a metric for assessing agreement of nonlinear simulations. We present comparisons, both linear and nonlinear, between the gyrokinetic codes GYRO [J. Candy and R. E. Waltz, J. Comput. Phys. 186, 545 (2003)] and GS2 [W. Dorland, F. Jenko, M. Kotschenreuther, and B. N. Rogers, Phys. Rev. Lett. 85, 5579 (2000)]. We do so at the mid-radius for the same discharge as in earlier work [C. Holland, A. E. White, G. R. McKee, M. W. Shafer, J. Candy, R. E. Waltz, L. Schmitz, and G. R. Tynan, Phys. Plasmas 16, 052301 (2009)]. The comparisons include electromagnetic fluctuations, passing and trapped electrons, plasma shaping, one kinetic impurity, and finite Debye-length effects. Results neglecting and including electron collisions (Lorentz model) are presented. We find that the linear frequencies with or without collisions agree well between codes, as do the time averages of

  15. Verification of gyrokinetic microstability codes with an LHD configuration

    Energy Technology Data Exchange (ETDEWEB)

    Mikkelsen, D. R. [Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Nunami, M. [National Inst. for Fusion Science (Japan); Watanabe, T. -H. [Nagoya Univ. (Japan); Sugama, H. [National Inst. for Fusion Science (Japan); Tanaka, K. [National Inst. for Fusion Science (Japan)

    2014-11-01

    We extend previous benchmarks of the GS2 and GKV-X codes to verify their algorithms for solving the gyrokinetic Vlasov-Poisson equations for plasma microturbulence. Code benchmarks are the most complete way of verifying the correctness of implementations for the solution of mathematical models for complex physical processes such as those studied here. The linear stability calculations reported here are based on the plasma conditions of an ion-ITB plasma in the LHD configuration. The plasma parameters and the magnetic geometry differ from previous benchmarks involving these codes. We find excellent agreement between the independently written pre-processors that calculate the geometrical coefficients used in the gyrokinetic equations. Grid convergence tests are used to establish the resolution and domain size needed to obtain converged linear stability results. The agreement of the frequencies, growth rates and eigenfunctions in the benchmarks reported here provides additional verification that the algorithms used by the GS2 and GKV-X codes are correctly finding the linear eigenvalues and eigenfunctions of the gyrokinetic Vlasov-Poisson equations.

  16. Gyrokinetic field theory

    International Nuclear Information System (INIS)

    Sugama, H.

    1999-08-01

    The Lagrangian formulation of the gyrokinetic theory is generalized in order to describe the particles' dynamics as well as the self-consistent behavior of the electromagnetic fields. The gyrokinetic equation for the particle distribution function and the gyrokinetic Maxwell's equations for the electromagnetic fields are both derived from the variational principle for the Lagrangian consisting of the parts of particles, fields, and their interaction. In this generalized Lagrangian formulation, the energy conservation property for the total nonlinear gyrokinetic system of equations is directly shown from the Noether's theorem. This formulation can be utilized in order to derive the nonlinear gyrokinetic system of equations and the rigorously conserved total energy for fluctuations with arbitrary frequency. (author)

  17. Testing Gyrokinetics on C-Mod and NSTX

    International Nuclear Information System (INIS)

    Redi, M.H.; Dorland, W.; Fiore, C.L.; Stutman, D.; Baumgaertel, J.A.; Davis, B.; Kaye, S.M.; McCune, D.C.; Menard, J.; Rewoldt, G.

    2005-01-01

    Quantitative benchmarks of computational physics codes against experiment are essential for the credible application of such codes. Fluctuation measurements can provide necessary critical tests of nonlinear gyrokinetic simulations, but such require extraordinary computational resources. Linear micro-stability calculations with the GS2 [1] gyrokinetic code have been carried out for tokamak and ST experiments which exhibit internal transport barriers (ITB) and good plasma confinement. Qualitative correlation is found for improved confinement before and during ITB plasmas on Alcator C-Mod [2] and NSTX [3], with weaker long wavelength micro-instabilities in the plasma core regions. Mixing length transport models are discussed. The NSTX L-mode is found to be near marginal stability for kinetic ballooning modes. Fully electromagnetic, linear, gyrokinetic calculations of the Alcator C-Mod ITB during off-axis rf heating, following four plasma species and including the complete electron response show ITG/TEM microturbulence is suppressed in the plasma core and in the barrier region before barrier formation, without recourse to the usual requirements of velocity shear or reversed magnetic shear [4-5]. No strongly growing long or short wavelength drift modes are found in the plasma core but strong ITG/TEM and ETG drift wave turbulence is found outside the barrier region. Linear microstability analysis is qualitatively consistent with the experimental transport analysis, showing low transport inside and high transport outside the ITB region before barrier formation, without consideration of ExB shear stabilization

  18. GYSELA, a full-f global gyrokinetic Semi-Lagrangian code for ITG turbulence simulations

    International Nuclear Information System (INIS)

    Grandgirard, V.; Sarazin, Y.; Garbet, X.; Dif-Pradalier, G.; Ghendrih, Ph.; Crouseilles, N.; Latu, G.; Sonnendruecker, E.; Besse, N.; Bertrand, P.

    2006-01-01

    This work addresses non-linear global gyrokinetic simulations of ion temperature gradient (ITG) driven turbulence with the GYSELA code. The particularity of GYSELA code is to use a fixed grid with a Semi-Lagrangian (SL) scheme and this for the entire distribution function. The 4D non-linear drift-kinetic version of the code already showns the interest of such a SL method which exhibits good properties of energy conservation in non-linear regime as well as an accurate description of fine spatial scales. The code has been upgrated to run 5D simulations of toroidal ITG turbulence. Linear benchmarks and non-linear first results prove that semi-lagrangian codes can be a credible alternative for gyrokinetic simulations

  19. Self-consistent gyrokinetic modeling of neoclassical and turbulent impurity transport

    Science.gov (United States)

    Estève, D.; Sarazin, Y.; Garbet, X.; Grandgirard, V.; Breton, S.; Donnel, P.; Asahi, Y.; Bourdelle, C.; Dif-Pradalier, G.; Ehrlacher, C.; Emeriau, C.; Ghendrih, Ph.; Gillot, C.; Latu, G.; Passeron, C.

    2018-03-01

    Trace impurity transport is studied with the flux-driven gyrokinetic GYSELA code (Grandgirard et al 2016 Comput. Phys. Commun. 207 35). A reduced and linearized multi-species collision operator has been recently implemented, so that both neoclassical and turbulent transport channels can be treated self-consistently on an equal footing. In the Pfirsch-Schlüter regime that is probably relevant for tungsten, the standard expression for the neoclassical impurity flux is shown to be recovered from gyrokinetics with the employed collision operator. Purely neoclassical simulations of deuterium plasma with trace impurities of helium, carbon and tungsten lead to impurity diffusion coefficients, inward pinch velocities due to density peaking, and thermo-diffusion terms which quantitatively agree with neoclassical predictions and NEO simulations (Belli et al 2012 Plasma Phys. Control. Fusion 54 015015). The thermal screening factor appears to be less than predicted analytically in the Pfirsch-Schlüter regime, which can be detrimental to fusion performance. Finally, self-consistent nonlinear simulations have revealed that the tungsten impurity flux is not the sum of turbulent and neoclassical fluxes computed separately, as is usually assumed. The synergy partly results from the turbulence-driven in-out poloidal asymmetry of tungsten density. This result suggests the need for self-consistent simulations of impurity transport, i.e. including both turbulence and neoclassical physics, in view of quantitative predictions for ITER.

  20. Full radius linear and nonlinear gyrokinetic simulations for tokamaks and stellarators: Zonal flows, applied E x B flows, trapped electrons and finite beta

    International Nuclear Information System (INIS)

    Villard, L.; Allfrey, S.J.; Bottino, A.

    2003-01-01

    The aim of this paper is to report on recent advances made on global gyrokinetic simulations of Ion Temperature Gradient modes (ITG) and other microinstabilities. The nonlinear development and saturation of ITG modes and the role of E x B zonal flows are studied with a global nonlinear δ f formulation that retains parallel nonlinearity and thus allows for a check of the energy conservation property as a means to verify the quality of the numerical simulation. Due to an optimised loading technique the conservation property is satisfied with an unprecedented quality well into the nonlinear stage. The zonal component of the perturbation establishes a quasi-steady state with regions of ITG suppression, strongly reduced radial energy flux and steepened effective temperature profile alternating with regions of higher ITG mode amplitudes, larger radial energy flux and flattened effective temperature profile. A semi-Lagrangian approach free of statistical noise is proposed as an alternative to the nonlinear δf formulation. An ASDEX-Upgrade experiment with an Internal Transport Barrier (ITB) is analysed with a global gyrokinetic code that includes trapped electron dynamics. The weakly destabilizing effect of trapped electron dynamics on ITG modes in an axisymmetric bumpy configuration modelling W7-X is shown in global linear simulations that retain the full electron dynamics. Finite β effects on microinstabilities are investigated with a linear global spectral electromagnetic gyrokinetic formulation. The radial global structure of electromagnetic modes shows a resonant behaviour with rational q values. (author)

  1. The role of zonal flows in the saturation of multi-scale gyrokinetic turbulence

    Energy Technology Data Exchange (ETDEWEB)

    Staebler, G. M.; Candy, J. [General Atomics, San Diego, California 92186 (United States); Howard, N. T. [Oak Ridge Institute for Science Education (ORISE), Oak Ridge, Tennessee 37831 (United States); Holland, C. [University of California San Diego, San Diego, California 92093 (United States)

    2016-06-15

    The 2D spectrum of the saturated electric potential from gyrokinetic turbulence simulations that include both ion and electron scales (multi-scale) in axisymmetric tokamak geometry is analyzed. The paradigm that the turbulence is saturated when the zonal (axisymmetic) ExB flow shearing rate competes with linear growth is shown to not apply to the electron scale turbulence. Instead, it is the mixing rate by the zonal ExB velocity spectrum with the turbulent distribution function that competes with linear growth. A model of this mechanism is shown to be able to capture the suppression of electron-scale turbulence by ion-scale turbulence and the threshold for the increase in electron scale turbulence when the ion-scale turbulence is reduced. The model computes the strength of the zonal flow velocity and the saturated potential spectrum from the linear growth rate spectrum. The model for the saturated electric potential spectrum is applied to a quasilinear transport model and shown to accurately reproduce the electron and ion energy fluxes of the non-linear gyrokinetic multi-scale simulations. The zonal flow mixing saturation model is also shown to reproduce the non-linear upshift in the critical temperature gradient caused by zonal flows in ion-scale gyrokinetic simulations.

  2. Gyrokinetic magnetohydrodynamics and the associated equilibria

    Science.gov (United States)

    Lee, W. W.; Hudson, S. R.; Ma, C. H.

    2017-12-01

    The gyrokinetic magnetohydrodynamic (MHD) equations, related to the recent paper by W. W. Lee ["Magnetohydrodynamics for collisionless plasmas from the gyrokinetic perspective," Phys. Plasmas 23, 070705 (2016)], and their associated equilibria properties are discussed. This set of equations consists of the time-dependent gyrokinetic vorticity equation, the gyrokinetic parallel Ohm's law, and the gyrokinetic Ampere's law as well as the equations of state, which are expressed in terms of the electrostatic potential, ϕ, and the vector potential, A , and support both spatially varying perpendicular and parallel pressure gradients and the associated currents. The corresponding gyrokinetic MHD equilibria can be reached when ϕ→0 and A becomes constant in time, which, in turn, gives ∇.(J∥+J⊥)=0 and the associated magnetic islands, if they exist. Examples of simple cylindrical geometry are given. These gyrokinetic MHD equations look quite different from the conventional MHD equations, and their comparisons will be an interesting topic in the future.

  3. Conservation Laws for Gyrokinetic Equations for Large Perturbations and Flows

    Science.gov (United States)

    Dimits, Andris

    2017-10-01

    Gyrokinetic theory has proved to be very useful for the understanding of magnetized plasmas, both to simplify analytical treatments and as a basis for efficient numerical simulations. Gyrokinetic theories were previously developed in two extended orderings that are applicable to large fluctuations and flows as may arise in the tokamak edge and scrapeoff layer. In the present work, we cast the resulting equations in a field-theoretical variational form, and derive, up to second order in the respective orderings, the associated global and local energy and (linear and toroidal) momentum conservation relations that result from Noether's theorem. The consequences of these for the various possible choices of numerical discretization used in gyrokinetic simulations are considered. Prepared for US DOE by LLNL under Contract DE-AC52-07NA27344 and supported by the U.S. DOE, OFES.

  4. Gyrokinetic modelling of the quasilinear particle flux for plasmas with neutral-beam fuelling

    Science.gov (United States)

    Narita, E.; Honda, M.; Nakata, M.; Yoshida, M.; Takenaga, H.; Hayashi, N.

    2018-02-01

    A quasilinear particle flux is modelled based on gyrokinetic calculations. The particle flux is estimated by determining factors, namely, coefficients of off-diagonal terms and a particle diffusivity. In this paper, the methodology to estimate the factors is presented using a subset of JT-60U plasmas. First, the coefficients of off-diagonal terms are estimated by linear gyrokinetic calculations. Next, to obtain the particle diffusivity, a semi-empirical approach is taken. Most experimental analyses for particle transport have assumed that turbulent particle fluxes are zero in the core region. On the other hand, even in the stationary state, the plasmas in question have a finite turbulent particle flux due to neutral-beam fuelling. By combining estimates of the experimental turbulent particle flux and the coefficients of off-diagonal terms calculated earlier, the particle diffusivity is obtained. The particle diffusivity should reflect a saturation amplitude of instabilities. The particle diffusivity is investigated in terms of the effects of the linear instability and linear zonal flow response, and it is found that a formula including these effects roughly reproduces the particle diffusivity. The developed framework for prediction of the particle flux is flexible to add terms neglected in the current model. The methodology to estimate the quasilinear particle flux requires so low computational cost that a database consisting of the resultant coefficients of off-diagonal terms and particle diffusivity can be constructed to train a neural network. The development of the methodology is the first step towards a neural-network-based particle transport model for fast prediction of the particle flux.

  5. A hybrid gyrokinetic ion and isothermal electron fluid code for astrophysical plasma

    Science.gov (United States)

    Kawazura, Y.; Barnes, M.

    2018-05-01

    This paper describes a new code for simulating astrophysical plasmas that solves a hybrid model composed of gyrokinetic ions (GKI) and an isothermal electron fluid (ITEF) Schekochihin et al. (2009) [9]. This model captures ion kinetic effects that are important near the ion gyro-radius scale while electron kinetic effects are ordered out by an electron-ion mass ratio expansion. The code is developed by incorporating the ITEF approximation into AstroGK, an Eulerian δf gyrokinetics code specialized to a slab geometry Numata et al. (2010) [41]. The new code treats the linear terms in the ITEF equations implicitly while the nonlinear terms are treated explicitly. We show linear and nonlinear benchmark tests to prove the validity and applicability of the simulation code. Since the fast electron timescale is eliminated by the mass ratio expansion, the Courant-Friedrichs-Lewy condition is much less restrictive than in full gyrokinetic codes; the present hybrid code runs ∼ 2√{mi /me } ∼ 100 times faster than AstroGK with a single ion species and kinetic electrons where mi /me is the ion-electron mass ratio. The improvement of the computational time makes it feasible to execute ion scale gyrokinetic simulations with a high velocity space resolution and to run multiple simulations to determine the dependence of turbulent dynamics on parameters such as electron-ion temperature ratio and plasma beta.

  6. Gyrokinetic energy conservation and Poisson-bracket formulation

    International Nuclear Information System (INIS)

    Brizard, A.

    1989-01-01

    An integral expression for the gyrokinetic total energy of a magnetized plasma, with general magnetic field configuration perturbed by fully electromagnetic fields, was recently derived through the use of a gyrocenter Lie transformation. It is shown that the gyrokinetic energy is conserved by the gyrokinetic Hamiltonian flow to all orders in perturbed fields. An explicit demonstration that a gyrokinetic Hamiltonian containing quadratic nonlinearities preserves the gyrokinetic energy up to third order is given. The Poisson-bracket formulation greatly facilitates this demonstration with the help of the Jacobi identity and other properties of the Poisson brackets

  7. Bringing global gyrokinetic turbulence simulations to the transport timescale using a multiscale approach

    Science.gov (United States)

    Parker, Jeffrey B.; LoDestro, Lynda L.; Told, Daniel; Merlo, Gabriele; Ricketson, Lee F.; Campos, Alejandro; Jenko, Frank; Hittinger, Jeffrey A. F.

    2018-05-01

    The vast separation dividing the characteristic times of energy confinement and turbulence in the core of toroidal plasmas makes first-principles prediction on long timescales extremely challenging. Here we report the demonstration of a multiple-timescale method that enables coupling global gyrokinetic simulations with a transport solver to calculate the evolution of the self-consistent temperature profile. This method, which exhibits resiliency to the intrinsic fluctuations arising in turbulence simulations, holds potential for integrating nonlocal gyrokinetic turbulence simulations into predictive, whole-device models.

  8. Tractable flux-driven temperature, density, and rotation profile evolution with the quasilinear gyrokinetic transport model QuaLiKiz

    Science.gov (United States)

    Citrin, J.; Bourdelle, C.; Casson, F. J.; Angioni, C.; Bonanomi, N.; Camenen, Y.; Garbet, X.; Garzotti, L.; Görler, T.; Gürcan, O.; Koechl, F.; Imbeaux, F.; Linder, O.; van de Plassche, K.; Strand, P.; Szepesi, G.; Contributors, JET

    2017-12-01

    Quasilinear turbulent transport models are a successful tool for prediction of core tokamak plasma profiles in many regimes. Their success hinges on the reproduction of local nonlinear gyrokinetic fluxes. We focus on significant progress in the quasilinear gyrokinetic transport model QuaLiKiz (Bourdelle et al 2016 Plasma Phys. Control. Fusion 58 014036), which employs an approximated solution of the mode structures to significantly speed up computation time compared to full linear gyrokinetic solvers. Optimisation of the dispersion relation solution algorithm within integrated modelling applications leads to flux calculations × {10}6-7 faster than local nonlinear simulations. This allows tractable simulation of flux-driven dynamic profile evolution including all transport channels: ion and electron heat, main particles, impurities, and momentum. Furthermore, QuaLiKiz now includes the impact of rotation and temperature anisotropy induced poloidal asymmetry on heavy impurity transport, important for W-transport applications. Application within the JETTO integrated modelling code results in 1 s of JET plasma simulation within 10 h using 10 CPUs. Simultaneous predictions of core density, temperature, and toroidal rotation profiles for both JET hybrid and baseline experiments are presented, covering both ion and electron turbulence scales. The simulations are successfully compared to measured profiles, with agreement mostly in the 5%-25% range according to standard figures of merit. QuaLiKiz is now open source and available at www.qualikiz.com.

  9. Steady-State Gyrokinetics Transport Code (SSGKT), A Scientific Application Partnership with the Framework Application for Core-Edge Transport Simulations, Final Report

    Energy Technology Data Exchange (ETDEWEB)

    Fahey, Mark R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Candy, Jeff [General Atomics, San Diego, CA (United States)

    2013-11-07

    This project initiated the development of TGYRO - a steady-state Gyrokinetic transport code (SSGKT) that integrates micro-scale GYRO turbulence simulations into a framework for practical multi-scale simulation of conventional tokamaks as well as future reactors. Using a lightweight master transport code, multiple independent (each massively parallel) gyrokinetic simulations are coordinated. The capability to evolve profiles using the TGLF model was also added to TGYRO and represents a more typical use-case for TGYRO. The goal of the project was to develop a steady-state Gyrokinetic transport code (SSGKT) that integrates micro-scale gyrokinetic turbulence simulations into a framework for practical multi-scale simulation of a burning plasma core ? the International Thermonuclear Experimental Reactor (ITER) in particular. This multi-scale simulation capability will be used to predict the performance (the fusion energy gain, Q) given the H-mode pedestal temperature and density. At present, projections of this type rely on transport models like GLF23, which are based on rather approximate fits to the results of linear and nonlinear simulations. Our goal is to make these performance projections with precise nonlinear gyrokinetic simulations. The method of approach is to use a lightweight master transport code to coordinate multiple independent (each massively parallel) gyrokinetic simulations using the GYRO code. This project targets the practical multi-scale simulation of a reactor core plasma in order to predict the core temperature and density profiles given the H-mode pedestal temperature and density. A master transport code will provide feedback to O(16) independent gyrokinetic simulations (each massively parallel). A successful feedback scheme offers a novel approach to predictive modeling of an important national and international problem. Success in this area of fusion simulations will allow US scientists to direct the research path of ITER over the next two

  10. Partially linearized algorithms in gyrokinetic particle simulation

    Energy Technology Data Exchange (ETDEWEB)

    Dimits, A.M.; Lee, W.W.

    1990-10-01

    In this paper, particle simulation algorithms with time-varying weights for the gyrokinetic Vlasov-Poisson system have been developed. The primary purpose is to use them for the removal of the selected nonlinearities in the simulation of gradient-driven microturbulence so that the relative importance of the various nonlinear effects can be assessed. It is hoped that the use of these procedures will result in a better understanding of the transport mechanisms and scaling in tokamaks. Another application of these algorithms is for the improvement of the numerical properties of the simulation plasma. For instance, implementations of such algorithms (1) enable us to suppress the intrinsic numerical noise in the simulation, and (2) also make it possible to regulate the weights of the fast-moving particles and, in turn, to eliminate the associated high frequency oscillations. Examples of their application to drift-type instabilities in slab geometry are given. We note that the work reported here represents the first successful use of the weighted algorithms in particle codes for the nonlinear simulation of plasmas.

  11. Partially linearized algorithms in gyrokinetic particle simulation

    International Nuclear Information System (INIS)

    Dimits, A.M.; Lee, W.W.

    1990-10-01

    In this paper, particle simulation algorithms with time-varying weights for the gyrokinetic Vlasov-Poisson system have been developed. The primary purpose is to use them for the removal of the selected nonlinearities in the simulation of gradient-driven microturbulence so that the relative importance of the various nonlinear effects can be assessed. It is hoped that the use of these procedures will result in a better understanding of the transport mechanisms and scaling in tokamaks. Another application of these algorithms is for the improvement of the numerical properties of the simulation plasma. For instance, implementations of such algorithms (1) enable us to suppress the intrinsic numerical noise in the simulation, and (2) also make it possible to regulate the weights of the fast-moving particles and, in turn, to eliminate the associated high frequency oscillations. Examples of their application to drift-type instabilities in slab geometry are given. We note that the work reported here represents the first successful use of the weighted algorithms in particle codes for the nonlinear simulation of plasmas

  12. Alfven Waves in Gyrokinetic Plasmas

    International Nuclear Information System (INIS)

    Lee, W.W.; Qin, H.

    2003-01-01

    A brief comparison of the properties of Alfven waves that are based on the gyrokinetic description with those derived from the MHD equations is presented. The critical differences between these two approaches are the treatment of the ion polarization effects. As such, the compressional Alfven waves in a gyrokinetic plasma can be eliminated through frequency ordering, whereas geometric simplifications are needed to decouple the shear Alfven waves from the compressional Alfven waves within the context of MHD. Theoretical and numerical procedures of using gyrokinetic particle simulation for studying microturbulence and kinetic-MHD physics including finite Larmor radius effects are also presented

  13. Non-Maxwellian fast particle effects in gyrokinetic GENE simulations

    Science.gov (United States)

    Di Siena, A.; Görler, T.; Doerk, H.; Bilato, R.; Citrin, J.; Johnson, T.; Schneider, M.; Poli, E.; JET Contributors

    2018-04-01

    Fast ions have recently been found to significantly impact and partially suppress plasma turbulence both in experimental and numerical studies in a number of scenarios. Understanding the underlying physics and identifying the range of their beneficial effect is an essential task for future fusion reactors, where highly energetic ions are generated through fusion reactions and external heating schemes. However, in many of the gyrokinetic codes fast ions are, for simplicity, treated as equivalent-Maxwellian-distributed particle species, although it is well known that to rigorously model highly non-thermalised particles, a non-Maxwellian background distribution function is needed. To study the impact of this assumption, the gyrokinetic code GENE has recently been extended to support arbitrary background distribution functions which might be either analytical, e.g., slowing down and bi-Maxwellian, or obtained from numerical fast ion models. A particular JET plasma with strong fast-ion related turbulence suppression is revised with these new code capabilities both with linear and nonlinear gyrokinetic simulations. It appears that the fast ion stabilization tends to be less strong but still substantial with more realistic distributions, and this improves the quantitative power balance agreement with experiments.

  14. Transport modelling and gyrokinetic analysis of advanced high performance discharges

    International Nuclear Information System (INIS)

    Kinsey, J.E.; Imbeaux, F.; Staebler, G.M.; Budny, R.; Bourdelle, C.; Fukuyama, A.; Garbet, X.; Tala, T.; Parail, V.

    2005-01-01

    Predictive transport modelling and gyrokinetic stability analyses of demonstration hybrid (HYBRID) and advanced tokamak (AT) discharges from the International Tokamak Physics Activity (ITPA) profile database are presented. Both regimes have exhibited enhanced core confinement (above the conventional ITER reference H-mode scenario) but differ in their current density profiles. Recent contributions to the ITPA database have facilitated an effort to study the underlying physics governing confinement in these advanced scenarios. In this paper, we assess the level of commonality of the turbulent transport physics and the relative roles of the transport suppression mechanisms (i.e. E x B shear and Shafranov shift (α) stabilization) using data for select HYBRID and AT discharges from the DIII-D, JET and AUG tokamaks. GLF23 transport modelling and gyrokinetic stability analysis indicate that E x B shear and Shafranov shift stabilization play essential roles in producing the improved core confinement in both HYBRID and AT discharges. Shafranov shift stabilization is found to be more important in AT discharges than in HYBRID discharges. We have also examined the competition between the stabilizing effects of E x B shear and Shafranov shift stabilization and the destabilizing effects of higher safety factors and parallel velocity shear. Linear and nonlinear gyrokinetic simulations of idealized low and high safety factor cases reveal some interesting consequences. A low safety factor (i.e. HYBRID relevant) is directly beneficial in reducing the transport, and E x B shear stabilization can dominate parallel velocity shear destabilization allowing the turbulence to be quenched. However, at low-q/high current, Shafranov shift stabilization plays less of a role. Higher safety factors (as found in AT discharges), on the other hand, have larger amounts of Shafranov shift stabilization, but parallel velocity shear destabilization can prevent E x B shear quenching of the turbulent

  15. Transport modeling and gyrokinetic analysis of advanced high performance discharges

    International Nuclear Information System (INIS)

    Kinsey, J.; Imbeaux, F.; Bourdelle, C.; Garbet, X.; Staebler, G.; Budny, R.; Fukuyama, A.; Tala, T.; Parail, V.

    2005-01-01

    Predictive transport modeling and gyrokinetic stability analyses of demonstration hybrid (HYBRID) and Advanced Tokamak (AT) discharges from the International Tokamak Physics Activity (ITPA) profile database are presented. Both regimes have exhibited enhanced core confinement (above the conventional ITER reference H-mode scenario) but differ in their current density profiles. Recent contributions to the ITPA database have facilitated an effort to study the underlying physics governing confinement in these advanced scenarios. In this paper, we assess the level of commonality of the turbulent transport physics and the relative roles of the transport suppression mechanisms (i.e. ExB shear and Shafranov shift (α) stabilization) using data for select HYBRID and AT discharges from the DIII-D, JET, and AUG tokamaks. GLF23 transport modeling and gyrokinetic stability analysis indicates that ExB shear and Shafranov shift stabilization play essential roles in producing the improved core confinement in both HYBRID and AT discharges. Shafranov shift stabilization is found to be more important in AT discharges than in HYBRID discharges. We have also examined the competition between the stabilizing effects of ExB shear and Shafranov shift stabilization and the destabilizing effects of higher safety factors and parallel velocity shear. Linear and nonlinear gyrokinetic simulations of idealized low and high safety factor cases reveals some interesting consequences. A low safety factor (i.e. HYBRID relevant) is directly beneficial in reducing the transport, and ExB shear stabilization can win out over parallel velocity shear destabilization allowing the turbulence to be quenched. However, at low-q/high current, Shafranov shift stabilization plays less of a role. Higher safety factors (as found in AT discharges), on the other hand, have larger amounts of Shafranov shift stabilization, but parallel velocity shear destabilization can prevent ExB shear quenching of the turbulent

  16. Considering fluctuation energy as a measure of gyrokinetic turbulence

    International Nuclear Information System (INIS)

    Plunk, G G; Tatsuno, T; Dorland, W

    2012-01-01

    In gyrokinetic theory, there are two quadratic measures of fluctuation energy, left invariant under nonlinear interactions, that constrain turbulence. In a recent work (Plunk and Tatsuno 2011 Phys. Rev. Lett. 106 165003) we reported on the novel consequences that this constraint has for the direction and locality of spectral energy transfer. This paper builds on that previous work. We provide a detailed analysis in support of the results of Plunk and Tatsuno (2011 Phys. Rev. Lett. 106 165003), but significantly broaden the scope and use additional methods to address the problem of energy transfer. The perspective taken here is that the fluctuation energies are not merely formal invariants of an idealized model (two-dimensional gyrokinetics (Plunk et al 2010 J. Fluid Mech. 664 407–35)) but also general measures of gyrokinetic turbulence, i.e. quantities that can be used to predict the behavior of turbulence. Although many questions remain open, this paper collects evidence in favor of this perspective by demonstrating in several contexts that constrained spectral energy transfer governs the dynamics. (paper)

  17. Limitations, insights and improvements to gyrokinetics

    International Nuclear Information System (INIS)

    Catto, Peter J.; Parra, Felix I.; Kagan, Grigory; Simakov, Andrei N.

    2009-01-01

    We first consider gyrokinetic quasineutrality limitations when evaluating the axisymmetric radial electric field in a non-turbulent tokamak by an improved examination of intrinsic ambipolarity. We next prove that the background ions in a pedestal of poloidal ion gyroradius scale must be Maxwellian and nearly isothermal in Pfirsch-Schlueter and banana regime tokamak plasmas, and then consider zonal flow behaviour in a pedestal. Finally, we focus on a simplifying procedure for our transport time scale hybrid gyrokinetic-fluid treatment that removes the limitations of gyrokinetic quasineutrality and remains valid in the pedestal.

  18. Gyrokinetic Studies of Turbulence in Steep Gradient Region: Role of Turbulence Spreading and E x B Shear

    Energy Technology Data Exchange (ETDEWEB)

    T.S. Hahm; Z. Lin; P.H. Diamond; G. Rewoldt; W.X. Wang; S. Ethier; O. Gurcan; W.W. Lee; W.M. Tang

    2004-12-21

    An integrated program of gyrokinetic particle simulation and theory has been developed to investigate several outstanding issues in both turbulence and neoclassical physics. Gyrokinetic particle simulations of toroidal ion temperature gradient (ITG) turbulence spreading using the GTC code and its related dynamical model have been extended to the case with radially increasing ion temperature gradient, to study the inward spreading of edge turbulence toward the core. Due to turbulence spreading from the edge, the turbulence intensity in the core region is significantly enhanced over the value obtained from simulations of the core region only. Even when the core gradient is within the Dimits shift regime (i.e., self-generated zonal flows reduce the transport to a negligible value), a significant level of turbulence and transport is observed in the core due to spreading from the edge. The scaling of the turbulent front propagation speed is closer to the prediction from our nonlinear diffusion model than one based on linear toroidal coupling. A calculation of ion poloidal rotation in the presence of sharp density and toroidal angular rotation frequency gradients from the GTC-Neo particle simulation code shows that the results are significantly different from the conventional neoclassical theory predictions. An energy conserving set of a fully electromagnetic nonlinear gyrokinetic Vlasov equation and Maxwell's equations, which is applicable to edge turbulence, is being derived via the phase-space action variational Lie perturbation method. Our generalized ordering takes the ion poloidal gyroradius to be on the order of the radial electric field gradient length.

  19. Gyrokinetic studies of turbulence in steep gradient region: Role of turbulence spreading and E x B shear

    International Nuclear Information System (INIS)

    Hahm, T.S.; Lin, Z.; Diamond, P.H.; Gurcan, O.; Rewoldt, G.; Wang, W.X.; Ethier, S.; Lee, W.W.; Lewandowski, J.L.V.; Tang, W.M.

    2005-01-01

    An integrated program of gyrokinetic particle simulation and theory has been developed to investigate several outstanding issues in both turbulence and neoclassical physics. Gyrokinetic particle simulations of toroidal ion temperature gradient (ITG) turbulence spreading using the GTC code and its related dynamical model have been extended to the case with radially increasing ion temperature gradient, to study the inward spreading of edge turbulence toward the core. Due to turbulence spreading from the edge, the turbulence intensity in the core region is significantly enhanced over the value obtained from simulations of the core region only. Even when the core gradient is within the Dimits shift regime (i.e., self-generated zonal flows reduce the transport to a negligible value), a significant level of turbulence and transport is observed in the core due to spreading from the edge. The scaling of the turbulent front propagation speed is closer to the prediction from our nonlinear diffusion model than one based on linear toroidal coupling. A calculation of ion poloidal rotation in the presence of sharp density and toroidal angular rotation frequency gradients from the GTC-Neo particle simulation code shows that the results are significantly different from the conventional neoclassical theory predictions. An energy conserving set of a fully electromagnetic nonlinear gyrokinetic Vlasov equation and Maxwell's equations, which is applicable to edge turbulence, is being derived via the phase-space action variational Lie perturbation method. Our generalized ordering takes the ion poloidal gyroradius to be on the order of the radial electric field gradient length. (author)

  20. Validation of gyrokinetic simulations with measurements of electron temperature fluctuations and density-temperature phase angles on ASDEX Upgrade

    Science.gov (United States)

    Freethy, S. J.; Görler, T.; Creely, A. J.; Conway, G. D.; Denk, S. S.; Happel, T.; Koenen, C.; Hennequin, P.; White, A. E.; ASDEX Upgrade Team

    2018-05-01

    Measurements of turbulent electron temperature fluctuation amplitudes, δTe ⊥/Te , frequency spectra, and radial correlation lengths, Lr(Te ⊥) , have been performed at ASDEX Upgrade using a newly upgraded Correlation ECE diagnostic in the range of scales k⊥scale non-linear gyrokinetic turbulence simulations of the outer core (ρtor = 0.75) of a low density, electron heated L-mode plasma, performed using the gyrokinetic simulation code, GENE. The ion and electron temperature gradients were scanned within uncertainties. It is found that gyrokinetic simulations are able to match simultaneously the electron and ion heat flux at this radius within the experimental uncertainties. The simulations were performed based on a reference discharge for which δTe ⊥/Te measurements were available, and Lr(Te ⊥) and αnT were then predicted using synthetic diagnostics prior to measurements in a repeat discharge. While temperature fluctuation amplitudes are overestimated by >50% for all simulations within the sensitivity scans performed, good quantitative agreement is found for Lr(Te ⊥) and αnT. A validation metric is used to quantify the level of agreement of individual simulations with experimental measurements, and the best agreement is found close to the experimental gradient values.

  1. Intrinsic rotation with gyrokinetic models

    International Nuclear Information System (INIS)

    Parra, Felix I.; Barnes, Michael; Catto, Peter J.; Calvo, Iván

    2012-01-01

    The generation of intrinsic rotation by turbulence and neoclassical effects in tokamaks is considered. To obtain the complex dependences observed in experiments, it is necessary to have a model of the radial flux of momentum that redistributes the momentum within the tokamak in the absence of a preexisting velocity. When the lowest order gyrokinetic formulation is used, a symmetry of the model precludes this possibility, making small effects in the gyroradius over scale length expansion necessary. These effects that are usually small become important for momentum transport because the symmetry of the lowest order gyrokinetic formulation leads to the cancellation of the lowest order momentum flux. The accuracy to which the gyrokinetic equation needs to be obtained to retain all the physically relevant effects is discussed.

  2. Verification of gyrokinetic particle simulation of current-driven instability in fusion plasmas. II. Resistive tearing mode

    International Nuclear Information System (INIS)

    Liu, Dongjian; Zhang, Wenlu; McClenaghan, Joseph; Wang, Jiaqi; Lin, Zhihong

    2014-01-01

    Global gyrokinetic particle simulation of resistive tearing modes has been developed and verified in the gyrokinetic toroidal code (GTC). GTC linear simulations in the fluid limit of the kink-tearing and resistive tearing modes in the cylindrical geometry agree well with the resistive magnetohydrodynamic eigenvalue and initial value codes. Ion kinetic effects are found to reduce the radial width of the tearing modes. GTC simulations of the resistive tearing modes in the toroidal geometry find that the toroidicity reduces the growth rates

  3. Global gyrokinetic simulations of TEM microturbulence

    Science.gov (United States)

    Vernay, T.; Brunner, S.; Villard, L.; McMillan, B. F.; Jolliet, S.; Bottino, A.; Görler, T.; Jenko, F.

    2013-07-01

    Global gyrokinetic simulations of electrostatic temperature-gradient-driven trapped-electron-mode (TEM) turbulence using the δf particle-in-cell code ORB5 are presented. The electron response is either fully kinetic or hybrid, i.e. considering kinetic trapped and adiabatic passing electrons. A linear benchmark in the TEM regime against the Eulerian-based code GENE is presented. Two different methods for controlling the numerical noise, based, respectively, on a Krook operator and a so-called coarse-graining approach, are discussed and successfully compared. Both linear and non-linear studies are carried out for addressing the issue of finite-ρ*-effects and finite electron collisionality on TEM turbulence. Electron collisions are found to damp TEMs through the detrapping process, while finite-ρ*-effects turn out to be important in the non-linear regime but very small in the linear regime. Finally, the effects of zonal flows on TEM turbulence are briefly considered as well and shown to be unimportant in the temperature-gradient-driven TEM regime. Consistently, basically no difference is found between linear and non-linear critical electron temperature gradients in the TEM regime.

  4. Gyrokinetic simulation of internal kink modes

    International Nuclear Information System (INIS)

    Naitou, Hiroshi; Tsuda, Kenji; Lee, W.W.; Sydora, R.D.

    1995-05-01

    Internal disruption in a tokamak has been simulated using a three-dimensional magneto-inductive gyrokinetic particle code. The code operates in both the standard gyrokinetic mode (total-f code) and the fully nonlinear characteristic mode (δf code). The latter, a recent addition, is a quiet low noise algorithm. The computational model represents a straight tokamak with periodic boundary conditions in the toroidal direction. The plasma is initially uniformly distributed in a square cross section with perfectly conducting walls. The linear mode structure of an unstable m = 1 (poloidal) and n = 1 (toroidal) kinetic internal kink mode is clearly observed, especially in the δf code. The width of the current layer around the x-point, where magnetic reconnection occurs, is found to be close to the collisionless electron skin depth. This is consistent with the theory in which electron inertia has a dominant role. The nonlinear behavior of the mode is found to be quite similar for both codes. Full reconnection in the Alfven time scale is observed along with the electrostatic potential structures created during the full reconnection phase. The E x B drift due to this electrostatic potential dominates the nonlinear phase of the development after the full reconnection

  5. Gyrokinetic simulation of microtearing turbulence

    International Nuclear Information System (INIS)

    Doerk, Hauke

    2013-01-01

    In modern fusion experiments, plasma turbulence is responsible for the radial heat transport and thus determines the plasma confinement within the magnetic field of tokamak devices. Deeper theoretical understanding is needed to explain today's and future fusion experiments. The goal of fusion research is to establish nuclear fusion as a safe and sustainable energy source. In future fusion power plants, and also in large fusion experiments like the presently constructed ITER, plasma heating predominantly affects the electron species. The reason is of fundamental nature: the collisional cross section of fast ions that are produced by the heating systems is larger for thermal electrons than for thermal ions. It is thus essential to correctly predict electron thermal transport, but the overall picture still continues to evolve. Besides microinstabilities on the electron gyroradius scales, also a stochastized magnetic field can contribute to enhanced electron transport. Already since the 1970's, the so-called microtearing instability is discussed as a source of stochastic fields. This microinstability deserves its name for breaking up the magnetic field structure by forming small-scale magnetic islands. The linear microtearing instability and its nonlinear, turbulent behavior is investigated in this thesis by means of numerical simulations with the gyrokinetic turbulence code Gene. The underlying gyrokinetic equations are not only appropriate to predict turbulent transport, but also describe neoclassical transport that is drift-kinetic in nature. Besides revealing interesting physics on long time scales, solving the neoclassical equation serves as an excellent test for the numerical implementation of the collision operator in Gene. Focusing on the local limit, it is found that a modification of this implementation that considers certain symmetries is necessary to obtain a satisfactory agreement with the well-established drift-kinetic neoclassical code Neo. Also the

  6. Gyrokinetic Magnetohydrodynamics and the Associated Equilibrium

    Science.gov (United States)

    Lee, W. W.; Hudson, S. R.; Ma, C. H.

    2017-10-01

    A proposed scheme for the calculations of gyrokinetic MHD and its associated equilibrium is discussed related a recent paper on the subject. The scheme is based on the time-dependent gyrokinetic vorticity equation and parallel Ohm's law, as well as the associated gyrokinetic Ampere's law. This set of equations, in terms of the electrostatic potential, ϕ, and the vector potential, ϕ , supports both spatially varying perpendicular and parallel pressure gradients and their associated currents. The MHD equilibrium can be reached when ϕ -> 0 and A becomes constant in time, which, in turn, gives ∇ . (J|| +J⊥) = 0 and the associated magnetic islands. Examples in simple cylindrical geometry will be given. The present work is partially supported by US DoE Grant DE-AC02-09CH11466.

  7. Electromagnetic nonlinear gyrokinetics with polarization drift

    International Nuclear Information System (INIS)

    Duthoit, F.-X.; Hahm, T. S.; Wang, Lu

    2014-01-01

    A set of new nonlinear electromagnetic gyrokinetic Vlasov equation with polarization drift and gyrokinetic Maxwell equations is systematically derived by using the Lie-transform perturbation method in toroidal geometry. For the first time, we recover the drift-kinetic expression for parallel acceleration [R. M. Kulsrud, in Basic Plasma Physics, edited by A. A. Galeev and R. N. Sudan (North-Holland, Amsterdam, 1983)] from the nonlinear gyrokinetic equations, thereby bridging a gap between the two formulations. This formalism should be useful in addressing nonlinear ion Compton scattering of intermediate-mode-number toroidal Alfvén eigenmodes for which the polarization current nonlinearity [T. S. Hahm and L. Chen, Phys. Rev. Lett. 74, 266 (1995)] and the usual finite Larmor radius effects should compete

  8. Pullback Transformations in Gyrokinetic Theory

    International Nuclear Information System (INIS)

    Qin, H.; Tang, W.M.

    2003-01-01

    The Pullback transformation of the distribution function is a key component of the gyrokinetic theory. In this paper, a systematic treatment of this subject is presented, and results from applications of the uniform framework developed are reviewed. The focus is on providing a clear exposition of the basic formalism which arises from the existence of three distinct coordinate systems in gyrokinetic theory. The familiar gyrocenter coordinate system, where the gyromotion is decoupled from the rest of particle's dynamics, is non-canonical and non-fabric. On the other hand, Maxwell's equations, which are needed to complete a kinetic system, are initially only defined in the fabric laboratory phase space coordinate system. The pullback transformations provide a rigorous connection between the distribution functions in gyrocenter coordinates and Maxwell's equations in laboratory phase space coordinates. This involves the generalization of the usual moment integrals originally defined on the cotangent fiber of the phase space to the moment integrals on a general 6D symplectic manifold, is shown to be an important step in the proper formulation of gyrokinetic theory. The resultant systematic treatment of the moment integrals enabled by the pullback transformation. Without this vital element, a number of prominent physics features, such as the presence of the compressional Alfven wave and a proper description of the gyrokinetic equilibrium, cannot be readily recovered

  9. Controlling fluctuations in an ITB and comparison with gyrokinetic simulations

    Science.gov (United States)

    Ernst, D. R.; Fiore, C. L.; Dominguez, A.; Podpaly, Y.; Reinke, M. L.; Terry, J. L.; Tsujii, N.; Bespamyatnov, I.; Churchill, M.; Greenwald, M.; Hubbard, A.; Hughes, J. W.; Lee, J.; Ma, Y.; Wolfe, S.; Wukitch, S.

    2011-10-01

    We have modulated on-axis ICRF minority heating to trigger fluctuations and core electron transport in Alcator C-Mod Internal Transport Barriers (ITB's). Temperature swings of 50% produced strong bursts of density fluctuations, measured by phase contrast imaging (PCI), while edge fluctuations from reflectometry, Mirnov coils, and gas puff imaging (GPI) simultaneously diminished. The PCI fluctuations are in phase with sawteeth, further evidence that they originate within the ITB foot. Linear gyrokinetic analysis with GS2 shows TEMs are driven unstable in the ITB by the on-axis heating, as in Refs.,. Nonlinear gyrokinetic simulations of turbulence in the ITB are compared with fluctuation data using a synthetic diagnostic. Strong ITB's were produced with high quality ion and electron profile data. Supported by U.S. DoE awards DE-FC02-99ER54512, DE-FG02-91ER54109, DE-FC02-08ER54966.

  10. Nonlinear gyrokinetic Maxwell-Vlasov equations using magnetic coordinates

    International Nuclear Information System (INIS)

    Brizard, A.

    1988-09-01

    A gyrokinetic formalism using magnetic coordinates is used to derive self-consistent, nonlinear Maxwell-Vlasov equations that are suitable for particle simulation studies of finite-β tokamak microturbulence and its associated anomalous transport. The use of magnetic coordinates is an important feature of this work as it introduces the toroidal geometry naturally into our gyrokinetic formalism. The gyrokinetic formalism itself is based on the use of the Action-variational Lie perturbation method of Cary and Littlejohn, and preserves the Hamiltonian structure of the original Maxwell-Vlasov system. Previous nonlinear gyrokinetic sets of equations suitable for particle simulation analysis have considered either electrostatic and shear-Alfven perturbations in slab geometry, or electrostatic perturbations in toroidal geometry. In this present work, fully electromagnetic perturbations in toroidal geometry are considered. 26 refs

  11. Equilibrium fluctuation energy of gyrokinetic plasma

    International Nuclear Information System (INIS)

    Krommes, J.A.; Lee, W.W.; Oberman, C.

    1985-11-01

    The thermal equilibrium electric field fluctuation energy of the gyrokinetic model of magnetized plasma is computed, and found to be smaller than the well-known result (k)/8π = 1/2T/[1 + (klambda/sub D/) 2 ] valid for arbitrarily magnetized plasmas. It is shown that, in a certain sense, the equilibrium electric field energy is minimum in the gyrokinetic regime. 13 refs., 2 figs

  12. Global full-f gyrokinetic simulations of plasma turbulence

    International Nuclear Information System (INIS)

    Grandgirard, V; Sarazin, Y; Angelino, P; Bottino, A; Crouseilles, N; Darmet, G; Dif-Pradalier, G; Garbet, X; Ghendrih, Ph; Jolliet, S; Latu, G; Sonnendruecker, E; Villard, L

    2007-01-01

    Critical physical issues can be specifically tackled with the global full-f gyrokinetic code GYSELA. Three main results are presented. First, the self-consistent treatment of equilibrium and fluctuations highlights the competition between two compensation mechanisms for the curvature driven vertical charge separation, namely, parallel flow and polarization. The impact of the latter on the turbulent transport is discussed. In the non-linear regime, the benchmark with the Particle-In-Cell code ORB5 looks satisfactory. Second, the transport scaling with ρ * is found to depend both on ρ * itself and on the distance to the linear threshold. Finally, a statistical steady-state turbulent regime is achieved in a reduced version of GYSELA by prescribing a constant heat source

  13. Similarities and Differences Between Warped Linear Prediction and Laguerre Linear Prediction

    NARCIS (Netherlands)

    Brinker, Albertus C. den; Krishnamoorthi, Harish; Verbitskiy, Evgeny A.

    2011-01-01

    Linear prediction has been successfully applied in many speech and audio processing systems. This paper presents the similarities and differences between two classes of linear prediction schemes, namely, Warped Linear Prediction (WLP) and Laguerre Linear Prediction (LLP). It is shown that both

  14. Non-physical momentum sources in slab geometry gyrokinetics

    International Nuclear Information System (INIS)

    Parra, Felix I; Catto, Peter J

    2010-01-01

    We investigate momentum transport in the Hamiltonian electrostatic gyrokinetic formulation of Dubin et al (1983 Phys. Fluids 26 3524). We prove that the long wavelength electric field obtained from the gyrokinetic quasineutrality introduces a non-physical momentum source in the low flow ordering.

  15. Self-consistent gyrokinetic modeling of neoclassical and turbulent impurity transport

    OpenAIRE

    Estève , D. ,; Sarazin , Y.; Garbet , X.; Grandgirard , V.; Breton , S. ,; Donnel , P. ,; Asahi , Y. ,; Bourdelle , C.; Dif-Pradalier , G; Ehrlacher , C.; Emeriau , C.; Ghendrih , Ph; Gillot , C.; Latu , G.; Passeron , C.

    2018-01-01

    International audience; Trace impurity transport is studied with the flux-driven gyrokinetic GYSELA code [V. Grandgirard et al., Comp. Phys. Commun. 207, 35 (2016)]. A reduced and linearized multi-species collision operator has been recently implemented, so that both neoclassical and turbulent transport channels can be treated self-consistently on an equal footing. In the Pfirsch-Schlüter regime likely relevant for tungsten, the standard expression of the neoclassical impurity flux is shown t...

  16. Global full-f gyrokinetic simulations of plasma turbulence

    Energy Technology Data Exchange (ETDEWEB)

    Grandgirard, V [CEA/DSM/DRFC, Association Euratom-CEA, Cadarache, 13108 St Paul-lez-Durance (France); Sarazin, Y [CEA/DSM/DRFC, Association Euratom-CEA, Cadarache, 13108 St Paul-lez-Durance (France); Angelino, P [CEA/DSM/DRFC, Association Euratom-CEA, Cadarache, 13108 St Paul-lez-Durance (France); Bottino, A [Max Plank Institut fr Plasmaphysik, IPP-EURATOM AssociationGarching (Germany); Crouseilles, N [IRMA, Universite Louis Pasteur, 7, rue Rene Descartes, 67084 Strasbourg Cedex (France); Darmet, G [CEA/DSM/DRFC, Association Euratom-CEA, Cadarache, 13108 St Paul-lez-Durance (France); Dif-Pradalier, G [CEA/DSM/DRFC, Association Euratom-CEA, Cadarache, 13108 St Paul-lez-Durance (France); Garbet, X [CEA/DSM/DRFC, Association Euratom-CEA, Cadarache, 13108 St Paul-lez-Durance (France); Ghendrih, Ph [CEA/DSM/DRFC, Association Euratom-CEA, Cadarache, 13108 St Paul-lez-Durance (France); Jolliet, S [CRPP, Association Euratom-Confederation Suisse, EPFL, 1015 Lausanne (Switzerland); Latu, G [LaBRI, 341 Cours Liberation, 33405 Talence Cedex (France); Sonnendruecker, E [IRMA, Universite Louis Pasteur, 7, rue Rene Descartes, 67084 Strasbourg Cedex (France); Villard, L [CRPP, Association Euratom-Confederation Suisse, EPFL, 1015 Lausanne (Switzerland)

    2007-12-15

    Critical physical issues can be specifically tackled with the global full-f gyrokinetic code GYSELA. Three main results are presented. First, the self-consistent treatment of equilibrium and fluctuations highlights the competition between two compensation mechanisms for the curvature driven vertical charge separation, namely, parallel flow and polarization. The impact of the latter on the turbulent transport is discussed. In the non-linear regime, the benchmark with the Particle-In-Cell code ORB5 looks satisfactory. Second, the transport scaling with {rho}{sub *} is found to depend both on {rho}{sub *} itself and on the distance to the linear threshold. Finally, a statistical steady-state turbulent regime is achieved in a reduced version of GYSELA by prescribing a constant heat source.

  17. Fluid and gyrokinetic simulations of impurity transport at JET

    DEFF Research Database (Denmark)

    Nordman, H; Skyman, A; Strand, P

    2011-01-01

    Impurity transport coefficients due to ion-temperature-gradient (ITG) mode and trapped-electron mode turbulence are calculated using profile data from dedicated impurity injection experiments at JET. Results obtained with a multi-fluid model are compared with quasi-linear and nonlinear gyrokinetic...... simulation results obtained with the code GENE. The sign of the impurity convective velocity (pinch) and its various contributions are discussed. The dependence of the impurity transport coefficients and impurity peaking factor −∇nZ/nZ on plasma parameters such as impurity charge number Z, ion logarithmic...

  18. Asymptotic and spectral analysis of the gyrokinetic-waterbag integro-differential operator in toroidal geometry

    Energy Technology Data Exchange (ETDEWEB)

    Besse, Nicolas, E-mail: Nicolas.Besse@oca.eu [Laboratoire J.-L. Lagrange, UMR CNRS/OCA/UCA 7293, Université Côte d’Azur, Observatoire de la Côte d’Azur, Bd de l’Observatoire CS 34229, 06304 Nice Cedex 4 (France); Institut Jean Lamour, UMR CNRS/UL 7198, Université de Lorraine, BP 70239 54506 Vandoeuvre-lès-Nancy Cedex (France); Coulette, David, E-mail: David.Coulette@ipcms.unistra.fr [Institut Jean Lamour, UMR CNRS/UL 7198, Université de Lorraine, BP 70239 54506 Vandoeuvre-lès-Nancy Cedex (France); Institut de Physique et Chimie des Matériaux de Strasbourg, UMR CNRS/US 7504, Université de Strasbourg, 23 Rue du Loess, 67034 Strasbourg (France)

    2016-08-15

    Achieving plasmas with good stability and confinement properties is a key research goal for magnetic fusion devices. The underlying equations are the Vlasov–Poisson and Vlasov–Maxwell (VPM) equations in three space variables, three velocity variables, and one time variable. Even in those somewhat academic cases where global equilibrium solutions are known, studying their stability requires the analysis of the spectral properties of the linearized operator, a daunting task. We have identified a model, for which not only equilibrium solutions can be constructed, but many of their stability properties are amenable to rigorous analysis. It uses a class of solution to the VPM equations (or to their gyrokinetic approximations) known as waterbag solutions which, in particular, are piecewise constant in phase-space. It also uses, not only the gyrokinetic approximation of fast cyclotronic motion around magnetic field lines, but also an asymptotic approximation regarding the magnetic-field-induced anisotropy: the spatial variation along the field lines is taken much slower than across them. Together, these assumptions result in a drastic reduction in the dimensionality of the linearized problem, which becomes a set of two nested one-dimensional problems: an integral equation in the poloidal variable, followed by a one-dimensional complex Schrödinger equation in the radial variable. We show here that the operator associated to the poloidal variable is meromorphic in the eigenparameter, the pulsation frequency. We also prove that, for all but a countable set of real pulsation frequencies, the operator is compact and thus behaves mostly as a finite-dimensional one. The numerical algorithms based on such ideas have been implemented in a companion paper [D. Coulette and N. Besse, “Numerical resolution of the global eigenvalue problem for gyrokinetic-waterbag model in toroidal geometry” (submitted)] and were found to be surprisingly close to those for the original

  19. Global gyrokinetic simulation of tokamak transport

    International Nuclear Information System (INIS)

    Furnish, G.; Horton, W.; Kishimoto, Y.; LeBrun, M.J.; Tajima, T.

    1998-10-01

    A kinetic simulation code based on the gyrokinetic ion dynamics in global general metric (including a tokamak with circular or noncircular cross-section) has been developed. This gyrokinetic simulation is capable of examining the global and semi-global driftwave structures and their associated transport in a tokamak plasma. The authors investigate the property of the ion temperature gradient (ITG) or η i (η i ≡ ∂ ell nT i /∂ ell n n i ) driven drift waves in a tokamak plasma. The emergent semi-global drift wave modes give rise to thermal transport characterized by the Bohm scaling

  20. Gyrokinetic particle-in-cell simulations of plasma microturbulence on advanced computing platforms

    International Nuclear Information System (INIS)

    Ethier, S; Tang, W M; Lin, Z

    2005-01-01

    Since its introduction in the early 1980s, the gyrokinetic particle-in-cell (PIC) method has been very successfully applied to the exploration of many important kinetic stability issues in magnetically confined plasmas. Its self-consistent treatment of charged particles and the associated electromagnetic fluctuations makes this method appropriate for studying enhanced transport driven by plasma turbulence. Advances in algorithms and computer hardware have led to the development of a parallel, global, gyrokinetic code in full toroidal geometry, the gyrokinetic toroidal code (GTC), developed at the Princeton Plasma Physics Laboratory. It has proven to be an invaluable tool to study key effects of low-frequency microturbulence in fusion plasmas. As a high-performance computing applications code, its flexible mixed-model parallel algorithm has allowed GTC to scale to over a thousand processors, which is routinely used for simulations. Improvements are continuously being made. As the US ramps up its support for the International Tokamak Experimental Reactor (ITER), the need for understanding the impact of turbulent transport in burning plasma fusion devices is of utmost importance. Accordingly, the GTC code is at the forefront of the set of numerical tools being used to assess and predict the performance of ITER on critical issues such as the efficiency of energy confinement in reactors

  1. Gyrokinetic Statistical Absolute Equilibrium and Turbulence

    International Nuclear Information System (INIS)

    Zhu, Jian-Zhou; Hammett, Gregory W.

    2011-01-01

    A paradigm based on the absolute equilibrium of Galerkin-truncated inviscid systems to aid in understanding turbulence (T.-D. Lee, 'On some statistical properties of hydrodynamical and magnetohydrodynamical fields,' Q. Appl. Math. 10, 69 (1952)) is taken to study gyrokinetic plasma turbulence: A finite set of Fourier modes of the collisionless gyrokinetic equations are kept and the statistical equilibria are calculated; possible implications for plasma turbulence in various situations are discussed. For the case of two spatial and one velocity dimension, in the calculation with discretization also of velocity v with N grid points (where N + 1 quantities are conserved, corresponding to an energy invariant and N entropy-related invariants), the negative temperature states, corresponding to the condensation of the generalized energy into the lowest modes, are found. This indicates a generic feature of inverse energy cascade. Comparisons are made with some classical results, such as those of Charney-Hasegawa-Mima in the cold-ion limit. There is a universal shape for statistical equilibrium of gyrokinetics in three spatial and two velocity dimensions with just one conserved quantity. Possible physical relevance to turbulence, such as ITG zonal flows, and to a critical balance hypothesis are also discussed.

  2. Gyrokinetic statistical absolute equilibrium and turbulence

    International Nuclear Information System (INIS)

    Zhu Jianzhou; Hammett, Gregory W.

    2010-01-01

    A paradigm based on the absolute equilibrium of Galerkin-truncated inviscid systems to aid in understanding turbulence [T.-D. Lee, Q. Appl. Math. 10, 69 (1952)] is taken to study gyrokinetic plasma turbulence: a finite set of Fourier modes of the collisionless gyrokinetic equations are kept and the statistical equilibria are calculated; possible implications for plasma turbulence in various situations are discussed. For the case of two spatial and one velocity dimension, in the calculation with discretization also of velocity v with N grid points (where N+1 quantities are conserved, corresponding to an energy invariant and N entropy-related invariants), the negative temperature states, corresponding to the condensation of the generalized energy into the lowest modes, are found. This indicates a generic feature of inverse energy cascade. Comparisons are made with some classical results, such as those of Charney-Hasegawa-Mima in the cold-ion limit. There is a universal shape for statistical equilibrium of gyrokinetics in three spatial and two velocity dimensions with just one conserved quantity. Possible physical relevance to turbulence, such as ITG zonal flows, and to a critical balance hypothesis are also discussed.

  3. Direct identification of predator-prey dynamics in gyrokinetic simulations

    Energy Technology Data Exchange (ETDEWEB)

    Kobayashi, Sumire, E-mail: sumire.kobayashi@lpp.polytechnique.fr; Gürcan, Özgür D [Laboratoire de Physique des Plasmas, CNRS, Paris-Sud, Ecole Polytechnique, UMR7648, F-91128 Palaiseau (France); Diamond, Patrick H. [University of California, San Diego, La Jolla, California 92093-0319 (United States)

    2015-09-15

    The interaction between spontaneously formed zonal flows and small-scale turbulence in nonlinear gyrokinetic simulations is explored in a shearless closed field line geometry. It is found that when clear limit cycle oscillations prevail, the observed turbulent dynamics can be quantitatively captured by a simple Lotka-Volterra type predator-prey model. Fitting the time traces of full gyrokinetic simulations by such a reduced model allows extraction of the model coefficients. Scanning physical plasma parameters, such as collisionality and density gradient, it was observed that the effective growth rates of turbulence (i.e., the prey) remain roughly constant, in spite of the higher and varying level of primary mode linear growth rates. The effective growth rate that was extracted corresponds roughly to the zonal-flow-modified primary mode growth rate. It was also observed that the effective damping of zonal flows (i.e., the predator) in the parameter range, where clear predator-prey dynamics is observed, (i.e., near marginal stability) agrees with the collisional damping expected in these simulations. This implies that the Kelvin-Helmholtz-like instability may be negligible in this range. The results imply that when the tertiary instability plays a role, the dynamics becomes more complex than a simple Lotka-Volterra predator prey.

  4. Gauge-free gyrokinetic theory

    Science.gov (United States)

    Burby, Joshua; Brizard, Alain

    2017-10-01

    Test-particle gyrocenter equations of motion play an essential role in the diagnosis of turbulent strongly-magnetized plasmas, and are playing an increasingly-important role in the formulation of kinetic-gyrokinetic hybrid models. Previous gyrocenter models required the knowledge of the perturbed electromagnetic potentials, which are not directly observable quantities (since they are gauge-dependent). A new gauge-free formulation of gyrocenter motion is presented, which enables gyrocenter trajectories to be determined using only measured values of the directly-observable electromagnetic field. Our gauge-free gyrokinetic theory is general enough to allow for gyroradius-scale fluctuations in both the electric and magnetic field. In addition, we provide gauge-free expressions for the charge and current densities produced by a distribution of gyrocenters, which explicitly include guiding-center and gyrocenter polarization and magnetization effects. This research was supported by the U.S. DOE Contract Nos. DE-SC0014032 (AB) and DE-AC05-06OR23100 (JB).

  5. Linear local stability of electrostatic drift modes in helical systems

    International Nuclear Information System (INIS)

    Yamagishi, O.; Nakajima, N.; Sugama, H.; Nakamura, Y.

    2003-01-01

    We investigate the stability of the drift wave in helical systems. For this purpose, we solve the linear local gyrokinetic-Poisson equation, in the electrostatic regime. As a model of helical plasmas, Large helical Device (LHD) is considered. The equation we apply is rather exact in the framework of linear gyrokinetic theory, where only the approximation is the ballooning representation. In this paper, we consider only collisionless cases. All the frequency regime can be naturally reated without any assumptions, and in such cases, ion temperature gradient modes (ITG), trapped electron modes (TEM), and electron temperature gradient modes (ETG) are expected to become unstable linearly independently. (orig.)

  6. Linearized gyro-kinetic equation

    International Nuclear Information System (INIS)

    Catto, P.J.; Tsang, K.T.

    1976-01-01

    An ordering of the linearized Fokker-Planck equation is performed in which gyroradius corrections are retained to lowest order and the radial dependence appropriate for sheared magnetic fields is treated without resorting to a WKB technique. This description is shown to be necessary to obtain the proper radial dependence when the product of the poloidal wavenumber and the gyroradius is large (k rho much greater than 1). A like particle collision operator valid for arbitrary k rho also has been derived. In addition, neoclassical, drift, finite β (plasma pressure/magnetic pressure), and unperturbed toroidal electric field modifications are treated

  7. Hamiltonian reductions in plasma physics about intrinsic gyrokinetic

    International Nuclear Information System (INIS)

    Guillebon de Resnes, L. de

    2013-01-01

    Gyrokinetic is a key model for plasma micro-turbulence, commonly used for fusion plasmas or small-scale astrophysical turbulence, for instance. The model still suffers from several issues, which could imply to reconsider the equations. This thesis dissertation clarifies three of them. First, one of the coordinates caused questions, both from a physical and from a mathematical point of view; a suitable constrained coordinate is introduced, which removes the issues from the theory and explains the intrinsic structures underlying the questions. Second, the perturbative coordinate transformation for gyrokinetic was computed only at lowest orders; explicit induction relations are obtained to go arbitrary order in the expansion. Third, the introduction of the coupling between the plasma and the electromagnetic field was not completely satisfactory; using the Hamiltonian structure of the dynamics, it is implemented in a more appropriate way, with strong consequences on the gyrokinetic equations, especially about their Hamiltonian structure. In order to address these three main points, several other results are obtained, for instance about the origin of the guiding-center adiabatic invariant, about a very efficient minimal guiding center transformation, or about an intermediate Hamiltonian model between Vlasov-Maxwell and gyrokinetic, where the characteristics include both the slow guiding-center dynamics and the fast gyro-angle dynamics. In addition, various reduction methods are used, introduced or developed, e.g. a Lie-transform of the equations of motion, a lifting method to transfer particle reductions to the corresponding Hamiltonian field dynamics, or a truncation method related both to Dirac's theory of constraints and to a projection onto a Lie-subalgebra. Besides gyrokinetic, this is useful to clarify other Hamiltonian reductions in plasma physics, for instance for incompressible or electrostatic dynamics, for magnetohydrodynamics, or for fluid closures including

  8. Gyrokinetic equivalence

    International Nuclear Information System (INIS)

    Parra, Felix I; Catto, Peter J

    2009-01-01

    We compare two different derivations of the gyrokinetic equation: the Hamiltonian approach in Dubin D H E et al (1983 Phys. Fluids 26 3524) and the recursive methodology in Parra F I and Catto P J (2008 Plasma Phys. Control. Fusion 50 065014). We prove that both approaches yield the same result at least to second order in a Larmor radius over macroscopic length expansion. There are subtle differences in the definitions of some of the functions that need to be taken into account to prove the equivalence.

  9. Profile stiffness measurements in the Helically Symmetric experiment and comparison to nonlinear gyrokinetic calculations

    Energy Technology Data Exchange (ETDEWEB)

    Weir, G. M.; Faber, B. J.; Likin, K. M.; Talmadge, J. N.; Anderson, D. T.; Anderson, F. S. B. [HSX Plasma Laboratory, University of Wisconsin–Madison, Madison, Wisconsin 53706 (United States)

    2015-05-15

    Stiffness measurements are presented in the quasi-helically symmetric experiment (HSX), in which the neoclassical transport is comparable to that in a tokamak and turbulent transport dominates throughout the plasma. Electron cyclotron emission is used to measure the local electron temperature response to modulated electron cyclotron resonant heating. The amplitude and phase of the heat wave through the steep electron temperature gradient (ETG) region of the plasma are used to determine a transient electron thermal diffusivity that is close to the steady-state diffusivity. The low stiffness in the region between 0.2 ≤ r/a ≤ 0.4 agrees with the scaling of the steady-state heat flux with temperature gradient in this region. These experimental results are compared to gyrokinetic calculations in a flux-tube geometry using the gyrokinetic electromagnetic numerical experiment code with two kinetic species. Linear simulations show that the ETG mode may be experimentally relevant within r/a ≤ 0.2, while the Trapped Electron Mode (TEM) is the dominant long-wavelength microturbulence instability across most of the plasma. The TEM is primarily driven by the density gradient. Non-linear calculations of the saturated heat flux driven by the TEM and ETG bracket the experimental heat flux.

  10. Efficient Eulerian gyrokinetic simulations with block-structured grids

    International Nuclear Information System (INIS)

    Jarema, Denis

    2017-01-01

    Gaining a deep understanding of plasma microturbulence is of paramount importance for the development of future nuclear fusion reactors, because it causes a strong outward transport of heat and particles. Gyrokinetics has proven itself as a valid mathematical model to simulate such plasma microturbulence effects. In spite of the advantages of this model, nonlinear radially extended (or global) gyrokinetic simulations are still extremely computationally expensive, involving a very large number of computational grid points. Hence, methods that reduce the number of grid points without a significant loss of accuracy are a prerequisite to be able to run high-fidelity simulations. At the level of the mathematical model, the gyrokinetic approach achieves a reduction from six to five coordinates in comparison to the fully kinetic models. This reduction leads to an important decrease in the total number of computational grid points. However, the velocity space mixed with the radial direction still requires a very fine resolution in grid based codes, due to the disparities in the thermal speed, which are caused by a strong temperature variation along the radial direction. An attempt to address this problem by modifying the underlying gyrokinetic set of equations leads to additional nonlinear terms, which are the most expensive parts to simulate. Furthermore, because of these modifications, well-established and computationally efficient implementations developed for the original set of equations can no longer be used. To tackle such issues, in this thesis we introduce an alternative approach of blockstructured grids. This approach reduces the number of grid points significantly, but without changing the underlying mathematical model. Furthermore, our technique is minimally invasive and allows the reuse of a large amount of already existing code using rectilinear grids, modifications being necessary only on the block boundaries. Moreover, the block-structured grid can be

  11. Efficient Eulerian gyrokinetic simulations with block-structured grids

    Energy Technology Data Exchange (ETDEWEB)

    Jarema, Denis

    2017-01-20

    Gaining a deep understanding of plasma microturbulence is of paramount importance for the development of future nuclear fusion reactors, because it causes a strong outward transport of heat and particles. Gyrokinetics has proven itself as a valid mathematical model to simulate such plasma microturbulence effects. In spite of the advantages of this model, nonlinear radially extended (or global) gyrokinetic simulations are still extremely computationally expensive, involving a very large number of computational grid points. Hence, methods that reduce the number of grid points without a significant loss of accuracy are a prerequisite to be able to run high-fidelity simulations. At the level of the mathematical model, the gyrokinetic approach achieves a reduction from six to five coordinates in comparison to the fully kinetic models. This reduction leads to an important decrease in the total number of computational grid points. However, the velocity space mixed with the radial direction still requires a very fine resolution in grid based codes, due to the disparities in the thermal speed, which are caused by a strong temperature variation along the radial direction. An attempt to address this problem by modifying the underlying gyrokinetic set of equations leads to additional nonlinear terms, which are the most expensive parts to simulate. Furthermore, because of these modifications, well-established and computationally efficient implementations developed for the original set of equations can no longer be used. To tackle such issues, in this thesis we introduce an alternative approach of blockstructured grids. This approach reduces the number of grid points significantly, but without changing the underlying mathematical model. Furthermore, our technique is minimally invasive and allows the reuse of a large amount of already existing code using rectilinear grids, modifications being necessary only on the block boundaries. Moreover, the block-structured grid can be

  12. Verification of Gyrokinetic Particle of Turbulent Simulation of Device Size Scaling Transport

    Institute of Scientific and Technical Information of China (English)

    LIN Zhihong; S. ETHIER; T. S. HAHM; W. M. TANG

    2012-01-01

    Verification and historical perspective are presented on the gyrokinetic particle simulations that discovered the device size scaling of turbulent transport and indentified the geometry model as the source of the long-standing disagreement between gyrokinetic particle and continuum simulations.

  13. Benchmark test of drift-kinetic and gyrokinetic codes through neoclassical transport simulations

    International Nuclear Information System (INIS)

    Satake, S.; Sugama, H.; Watanabe, T.-H.; Idomura, Yasuhiro

    2009-09-01

    Two simulation codes that solve the drift-kinetic or gyrokinetic equation in toroidal plasmas are benchmarked by comparing the simulation results of neoclassical transport. The two codes are the drift-kinetic δf Monte Carlo code (FORTEC-3D) and the gyrokinetic full- f Vlasov code (GT5D), both of which solve radially-global, five-dimensional kinetic equation with including the linear Fokker-Planck collision operator. In a tokamak configuration, neoclassical radial heat flux and the force balance relation, which relates the parallel mean flow with radial electric field and temperature gradient, are compared between these two codes, and their results are also compared with the local neoclassical transport theory. It is found that the simulation results of the two codes coincide very well in a wide rage of plasma collisionality parameter ν * = 0.01 - 10 and also agree with the theoretical estimations. The time evolution of radial electric field and particle flux, and the radial profile of the geodesic acoustic mode frequency also coincide very well. These facts guarantee the capability of GT5D to simulate plasma turbulence transport with including proper neoclassical effects of collisional diffusion and equilibrium radial electric field. (author)

  14. Variational principle for nonlinear gyrokinetic Vlasov--Maxwell equations

    International Nuclear Information System (INIS)

    Brizard, Alain J.

    2000-01-01

    A new variational principle for the nonlinear gyrokinetic Vlasov--Maxwell equations is presented. This Eulerian variational principle uses constrained variations for the gyrocenter Vlasov distribution in eight-dimensional extended phase space and turns out to be simpler than the Lagrangian variational principle recently presented by H. Sugama [Phys. Plasmas 7, 466 (2000)]. A local energy conservation law is then derived explicitly by the Noether method. In future work, this new variational principle will be used to derive self-consistent, nonlinear, low-frequency Vlasov--Maxwell bounce-gyrokinetic equations, in which the fast gyromotion and bounce-motion time scales have been eliminated

  15. Parallel magnetic field perturbations in gyrokinetic simulations

    International Nuclear Information System (INIS)

    Joiner, N.; Hirose, A.; Dorland, W.

    2010-01-01

    At low β it is common to neglect parallel magnetic field perturbations on the basis that they are of order β 2 . This is only true if effects of order β are canceled by a term in the ∇B drift also of order β[H. L. Berk and R. R. Dominguez, J. Plasma Phys. 18, 31 (1977)]. To our knowledge this has not been rigorously tested with modern gyrokinetic codes. In this work we use the gyrokinetic code GS2[Kotschenreuther et al., Comput. Phys. Commun. 88, 128 (1995)] to investigate whether the compressional magnetic field perturbation B || is required for accurate gyrokinetic simulations at low β for microinstabilities commonly found in tokamaks. The kinetic ballooning mode (KBM) demonstrates the principle described by Berk and Dominguez strongly, as does the trapped electron mode, in a less dramatic way. The ion and electron temperature gradient (ETG) driven modes do not typically exhibit this behavior; the effects of B || are found to depend on the pressure gradients. The terms which are seen to cancel at long wavelength in KBM calculations can be cumulative in the ion temperature gradient case and increase with η e . The effect of B || on the ETG instability is shown to depend on the normalized pressure gradient β ' at constant β.

  16. Fully non-linear multi-species Fokker-Planck-Landau collisions for gyrokinetic particle-in-cell simulations of fusion plasma

    Science.gov (United States)

    Hager, Robert; Yoon, E. S.; Ku, S.; D'Azevedo, E. F.; Worley, P. H.; Chang, C. S.

    2015-11-01

    We describe the implementation, and application of a time-dependent, fully nonlinear multi-species Fokker-Planck-Landau collision operator based on the single-species work of Yoon and Chang [Phys. Plasmas 21, 032503 (2014)] in the full-function gyrokinetic particle-in-cell codes XGC1 [Ku et al., Nucl. Fusion 49, 115021 (2009)] and XGCa. XGC simulations include the pedestal and scrape-off layer, where significant deviations of the particle distribution function from a Maxwellian can occur. Thus, in order to describe collisional effects on neoclassical and turbulence physics accurately, the use of a non-linear collision operator is a necessity. Our collision operator is based on a finite volume method using the velocity-space distribution functions sampled from the marker particles. Since the same fine configuration space mesh is used for collisions and the Poisson solver, the workload due to collisions can be comparable to or larger than the workload due to particle motion. We demonstrate that computing time spent on collisions can be kept affordable by applying advanced parallelization strategies while conserving mass, momentum, and energy to reasonable accuracy. We also show results of production scale XGCa simulations in the H-mode pedestal and compare to conventional theory. Work supported by US DOE OFES and OASCR.

  17. Transport of momentum in full f gyrokinetics

    International Nuclear Information System (INIS)

    Parra, Felix I.; Catto, Peter J.

    2010-01-01

    Full f electrostatic gyrokinetic formulations employ two gyrokinetic equations, one for ions and the other for electrons, and quasineutrality to obtain the ion and electron distribution functions and the electrostatic potential. We demonstrate with several examples that the long wavelength radial electric field obtained with full f approaches is extremely sensitive to errors in the ion and electron density since small deviations in density give rise to large, nonphysical deviations in the conservation of toroidal angular momentum. For typical tokamak values, a relative error of 10 -7 in the ion or electron densities is enough to obtain the incorrect toroidal rotation. Based on the insights gained with the examples considered, three simple tests to check transport of toroidal angular momentum in full f simulations are proposed.

  18. Gyrokinetic simulations in general geometry and applications to collisional damping of zonal flows

    International Nuclear Information System (INIS)

    Lin, Z.; Hahm, T.S.; Lee, W.W.; Tang, W.M.; White, R.B.

    2000-01-01

    A fully three-dimensional gyrokinetic particle code using magnetic coordinates for general geometry has been developed and applied to the investigation of zonal flows dynamics in toroidal ion-temperature-gradient turbulence. Full torus simulation results support the important conclusion that turbulence-driven zonal flows significantly reduce the turbulent transport. Linear collisionless simulations for damping of an initial poloidal flow perturbation exhibit an asymptotic residual flow. The collisional damping of this residual causes the dependence of ion thermal transport on the ion-ion collision frequency even in regimes where the instabilities are collisionless

  19. Effects of the magnetic equilibrium on gyrokinetic simulations of tokamak microinstabilities

    Energy Technology Data Exchange (ETDEWEB)

    Wan, Weigang; Chen, Yang; Parker, Scott E. [Department of Physics, University of Colorado, Boulder, Colorado 80309 (United States); Groebner, Richard J. [General Atomics, Post Office Box 85068, San Diego, California 92186 (United States)

    2015-06-15

    The general geometry of the experimental tokamak magnetic equilibrium is implemented in the global gyrokinetic simulation code GEM. Compared to the general geometry, the well used Miller parameterization of the magnetic equilibrium is a good approximation in the core region and up to the top of the pedestal. Linear simulations indicate that results with the two geometries agree for r/a ≤ 0.9. However, in the edge region, the instabilities are sensitive to the magnetic equilibrium in both the L-mode and the H-mode plasmas. A small variation of the plasma shaping parameters leads to large changes to the edge instability.

  20. Gyrokinetic Simulations of Solar Wind Turbulence from Ion to Electron Scales

    International Nuclear Information System (INIS)

    Howes, G. G.; TenBarge, J. M.; Dorland, W.; Numata, R.; Quataert, E.; Schekochihin, A. A.; Tatsuno, T.

    2011-01-01

    A three-dimensional, nonlinear gyrokinetic simulation of plasma turbulence resolving scales from the ion to electron gyroradius with a realistic mass ratio is presented, where all damping is provided by resolved physical mechanisms. The resulting energy spectra are quantitatively consistent with a magnetic power spectrum scaling of k -2.8 as observed in in situ spacecraft measurements of the 'dissipation range' of solar wind turbulence. Despite the strongly nonlinear nature of the turbulence, the linear kinetic Alfven wave mode quantitatively describes the polarization of the turbulent fluctuations. The collisional ion heating is measured at subion-Larmor radius scales, which provides evidence of the ion entropy cascade in an electromagnetic turbulence simulation.

  1. Comparisons of 'Identical' Simulations by the Eulerian Gyrokinetic Codes GS2 and GYRO

    Science.gov (United States)

    Bravenec, R. V.; Ross, D. W.; Candy, J.; Dorland, W.; McKee, G. R.

    2003-10-01

    A major goal of the fusion program is to be able to predict tokamak transport from first-principles theory. To this end, the Eulerian gyrokinetic code GS2 was developed years ago and continues to be improved [1]. Recently, the Eulerian code GYRO was developed [2]. These codes are not subject to the statistical noise inherent to particle-in-cell (PIC) codes, and have been very successful in treating electromagnetic fluctuations. GS2 is fully spectral in the radial coordinate while GYRO uses finite-differences and ``banded" spectral schemes. To gain confidence in nonlinear simulations of experiment with these codes, ``apples-to-apples" comparisons (identical profile inputs, flux-tube geometry, two species, etc.) are first performed. We report on a series of linear and nonlinear comparisons (with overall agreement) including kinetic electrons, collisions, and shaped flux surfaces. We also compare nonlinear simulations of a DIII-D discharge to measurements of not only the fluxes but also the turbulence parameters. [1] F. Jenko, et al., Phys. Plasmas 7, 1904 (2000) and refs. therein. [2] J. Candy, J. Comput. Phys. 186, 545 (2003).

  2. Metriplectic Gyrokinetics and Discretization Methods for the Landau Collision Integral

    Science.gov (United States)

    Hirvijoki, Eero; Burby, Joshua W.; Kraus, Michael

    2017-10-01

    We present two important results for the kinetic theory and numerical simulation of warm plasmas: 1) We provide a metriplectic formulation of collisional electrostatic gyrokinetics that is fully consistent with the First and Second Laws of Thermodynamics. 2) We provide a metriplectic temporal and velocity-space discretization for the particle phase-space Landau collision integral that satisfies the conservation of energy, momentum, and particle densities to machine precision, as well as guarantees the existence of numerical H-theorem. The properties are demonstrated algebraically. These two result have important implications: 1) Numerical methods addressing the Vlasov-Maxwell-Landau system of equations, or its reduced gyrokinetic versions, should start from a metriplectic formulation to preserve the fundamental physical principles also at the discrete level. 2) The plasma physics community should search for a metriplectic reduction theory that would serve a similar purpose as the existing Lagrangian and Hamiltonian reduction theories do in gyrokinetics. The discovery of metriplectic formulation of collisional electrostatic gyrokinetics is strong evidence in favor of such theory and, if uncovered, the theory would be invaluable in constructing reduced plasma models. Supported by U.S. DOE Contract Nos. DE-AC02-09-CH11466 (EH) and DE-AC05-06OR23100 (JWB) and by European Union's Horizon 2020 research and innovation Grant No. 708124 (MK).

  3. Effects of collisions on conservation laws in gyrokinetic field theory

    Energy Technology Data Exchange (ETDEWEB)

    Sugama, H.; Nunami, M. [National Institute for Fusion Science, Toki 509-5292 (Japan); Department of Fusion Science, SOKENDAI (The Graduate University for Advanced Studies), Toki 509-5292 (Japan); Watanabe, T.-H. [Department of Physics, Nagoya University, Nagoya 464-8602 (Japan)

    2015-08-15

    Effects of collisions on conservation laws for toroidal plasmas are investigated based on the gyrokinetic field theory. Associating the collisional system with a corresponding collisionless system at a given time such that the two systems have the same distribution functions and electromagnetic fields instantaneously, it is shown how the collisionless conservation laws derived from Noether's theorem are modified by the collision term. Effects of the external source term added into the gyrokinetic equation can be formulated similarly with the collisional effects. Particle, energy, and toroidal momentum balance equations including collisional and turbulent transport fluxes are systematically derived using a novel gyrokinetic collision operator, by which the collisional change rates of energy and canonical toroidal angular momentum per unit volume in the gyrocenter space can be given in the conservative forms. The ensemble-averaged transport equations of particles, energy, and toroidal momentum given in the present work are shown to include classical, neoclassical, and turbulent transport fluxes which agree with those derived from conventional recursive formulations.

  4. Gyrokinetic theory of slab universal modes and the non-existence of the gradient drift coupling (GDC) instability

    Science.gov (United States)

    Rogers, Barrett N.; Zhu, Ben; Francisquez, Manaure

    2018-05-01

    A gyrokinetic linear stability analysis of a collisionless slab geometry in the local approximation is presented. We focus on k∥=0 universal (or entropy) modes driven by plasma gradients at small and large plasma β. These are small scale non-MHD instabilities with growth rates that typically peak near k⊥ρi˜1 and vanish in the long wavelength k⊥→0 limit. This work also discusses a mode known as the Gradient Drift Coupling (GDC) instability previously reported in the gyrokinetic literature, which has a finite growth rate γ=√{β/[2 (1 +β)] }Cs/|Lp| with Cs2=p0/ρ0 for k⊥→0 and is universally unstable for 1 /Lp≠0 . We show that the GDC instability is a spurious, unphysical artifact that erroneously arises due to the failure to respect the total equilibrium pressure balance p0+B02/(8 π)=constant , which renders the assumption B0'=0 inconsistent if p0'≠0 .

  5. Gyrokinetic simulations of turbulent transport: size scaling and chaotic behaviour

    International Nuclear Information System (INIS)

    Villard, L; Brunner, S; Casati, A; Aghdam, S Khosh; Lapillonne, X; McMillan, B F; Bottino, A; Dannert, T; Goerler, T; Hatzky, R; Jenko, F; Merz, F; Chowdhury, J; Ganesh, R; Garbet, X; Grandgirard, V; Latu, G; Sarazin, Y; Idomura, Y; Jolliet, S

    2010-01-01

    Important steps towards the understanding of turbulent transport have been made with the development of the gyrokinetic framework for describing turbulence and with the emergence of numerical codes able to solve the set of gyrokinetic equations. This paper presents some of the main recent advances in gyrokinetic theory and computing of turbulence. Solving 5D gyrokinetic equations for each species requires state-of-the-art high performance computing techniques involving massively parallel computers and parallel scalable algorithms. The various numerical schemes that have been explored until now, Lagrangian, Eulerian and semi-Lagrangian, each have their advantages and drawbacks. A past controversy regarding the finite size effect (finite ρ * ) in ITG turbulence has now been resolved. It has triggered an intensive benchmarking effort and careful examination of the convergence properties of the different numerical approaches. Now, both Eulerian and Lagrangian global codes are shown to agree and to converge to the flux-tube result in the ρ * → 0 limit. It is found, however, that an appropriate treatment of geometrical terms is necessary: inconsistent approximations that are sometimes used can lead to important discrepancies. Turbulent processes are characterized by a chaotic behaviour, often accompanied by bursts and avalanches. Performing ensemble averages of statistically independent simulations, starting from different initial conditions, is presented as a way to assess the intrinsic variability of turbulent fluxes and obtain reliable estimates of the standard deviation. Further developments concerning non-adiabatic electron dynamics around mode-rational surfaces and electromagnetic effects are discussed.

  6. Turbulent transport of toroidal angular momentum in low flow gyrokinetics

    International Nuclear Information System (INIS)

    Parra, Felix I; Catto, Peter J

    2010-01-01

    We derive a self-consistent equation for the turbulent transport of toroidal angular momentum in tokamaks in the low flow ordering that only requires solving gyrokinetic Fokker-Planck and quasineutrality equations correct to second order in an expansion on the gyroradius over scale length. We also show that according to our orderings the long wavelength toroidal rotation and the long wavelength radial electric field satisfy the neoclassical relation that gives the toroidal rotation as a function of the radial electric field and the radial gradients of pressure and temperature. Thus, the radial electric field can be solved for once the toroidal rotation is calculated from the transport of toroidal angular momentum. Unfortunately, even though this methodology only requires a gyrokinetic model correct to second order in gyroradius over scale length, current gyrokinetic simulations are only valid to first order. To overcome this difficulty, we exploit the smallish ratio B p /B, where B is the total magnetic field and B p is its poloidal component. When B p /B is small, the usual first order gyrokinetic equation provides solutions that are accurate enough to employ for our expression for the transport of toroidal angular momentum. We show that current δf and full f simulations only need small corrections to achieve this accuracy. Full f simulations, however, are still unable to determine the long wavelength, radial electric field from the quasineutrality equation.

  7. Finite element approach to global gyrokinetic particle-in-cell simulations using magnetic coordinate

    International Nuclear Information System (INIS)

    Fivaz, M.; Brunner, S.; Ridder, G. de; Sauter, O.; Tran, T.M.; Vaclavik, J.; Villard, L.; Appert, K.

    1997-08-01

    We present a fully-global linear gyrokinetic simulation code (GYGLES) aimed at describing the instable spectrum of the ion-temperature-gradient modes in toroidal geometry. We formulate the Particle-In-Cell method with finite elements defined in magnetic coordinates, which provides excellent numerical convergence properties. The poloidal mode structure corresponding to k // =0 is extracted without approximation from the equations, which reduces drastically the numerical resolution needed. The code can simulate routinely modes with both very long and very short toroidal wavelengths, can treat realistic (MHD) equilibria of any size and runs on a massively parallel computer. (author) 10 figs., 28 refs

  8. COMPREHENSIVE GYROKINETIC SIMULATION OF TOKAMAK TURBULENCE AT FINITE RELATIVE GYRORADIUS

    International Nuclear Information System (INIS)

    WALTZ, R.E.; CANDY, J.; ROSENBLUTH, M.N.

    2002-01-01

    OAK B202 COMPREHENSIVE GYROKINETIC SIMULATION OF TOKAMAK TURBULENCE AT FINITE RELATIVE GYRORADIUS. A continuum global gyrokinetic code GYRO has been developed to comprehensively simulate turbulent transport in actual experimental profiles and allow direct quantitative comparisons to the experimental transport flows. GYRO not only treats the now standard ion temperature gradient (ITG) mode turbulence, but also treats trapped and passing electrons with collisions and finite beta, and all in real tokamak geometry. Most importantly the code operates at finite relative gyroradius (ρ*) so as to treat the profile shear stabilization effects which break gyroBohm scaling. The code operates in a cyclic flux tube limit which allows only gyroBohm scaling and a noncyclic radial annulus with physical profile variation. The later requires an adaptive source to maintain equilibrium profiles. Simple ITG simulations demonstrate the broken gyroBohm scaling depends on the actual rotational velocity shear rates competing with mode growth rates, direct comprehensive simulations of the DIII-D ρ*-scaled L-mode experiments are presented as a quantitative test of gyrokinetics and the paradigm

  9. The Theory of Linear Prediction

    CERN Document Server

    Vaidyanathan, PP

    2007-01-01

    Linear prediction theory has had a profound impact in the field of digital signal processing. Although the theory dates back to the early 1940s, its influence can still be seen in applications today. The theory is based on very elegant mathematics and leads to many beautiful insights into statistical signal processing. Although prediction is only a part of the more general topics of linear estimation, filtering, and smoothing, this book focuses on linear prediction. This has enabled detailed discussion of a number of issues that are normally not found in texts. For example, the theory of vecto

  10. A generalized gyrokinetic Poisson solver

    International Nuclear Information System (INIS)

    Lin, Z.; Lee, W.W.

    1995-03-01

    A generalized gyrokinetic Poisson solver has been developed, which employs local operations in the configuration space to compute the polarization density response. The new technique is based on the actual physical process of gyrophase-averaging. It is useful for nonlocal simulations using general geometry equilibrium. Since it utilizes local operations rather than the global ones such as FFT, the new method is most amenable to massively parallel algorithms

  11. Nonequilibrium Gyrokinetic Fluctuation Theory and Sampling Noise in Gyrokinetic Particle-in-cell Simulations

    International Nuclear Information System (INIS)

    Krommes, John A.

    2007-01-01

    The present state of the theory of fluctuations in gyrokinetic (GK) plasmas and especially its application to sampling noise in GK particle-in-cell (PIC) simulations is reviewed. Topics addressed include the Δf method, the fluctuation-dissipation theorem for both classical and GK many-body plasmas, the Klimontovich formalism, sampling noise in PIC simulations, statistical closure for partial differential equations, the theoretical foundations of spectral balance in the presence of arbitrary noise sources, and the derivation of Kadomtsev-type equations from the general formalism

  12. Nonequilibrium Gyrokinetic Fluctuation Theory and Sampling Noise in Gyrokinetic Particle-in-cell Simulations

    Energy Technology Data Exchange (ETDEWEB)

    John A. Krommes

    2007-10-09

    The present state of the theory of fluctuations in gyrokinetic GK plasmas and especially its application to sampling noise in GK particle-in-cell PIC simulations is reviewed. Topics addressed include the Δf method, the fluctuation-dissipation theorem for both classical and GK many-body plasmas, the Klimontovich formalism, sampling noise in PIC simulations, statistical closure for partial differential equations, the theoretical foundations of spectral balance in the presence of arbitrary noise sources, and the derivation of Kadomtsev-type equations from the general formalism.

  13. On push-forward representations in the standard gyrokinetic model

    International Nuclear Information System (INIS)

    Miyato, N.; Yagi, M.; Scott, B. D.

    2015-01-01

    Two representations of fluid moments in terms of a gyro-center distribution function and gyro-center coordinates, which are called push-forward representations, are compared in the standard electrostatic gyrokinetic model. In the representation conventionally used to derive the gyrokinetic Poisson equation, the pull-back transformation of the gyro-center distribution function contains effects of the gyro-center transformation and therefore electrostatic potential fluctuations, which is described by the Poisson brackets between the distribution function and scalar functions generating the gyro-center transformation. Usually, only the lowest order solution of the generating function at first order is considered to explicitly derive the gyrokinetic Poisson equation. This is true in explicitly deriving representations of scalar fluid moments with polarization terms. One also recovers the particle diamagnetic flux at this order because it is associated with the guiding-center transformation. However, higher-order solutions are needed to derive finite Larmor radius terms of particle flux including the polarization drift flux from the conventional representation. On the other hand, the lowest order solution is sufficient for the other representation, in which the gyro-center transformation part is combined with the guiding-center one and the pull-back transformation of the distribution function does not appear

  14. On push-forward representations in the standard gyrokinetic model

    Energy Technology Data Exchange (ETDEWEB)

    Miyato, N., E-mail: miyato.naoaki@jaea.go.jp; Yagi, M. [Japan Atomic Energy Agency, 2-116 Omotedate, Obuchi, Rokkasho, Aomori 039-3212 (Japan); Scott, B. D. [Max-Planck-Institut für Plasmaphysik, D-85748 Garching (Germany)

    2015-01-15

    Two representations of fluid moments in terms of a gyro-center distribution function and gyro-center coordinates, which are called push-forward representations, are compared in the standard electrostatic gyrokinetic model. In the representation conventionally used to derive the gyrokinetic Poisson equation, the pull-back transformation of the gyro-center distribution function contains effects of the gyro-center transformation and therefore electrostatic potential fluctuations, which is described by the Poisson brackets between the distribution function and scalar functions generating the gyro-center transformation. Usually, only the lowest order solution of the generating function at first order is considered to explicitly derive the gyrokinetic Poisson equation. This is true in explicitly deriving representations of scalar fluid moments with polarization terms. One also recovers the particle diamagnetic flux at this order because it is associated with the guiding-center transformation. However, higher-order solutions are needed to derive finite Larmor radius terms of particle flux including the polarization drift flux from the conventional representation. On the other hand, the lowest order solution is sufficient for the other representation, in which the gyro-center transformation part is combined with the guiding-center one and the pull-back transformation of the distribution function does not appear.

  15. Gyrokinetic Simulation of Global Turbulent Transport Properties in Tokamak Experiments

    Energy Technology Data Exchange (ETDEWEB)

    Wang, W.X.; Lin, Z.; Tang, W.M.; Lee, W.W.; Ethier, S.; Lewandowski, J.L.V.; Rewoldt, G.; Hahm, T.S.; Manickam, J.

    2006-01-01

    A general geometry gyro-kinetic model for particle simulation of plasma turbulence in tokamak experiments is described. It incorporates the comprehensive influence of noncircular cross section, realistic plasma profiles, plasma rotation, neoclassical (equilibrium) electric fields, and Coulomb collisions. An interesting result of global turbulence development in a shaped tokamak plasma is presented with regard to nonlinear turbulence spreading into the linearly stable region. The mutual interaction between turbulence and zonal flows in collisionless plasmas is studied with a focus on identifying possible nonlinear saturation mechanisms for zonal flows. A bursting temporal behavior with a period longer than the geodesic acoustic oscillation period is observed even in a collisionless system. Our simulation results suggest that the zonal flows can drive turbulence. However, this process is too weak to be an effective zonal flow saturation mechanism.

  16. A conservative scheme of drift kinetic electrons for gyrokinetic simulation of kinetic-MHD processes in toroidal plasmas

    Science.gov (United States)

    Bao, J.; Liu, D.; Lin, Z.

    2017-10-01

    A conservative scheme of drift kinetic electrons for gyrokinetic simulations of kinetic-magnetohydrodynamic processes in toroidal plasmas has been formulated and verified. Both vector potential and electron perturbed distribution function are decomposed into adiabatic part with analytic solution and non-adiabatic part solved numerically. The adiabatic parallel electric field is solved directly from the electron adiabatic response, resulting in a high degree of accuracy. The consistency between electrostatic potential and parallel vector potential is enforced by using the electron continuity equation. Since particles are only used to calculate the non-adiabatic response, which is used to calculate the non-adiabatic vector potential through Ohm's law, the conservative scheme minimizes the electron particle noise and mitigates the cancellation problem. Linear dispersion relations of the kinetic Alfvén wave and the collisionless tearing mode in cylindrical geometry have been verified in gyrokinetic toroidal code simulations, which show that the perpendicular grid size can be larger than the electron collisionless skin depth when the mode wavelength is longer than the electron skin depth.

  17. Beyond scale separation in gyrokinetic turbulence

    International Nuclear Information System (INIS)

    Garbet, X.; Sarazin, Y.; Grandgirard, V.; Dif-Pradalier, G.; Darmet, G.; Ghendrih, Ph.; Angelino, P.; Bertrand, P.; Besse, N.; Gravier, E.; Morel, P.; Sonnendruecker, E.; Crouseilles, N.; Dischler, J.-M.; Latu, G.; Violard, E.; Brunetti, M.; Brunner, S.; Lapillonne, X.; Tran, T.-M.; Villard, L.; Boulet, M.

    2007-01-01

    This paper presents the results obtained with a set of gyrokinetic codes based on a semi-Lagrangian scheme. Several physics issues are addressed, namely, the comparison between fluid and kinetic descriptions, the intermittent behaviour of flux driven turbulence and the role of large scale flows in toroidal ITG turbulence. The question of the initialization of full-F simulations is also discussed

  18. Visualizing Gyrokinetic Turbulence in a Tokamak

    Science.gov (United States)

    Stantchev, George

    2005-10-01

    Multi-dimensional data output from gyrokinetic microturbulence codes are often difficult to visualize, in part due to the non-trivial geometry of the underlying grids, in part due to high irregularity of the relevant scalar field structures in turbulent regions. For instance, traditional isosurface extraction methods are likely to fail for the electrostatic potential field whose level sets may exhibit various geometric pathologies. To address these issues we develop an advanced interactive 3D gyrokinetic turbulence visualization framework which we apply in the study of microtearing instabilities calculated with GS2 in the MAST and NSTX geometries. In these simulations GS2 uses field-line-following coordinates such that the computational domain maps in physical space to a long, twisting flux tube with strong cross-sectional shear. Using statistical wavelet analysis we create a sparse multiple-scale volumetric representation of the relevant scalar fields, which we visualize via a variation of the so called splatting technique. To handle the problem of highly anisotropic flux tube configurations we adapt a geometry-driven surface illumination algorithm that places local light sources for effective feature-enhanced visualization.

  19. Neoclassical simulation of tokamak plasmas using the continuum gyrokinetic code TEMPEST.

    Science.gov (United States)

    Xu, X Q

    2008-07-01

    We present gyrokinetic neoclassical simulations of tokamak plasmas with a self-consistent electric field using a fully nonlinear (full- f ) continuum code TEMPEST in a circular geometry. A set of gyrokinetic equations are discretized on a five-dimensional computational grid in phase space. The present implementation is a method of lines approach where the phase-space derivatives are discretized with finite differences, and implicit backward differencing formulas are used to advance the system in time. The fully nonlinear Boltzmann model is used for electrons. The neoclassical electric field is obtained by solving the gyrokinetic Poisson equation with self-consistent poloidal variation. With a four-dimensional (psi,theta,micro) version of the TEMPEST code, we compute the radial particle and heat fluxes, the geodesic-acoustic mode, and the development of the neoclassical electric field, which we compare with neoclassical theory using a Lorentz collision model. The present work provides a numerical scheme for self-consistently studying important dynamical aspects of neoclassical transport and electric field in toroidal magnetic fusion devices.

  20. Neoclassical and gyrokinetic analysis of time-dependent helium transport experiments on MAST

    Science.gov (United States)

    Henderson, S. S.; Garzotti, L.; Casson, F. J.; Dickinson, D.; Fox, M. F. J.; O'Mullane, M.; Patel, A.; Roach, C. M.; Summers, H. P.; Valovič, M.; The MAST Team

    2014-09-01

    Time-dependent helium gas puff experiments have been performed on the Mega Ampère Spherical Tokamak (MAST) during a two point plasma current scan in L-mode and a confinement scan at 900 kA. An evaluation of the He II (n = 4 → 3) spectrum line induced by charge exchange suggests anomalous rates of diffusion and inward convection in the outer regions of both L-mode plasmas. Similar rates of diffusion are found in the H-mode plasma, however these rates are consistent with neoclassical predictions. The anomalous inward pinch found in the core of L-mode plasmas is also not apparent in the H-mode core. Linear gyrokinetic simulations of one flux surface in L-mode using the GS2 and GKW codes find that equilibrium flow shear is sufficient to stabilize ITG modes, consistent with beam emission spectroscopy (BES) observations, and suggest that collisionless TEMs may dominate the anomalous helium particle transport. A quasilinear estimate of the dimensionless peaking factor associated with TEMs is in good agreement with experiment. Collisionless TEMs are more stable in H-mode because the electron density gradient is flatter. The steepness of this gradient is therefore pivotal in determining the inward neoclassical particle pinch and the particle flux associated with TEM turbulence.

  1. Nonlinear electromagnetic gyrokinetic equations for rotating axisymmetric plasmas

    International Nuclear Information System (INIS)

    Artun, M.; Tang, W.M.

    1994-03-01

    The influence of sheared equilibrium flows on the confinement properties of tokamak plasmas is a topic of much current interest. A proper theoretical foundation for the systematic kinetic analysis of this important problem has been provided here by presented the derivation of a set of nonlinear electromagnetic gyrokinetic equations applicable to low frequency microinstabilities in a rotating axisymmetric plasma. The subsonic rotation velocity considered is in the direction of symmetry with the angular rotation frequency being a function of the equilibrium magnetic flux surface. In accordance with experimental observations, the rotation profile is chosen to scale with the ion temperature. The results obtained represent the shear flow generalization of the earlier analysis by Frieman and Chen where such flows were not taken into account. In order to make it readily applicable to gyrokinetic particle simulations, this set of equations is cast in a phase-space-conserving continuity equation form

  2. Gyrokinetic Vlasov code including full three-dimensional geometry of experiments

    International Nuclear Information System (INIS)

    Nunami, Masanori; Watanabe, Tomohiko; Sugama, Hideo

    2010-03-01

    A new gyrokinetic Vlasov simulation code, GKV-X, is developed for investigating the turbulent transport in magnetic confinement devices with non-axisymmetric configurations. Effects of the magnetic surface shapes in a three-dimensional equilibrium obtained from the VMEC code are accurately incorporated. Linear simulations of the ion temperature gradient instabilities and the zonal flows in the Large Helical Device (LHD) configuration are carried out by the GKV-X code for a benchmark test against the GKV code. The frequency, the growth rate, and the mode structure of the ion temperature gradient instability are influenced by the VMEC geometrical data such as the metric tensor components of the Boozer coordinates for high poloidal wave numbers, while the difference between the zonal flow responses obtained by the GKV and GKV-X codes is found to be small in the core LHD region. (author)

  3. A 3D gyrokinetic particle-in-cell simulation of fusion plasma microturbulence on parallel computers

    Science.gov (United States)

    Williams, T. J.

    1992-12-01

    One of the grand challenge problems now supported by HPCC is the Numerical Tokamak Project. A goal of this project is the study of low-frequency micro-instabilities in tokamak plasmas, which are believed to cause energy loss via turbulent thermal transport across the magnetic field lines. An important tool in this study is gyrokinetic particle-in-cell (PIC) simulation. Gyrokinetic, as opposed to fully-kinetic, methods are particularly well suited to the task because they are optimized to study the frequency and wavelength domain of the microinstabilities. Furthermore, many researchers now employ low-noise delta(f) methods to greatly reduce statistical noise by modelling only the perturbation of the gyrokinetic distribution function from a fixed background, not the entire distribution function. In spite of the increased efficiency of these improved algorithms over conventional PIC algorithms, gyrokinetic PIC simulations of tokamak micro-turbulence are still highly demanding of computer power--even fully-vectorized codes on vector supercomputers. For this reason, we have worked for several years to redevelop these codes on massively parallel computers. We have developed 3D gyrokinetic PIC simulation codes for SIMD and MIMD parallel processors, using control-parallel, data-parallel, and domain-decomposition message-passing (DDMP) programming paradigms. This poster summarizes our earlier work on codes for the Connection Machine and BBN TC2000 and our development of a generic DDMP code for distributed-memory parallel machines. We discuss the memory-access issues which are of key importance in writing parallel PIC codes, with special emphasis on issues peculiar to gyrokinetic PIC. We outline the domain decompositions in our new DDMP code and discuss the interplay of different domain decompositions suited for the particle-pushing and field-solution components of the PIC algorithm.

  4. A comprehensive gyrokinetic description of global electrostatic microinstabilities in a tokamak

    Science.gov (United States)

    Chowdhury, J.; Ganesh, R.; Brunner, S.; Vaclavik, J.; Villard, L.; Angelino, P.

    2009-05-01

    It is believed that low frequency microinstabilities such as ion temperature gradient (ITG) driven modes and trapped electron modes (TEMs) are largely responsible for the experimentally observed anomalous transport via the ion and electron channels in a tokamak. In the present work, a comprehensive global linear gyrokinetic model incorporating fully kinetic (trapped and passing) electrons and ions, actual ion to electron mass ratio, radial coupling, and profile variation is used to investigate the ITG driven modes and pure TEMs. These modes are found to exhibit multiscale structures in the presence of nonadiabatic passing electrons. The multiscale structure is related to the large nonadiabaticity of electrons in the vicinity of mode rational magnetic surfaces and leads to reduced mixing length estimates of transport compared to those obtained from adiabatic electron models.

  5. Model Predictive Control for Linear Complementarity and Extended Linear Complementarity Systems

    Directory of Open Access Journals (Sweden)

    Bambang Riyanto

    2005-11-01

    Full Text Available In this paper, we propose model predictive control method for linear complementarity and extended linear complementarity systems by formulating optimization along prediction horizon as mixed integer quadratic program. Such systems contain interaction between continuous dynamics and discrete event systems, and therefore, can be categorized as hybrid systems. As linear complementarity and extended linear complementarity systems finds applications in different research areas, such as impact mechanical systems, traffic control and process control, this work will contribute to the development of control design method for those areas as well, as shown by three given examples.

  6. Flux tube gyrokinetic simulations of the edge pedestal

    Science.gov (United States)

    Parker, Scott; Wan, Weigang; Chen, Yang

    2011-10-01

    The linear instabilities of DIII-D H-mode pedestal are studied with gyrokinetic micro-turbulence simulations. The simulation code GEM is an electromagnetic δf code with global tokamak geometry in the form of Miller equilibrium. Local flux tube simulations are carried out for multiple positions of two DIII-D profiles: shot #98889 and shot #131997. Near the top of the pedestal, the instability is clearly ITG. The dominant instability of the pedestal appears at the steep gradient region, and it is identified as a low frequency mode mostly driven by electron temperature gradient. The mode propagates along the electron diamagnetic direction for low n and may propagate along the ion direction for high n. At some positions near the steep gradient region, an ion instability is found which shows some characteristics of kinetic ballooning mode (KBM). These results will be compared to the results of E. Wang et al. and D. Fulton et al. in the same session. We thank R. Groebner and P. Snyder for providing experimental profiles and helpful discussions.

  7. A reduced model for ion temperature gradient turbulent transport in helical plasmas

    International Nuclear Information System (INIS)

    Nunami, M.; Watanabe, T.-H.; Sugama, H.

    2013-07-01

    A novel reduced model for ion temperature gradient (ITG) turbulent transport in helical plasmas is presented. The model enables one to predict nonlinear gyrokinetic simulation results from linear gyrokinetic analyses. It is shown from nonlinear gyrokinetic simulations of the ITG turbulence in helical plasmas that the transport coefficient can be expressed as a function of the turbulent fluctuation level and the averaged zonal flow amplitude. Then, the reduced model for the turbulent ion heat diffusivity is derived by representing the nonlinear turbulent fluctuations and zonal flow amplitude in terms of the linear growth rate of the ITG instability and the linear response of the zonal flow potentials. It is confirmed that the reduced transport model results are in good agreement with those from nonlinear gyrokinetic simulations for high ion temperature plasmas in the Large Helical Device. (author)

  8. A Numerical Instability in an ADI Algorithm for Gyrokinetics

    International Nuclear Information System (INIS)

    Belli, E.A.; Hammett, G.W.

    2004-01-01

    We explore the implementation of an Alternating Direction Implicit (ADI) algorithm for a gyrokinetic plasma problem and its resulting numerical stability properties. This algorithm, which uses a standard ADI scheme to divide the field solve from the particle distribution function advance, has previously been found to work well for certain plasma kinetic problems involving one spatial and two velocity dimensions, including collisions and an electric field. However, for the gyrokinetic problem we find a severe stability restriction on the time step. Furthermore, we find that this numerical instability limitation also affects some other algorithms, such as a partially implicit Adams-Bashforth algorithm, where the parallel motion operator v parallel ∂/∂z is treated implicitly and the field terms are treated with an Adams-Bashforth explicit scheme. Fully explicit algorithms applied to all terms can be better at long wavelengths than these ADI or partially implicit algorithms

  9. Gyrokinetic theory for particle and energy transport in fusion plasmas

    Science.gov (United States)

    Falessi, Matteo Valerio; Zonca, Fulvio

    2018-03-01

    A set of equations is derived describing the macroscopic transport of particles and energy in a thermonuclear plasma on the energy confinement time. The equations thus derived allow studying collisional and turbulent transport self-consistently, retaining the effect of magnetic field geometry without postulating any scale separation between the reference state and fluctuations. Previously, assuming scale separation, transport equations have been derived from kinetic equations by means of multiple-scale perturbation analysis and spatio-temporal averaging. In this work, the evolution equations for the moments of the distribution function are obtained following the standard approach; meanwhile, gyrokinetic theory has been used to explicitly express the fluctuation induced fluxes. In this way, equations for the transport of particles and energy up to the transport time scale can be derived using standard first order gyrokinetics.

  10. Neoclassical and gyrokinetic analysis of time-dependent helium transport experiments on MAST

    International Nuclear Information System (INIS)

    Henderson, S.S.; O'Mullane, M.; Summers, H.P.; Garzotti, L.; Casson, F.J.; Dickinson, D.; Fox, M.F.J.; Patel, A.; Roach, C.M.; Valovič, M.

    2014-01-01

    Time-dependent helium gas puff experiments have been performed on the Mega Ampère Spherical Tokamak (MAST) during a two point plasma current scan in L-mode and a confinement scan at 900 kA. An evaluation of the He II (n = 4 → 3) spectrum line induced by charge exchange suggests anomalous rates of diffusion and inward convection in the outer regions of both L-mode plasmas. Similar rates of diffusion are found in the H-mode plasma, however these rates are consistent with neoclassical predictions. The anomalous inward pinch found in the core of L-mode plasmas is also not apparent in the H-mode core. Linear gyrokinetic simulations of one flux surface in L-mode using the GS2 and GKW codes find that equilibrium flow shear is sufficient to stabilize ITG modes, consistent with beam emission spectroscopy (BES) observations, and suggest that collisionless TEMs may dominate the anomalous helium particle transport. A quasilinear estimate of the dimensionless peaking factor associated with TEMs is in good agreement with experiment. Collisionless TEMs are more stable in H-mode because the electron density gradient is flatter. The steepness of this gradient is therefore pivotal in determining the inward neoclassical particle pinch and the particle flux associated with TEM turbulence. (paper)

  11. Study of no-man's land physics in the total-f gyrokinetic code XGC1

    Science.gov (United States)

    Ku, Seung Hoe; Chang, C. S.; Lang, J.

    2014-10-01

    While the ``transport shortfall'' in the ``no-man's land'' has been observed often in delta-f codes, it has not yet been observed in the global total-f gyrokinetic particle code XGC1. Since understanding the interaction between the edge and core transport appears to be a critical element in the prediction for ITER performance, understanding the no-man's land issue is an important physics research topic. Simulation results using the Holland case will be presented and the physics causing the shortfall phenomenon will be discussed. Nonlinear nonlocal interaction of turbulence, secondary flows, and transport appears to be the key.

  12. Fluid and gyrokinetic modelling of particle transport in plasmas with hollow density profiles

    International Nuclear Information System (INIS)

    Tegnered, D; Oberparleiter, M; Nordman, H; Strand, P

    2016-01-01

    Hollow density profiles occur in connection with pellet fuelling and L to H transitions. A positive density gradient could potentially stabilize the turbulence or change the relation between convective and diffusive fluxes, thereby reducing the turbulent transport of particles towards the center, making the fuelling scheme inefficient. In the present work, the particle transport driven by ITG/TE mode turbulence in regions of hollow density profiles is studied by fluid as well as gyrokinetic simulations. The fluid model used, an extended version of the Weiland transport model, Extended Drift Wave Model (EDWM), incorporates an arbitrary number of ion species in a multi-fluid description, and an extended wavelength spectrum. The fluid model, which is fast and hence suitable for use in predictive simulations, is compared to gyrokinetic simulations using the code GENE. Typical tokamak parameters are used based on the Cyclone Base Case. Parameter scans in key plasma parameters like plasma β, R/L T , and magnetic shear are investigated. It is found that β in particular has a stabilizing effect in the negative R/L n region, both nonlinear GENE and EDWM show a decrease in inward flux for negative R/L n and a change of direction from inward to outward for positive R/L n . This might have serious consequences for pellet fuelling of high β plasmas. (paper)

  13. The spectral problem of global microinstabilities in tokamak-like plasmas using a gyrokinetic model

    International Nuclear Information System (INIS)

    Brunner, S.; Vaclavik, J.; Fivaz, M.; Appert, K.

    1996-01-01

    Tokamak-like plasmas are modeled by a periodic cylindrical system with magnetic shear and realistic density and temperature profiles. Linear electrostatic microinstabilities in such plasmas are studied by solving the eigenvalue problem starting from gyrokinetic theory. The actual eigenvalue equation is then of integral type. With this approach, finite Larmor radius (FLR) effects to all orders are taken into account. FLR effects provide for the only radial coupling in a cylinder and to lowest order correspond to polarization drift. This effectively one-dimensional problem helped us to gain useful knowledge for solving gyrokinetic equations in a curved system. When searching for the eigenfrequencies of the global modes, two different methods have been tested and compared. Either the true eigenvalue problem is solved by finding the zeros of the characteristic equation, or one considers a system driven by an antenna and looks for resonances in the power response of the plasma. In addition, mode structures were computed as well in direct as in Fourier space. The advantages and disadvantages of these various approaches are discussed. Ion temperature gradient (ITG) instabilities are studied over a wide range of parameters and for wavelengths perpendicular to the magnetic field down to the scale of ion Larmor radii. Flute instabilities driven by magnetic curvature drifts are also considered. Some of these results are compared with a time evolution PIC code. Such comparisons are valuable as the convergence of PIC results is often questioned. Work considering true toroidal geometry is in progress

  14. Comparison of Linear Microinstability Calculations of Varying Input Realism

    International Nuclear Information System (INIS)

    Rewoldt, G.

    2003-01-01

    The effect of varying ''input realism'' or varying completeness of the input data for linear microinstability calculations, in particular on the critical value of the ion temperature gradient for the ion temperature gradient mode, is investigated using gyrokinetic and gyrofluid approaches. The calculations show that varying input realism can have a substantial quantitative effect on the results

  15. Comparison of linear microinstability calculations of varying input realism

    International Nuclear Information System (INIS)

    Rewoldt, G.; Kinsey, J.E.

    2004-01-01

    The effect of varying 'input realism' or varying completeness of the input data for linear microinstability calculations, in particular on the critical value of the ion temperature gradient for the ion temperature gradient mode, is investigated using gyrokinetic and gyrofluid approaches. The calculations show that varying input realism can have a substantial quantitative effect on the results

  16. An Efficient Method for Verifying Gyrokinetic Microstability Codes

    Science.gov (United States)

    Bravenec, R.; Candy, J.; Dorland, W.; Holland, C.

    2009-11-01

    Benchmarks for gyrokinetic microstability codes can be developed through successful ``apples-to-apples'' comparisons among them. Unlike previous efforts, we perform the comparisons for actual discharges, rendering the verification efforts relevant to existing experiments and future devices (ITER). The process requires i) assembling the experimental analyses at multiple times, radii, discharges, and devices, ii) creating the input files ensuring that the input parameters are faithfully translated code-to-code, iii) running the codes, and iv) comparing the results, all in an organized fashion. The purpose of this work is to automate this process as much as possible: At present, a python routine is used to generate and organize GYRO input files from TRANSP or ONETWO analyses. Another routine translates the GYRO input files into GS2 input files. (Translation software for other codes has not yet been written.) Other python codes submit the multiple GYRO and GS2 jobs, organize the results, and collect them into a table suitable for plotting. (These separate python routines could easily be consolidated.) An example of the process -- a linear comparison between GYRO and GS2 for a DIII-D discharge at multiple radii -- will be presented.

  17. Effects of Plasma Shaping on Nonlinear Gyrokinetic Turbulence

    Energy Technology Data Exchange (ETDEWEB)

    Belli, E. A. [Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Hammett, G. W. [Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Dorland, W. [Univ. of Maryland, College Park, MD (United States)

    2008-08-01

    The effects of flux surface shape on the gyrokinetic stability and transport of tokamak plasmas are studied using the GS2 code [M. Kotschenreuther, G. Rewoldt, and W.M. Tang, Comput. Phys. Commun. 88, 128 (1995); W. Dorland, F. Jenko, M. Kotschenreuther, and B.N. Rogers, Phys. Rev. Lett. 85, 5579 (2000)]. Studies of the scaling of nonlinear turbulence with shaping parameters are performed using analytic equilibria based on interpolations of representative shapes of the Joint European Torus (JET) [P.H. Rebut and B.E. Keen, Fusion Technol. 11, 13 (1987)]. High shaping is found to be a stabilizing influence on both the linear ion-temperature-gradient (ITG) instability and the nonlinear ITG turbulence. For the parameter regime studied here, a scaling of the heat flux with elongation of χ ~ κ-1.5 or κ-2.0, depending on the triangularity, is observed at fixed average temperature gradient. While this is not as strong as empirical elongation scalings, it is also found that high shaping results in a larger Dimits upshift of the nonlinear critical temperature gradient due to an enhancement of the Rosenbluth-Hinton residual zonal flows.

  18. Effects of Plasma Shaping on Nonlinear Gyrokinetic Turbulence

    International Nuclear Information System (INIS)

    E.A. Belli, G.W. Hammett and W. Dorland

    2008-01-01

    The effects of flux surface shape on the gyrokinetic stability and transport of tokamak plasmas are studied using the GS2 code [M. Kotschenreuther, G. Rewoldt, and W.M. Tang, Comput. Phys. Commun. 88, 128 (1995); W. Dorland, F. Jenko, M. Kotschenreuther, and B.N. Rogers, Phys. Rev. Lett. 85, 5579 (2000)]. Studies of the scaling of nonlinear turbulence with shaping parameters are performed using analytic equilibria based on interpolations of representative shapes of the Joint European Torus (JET) [P.H. Rebut and B.E. Keen, Fusion Technol. 11, 13 (1987)]. High shaping is found to be a stabilizing influence on both the linear ion-temperature-gradient (ITG) instability and the nonlinear ITG turbulence. For the parameter regime studied here, a scaling of the heat flux with elongation of χ ∼ κ -1.5 or κ -2.0 , depending on the triangularity, is observed at fixed average temperature gradient. While this is not as strong as empirical elongation scalings, it is also found that high shaping results in a larger Dimits upshift of the nonlinear critical temperature gradient due to an enhancement of the Rosenbluth-Hinton residual zonal flows

  19. Linear zonal atmospheric prediction for adaptive optics

    Science.gov (United States)

    McGuire, Patrick C.; Rhoadarmer, Troy A.; Coy, Hanna A.; Angel, J. Roger P.; Lloyd-Hart, Michael

    2000-07-01

    We compare linear zonal predictors of atmospheric turbulence for adaptive optics. Zonal prediction has the possible advantage of being able to interpret and utilize wind-velocity information from the wavefront sensor better than modal prediction. For simulated open-loop atmospheric data for a 2- meter 16-subaperture AO telescope with 5 millisecond prediction and a lookback of 4 slope-vectors, we find that Widrow-Hoff Delta-Rule training of linear nets and Back- Propagation training of non-linear multilayer neural networks is quite slow, getting stuck on plateaus or in local minima. Recursive Least Squares training of linear predictors is two orders of magnitude faster and it also converges to the solution with global minimum error. We have successfully implemented Amari's Adaptive Natural Gradient Learning (ANGL) technique for a linear zonal predictor, which premultiplies the Delta-Rule gradients with a matrix that orthogonalizes the parameter space and speeds up the training by two orders of magnitude, like the Recursive Least Squares predictor. This shows that the simple Widrow-Hoff Delta-Rule's slow convergence is not a fluke. In the case of bright guidestars, the ANGL, RLS, and standard matrix-inversion least-squares (MILS) algorithms all converge to the same global minimum linear total phase error (approximately 0.18 rad2), which is only approximately 5% higher than the spatial phase error (approximately 0.17 rad2), and is approximately 33% lower than the total 'naive' phase error without prediction (approximately 0.27 rad2). ANGL can, in principle, also be extended to make non-linear neural network training feasible for these large networks, with the potential to lower the predictor error below the linear predictor error. We will soon scale our linear work to the approximately 108-subaperture MMT AO system, both with simulations and real wavefront sensor data from prime focus.

  20. Comparison of linear and non-linear models for predicting energy expenditure from raw accelerometer data.

    Science.gov (United States)

    Montoye, Alexander H K; Begum, Munni; Henning, Zachary; Pfeiffer, Karin A

    2017-02-01

    This study had three purposes, all related to evaluating energy expenditure (EE) prediction accuracy from body-worn accelerometers: (1) compare linear regression to linear mixed models, (2) compare linear models to artificial neural network models, and (3) compare accuracy of accelerometers placed on the hip, thigh, and wrists. Forty individuals performed 13 activities in a 90 min semi-structured, laboratory-based protocol. Participants wore accelerometers on the right hip, right thigh, and both wrists and a portable metabolic analyzer (EE criterion). Four EE prediction models were developed for each accelerometer: linear regression, linear mixed, and two ANN models. EE prediction accuracy was assessed using correlations, root mean square error (RMSE), and bias and was compared across models and accelerometers using repeated-measures analysis of variance. For all accelerometer placements, there were no significant differences for correlations or RMSE between linear regression and linear mixed models (correlations: r  =  0.71-0.88, RMSE: 1.11-1.61 METs; p  >  0.05). For the thigh-worn accelerometer, there were no differences in correlations or RMSE between linear and ANN models (ANN-correlations: r  =  0.89, RMSE: 1.07-1.08 METs. Linear models-correlations: r  =  0.88, RMSE: 1.10-1.11 METs; p  >  0.05). Conversely, one ANN had higher correlations and lower RMSE than both linear models for the hip (ANN-correlation: r  =  0.88, RMSE: 1.12 METs. Linear models-correlations: r  =  0.86, RMSE: 1.18-1.19 METs; p  linear models for the wrist-worn accelerometers (ANN-correlations: r  =  0.82-0.84, RMSE: 1.26-1.32 METs. Linear models-correlations: r  =  0.71-0.73, RMSE: 1.55-1.61 METs; p  models offer a significant improvement in EE prediction accuracy over linear models. Conversely, linear models showed similar EE prediction accuracy to machine learning models for hip- and thigh

  1. Modelling and Predicting Backstroke Start Performance Using Non-Linear and Linear Models.

    Science.gov (United States)

    de Jesus, Karla; Ayala, Helon V H; de Jesus, Kelly; Coelho, Leandro Dos S; Medeiros, Alexandre I A; Abraldes, José A; Vaz, Mário A P; Fernandes, Ricardo J; Vilas-Boas, João Paulo

    2018-03-01

    Our aim was to compare non-linear and linear mathematical model responses for backstroke start performance prediction. Ten swimmers randomly completed eight 15 m backstroke starts with feet over the wedge, four with hands on the highest horizontal and four on the vertical handgrip. Swimmers were videotaped using a dual media camera set-up, with the starts being performed over an instrumented block with four force plates. Artificial neural networks were applied to predict 5 m start time using kinematic and kinetic variables and to determine the accuracy of the mean absolute percentage error. Artificial neural networks predicted start time more robustly than the linear model with respect to changing training to the validation dataset for the vertical handgrip (3.95 ± 1.67 vs. 5.92 ± 3.27%). Artificial neural networks obtained a smaller mean absolute percentage error than the linear model in the horizontal (0.43 ± 0.19 vs. 0.98 ± 0.19%) and vertical handgrip (0.45 ± 0.19 vs. 1.38 ± 0.30%) using all input data. The best artificial neural network validation revealed a smaller mean absolute error than the linear model for the horizontal (0.007 vs. 0.04 s) and vertical handgrip (0.01 vs. 0.03 s). Artificial neural networks should be used for backstroke 5 m start time prediction due to the quite small differences among the elite level performances.

  2. EPMLR: sequence-based linear B-cell epitope prediction method using multiple linear regression.

    Science.gov (United States)

    Lian, Yao; Ge, Meng; Pan, Xian-Ming

    2014-12-19

    B-cell epitopes have been studied extensively due to their immunological applications, such as peptide-based vaccine development, antibody production, and disease diagnosis and therapy. Despite several decades of research, the accurate prediction of linear B-cell epitopes has remained a challenging task. In this work, based on the antigen's primary sequence information, a novel linear B-cell epitope prediction model was developed using the multiple linear regression (MLR). A 10-fold cross-validation test on a large non-redundant dataset was performed to evaluate the performance of our model. To alleviate the problem caused by the noise of negative dataset, 300 experiments utilizing 300 sub-datasets were performed. We achieved overall sensitivity of 81.8%, precision of 64.1% and area under the receiver operating characteristic curve (AUC) of 0.728. We have presented a reliable method for the identification of linear B cell epitope using antigen's primary sequence information. Moreover, a web server EPMLR has been developed for linear B-cell epitope prediction: http://www.bioinfo.tsinghua.edu.cn/epitope/EPMLR/ .

  3. Nonlinear Gyrokinetic Theory With Polarization Drift

    International Nuclear Information System (INIS)

    Wang, L.; Hahm, T.S.

    2010-01-01

    A set of the electrostatic toroidal gyrokinetic Vlasov equation and the Poisson equation, which explicitly includes the polarization drift, is derived systematically by using Lie-transform method. The polarization drift is introduced in the gyrocenter equations of motion, and the corresponding polarization density is derived. Contrary to the wide-spread expectation, the inclusion of the polarization drift in the gyrocenter equations of motion does not affect the expression for the polarization density significantly. This is due to modification of the gyrocenter phase-space volume caused by the electrostatic potential [T. S. Hahm, Phys. Plasmas 3, 4658 (1996)].

  4. An online re-linearization scheme suited for Model Predictive and Linear Quadratic Control

    DEFF Research Database (Denmark)

    Henriksen, Lars Christian; Poulsen, Niels Kjølstad

    This technical note documents the equations for primal-dual interior-point quadratic programming problem solver used for MPC. The algorithm exploits the special structure of the MPC problem and is able to reduce the computational burden such that the computational burden scales with prediction...... horizon length in a linear way rather than cubic, which would be the case if the structure was not exploited. It is also shown how models used for design of model-based controllers, e.g. linear quadratic and model predictive, can be linearized both at equilibrium and non-equilibrium points, making...

  5. Quantitative comparison of electron temperature fluctuations to nonlinear gyrokinetic simulations in C-Mod Ohmic L-mode discharges

    Energy Technology Data Exchange (ETDEWEB)

    Sung, C., E-mail: csung@physics.ucla.edu [University of California, Los Angeles, Los Angeles, California 90095 (United States); White, A. E.; Greenwald, M.; Howard, N. T. [Plasma Science and Fusion Center, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139 (United States); Mikkelsen, D. R.; Churchill, R. [Princeton Plasma Physics Laboratory, Princeton, New Jersey 08543 (United States); Holland, C. [University of California, San Diego, La Jolla, California 92093 (United States); Theiler, C. [Ecole Polytechnique Fédérale de Lausanne, SPC, Lausanne 1015 (Switzerland)

    2016-04-15

    Long wavelength turbulent electron temperature fluctuations (k{sub y}ρ{sub s} < 0.3) are measured in the outer core region (r/a > 0.8) of Ohmic L-mode plasmas at Alcator C-Mod [E. S. Marmar et al., Nucl. Fusion 49, 104014 (2009)] with a correlation electron cyclotron emission diagnostic. The relative amplitude and frequency spectrum of the fluctuations are compared quantitatively with nonlinear gyrokinetic simulations using the GYRO code [J. Candy and R. E. Waltz, J. Comput. Phys. 186, 545 (2003)] in two different confinement regimes: linear Ohmic confinement (LOC) regime and saturated Ohmic confinement (SOC) regime. When comparing experiment with nonlinear simulations, it is found that local, electrostatic ion-scale simulations (k{sub y}ρ{sub s} ≲ 1.7) performed at r/a ∼ 0.85 reproduce the experimental ion heat flux levels, electron temperature fluctuation levels, and frequency spectra within experimental error bars. In contrast, the electron heat flux is robustly under-predicted and cannot be recovered by using scans of the simulation inputs within error bars or by using global simulations. If both the ion heat flux and the measured temperature fluctuations are attributed predominantly to long-wavelength turbulence, then under-prediction of electron heat flux strongly suggests that electron scale turbulence is important for transport in C-Mod Ohmic L-mode discharges. In addition, no evidence is found from linear or nonlinear simulations for a clear transition from trapped electron mode to ion temperature gradient turbulence across the LOC/SOC transition, and also there is no evidence in these Ohmic L-mode plasmas of the “Transport Shortfall” [C. Holland et al., Phys. Plasmas 16, 052301 (2009)].

  6. Full-f gyrokinetic simulation over a confinement time

    Energy Technology Data Exchange (ETDEWEB)

    Idomura, Yasuhiro, E-mail: idomura.yasuhiro@jaea.go.jp [Japan Atomic Energy Agency, Kashiwanoha 5-1-5, Kashiwa, Chiba 277-8587 (Japan)

    2014-02-15

    A long time ion temperature gradient driven turbulence simulation over a confinement time is performed using the full-f gyrokinetic Eulerian code GT5D. The convergence of steady temperature and rotation profiles is examined, and it is shown that the profile relaxation can be significantly accelerated when the simulation is initialized with linearly unstable temperature profiles. In the steady state, the temperature profile and the ion heat diffusivity are self-consistently determined by the power balance condition, while the intrinsic rotation profile is sustained by complicated momentum transport processes without momentum input. The steady turbulent momentum transport is characterized by bursty non-diffusive fluxes, and the resulting turbulent residual stress is consistent with the profile shear stress theory [Y. Camenen et al., “Consequences of profile shearing on toroidal momentum transport,” Nucl. Fusion 51, 073039 (2011)] in which the residual stress depends not only on the profile shear and the radial electric field shear but also on the radial electric field itself. Based on the toroidal angular momentum conservation, it is found that in the steady null momentum transport state, the turbulent residual stress is cancelled by the neoclassical counterpart, which is greatly enhanced in the presence of turbulent fluctuations.

  7. Gyrokinetic global analysis of ion temperature gradient driven mode in reversed shear tokamaks

    International Nuclear Information System (INIS)

    Idomura, Y.; Tokuda, S.; Kishimoto, Y.

    2003-01-01

    A new toroidal gyrokinetic particle code has been developed to study the ion temperature gradient driven (ITG) turbulence in reactor relevant tokamak parameters. We use a new method based on a canonical Maxwellian distribution F CM (P φ , ε, μ), which is defined by three constants of motion in the axisymmetric toroidal system, the canonical angular momentum P φ , the energy ε, and the magnetic moment μ. A quasi-ballooning representation enables linear and nonlinear high-m,n global calculations with a good numerical convergence. Conservation properties are improved by using the optimized loading method. From comprehensive linear global analyses over a wide range of an unstable toroidal mode number spectrum (n=0∼100) in large tokamak parameters (a/ρ ti =320∼460), properties of the ITG modes in reversed shear tokamaks are discussed. In the nonlinear simulation, it is found that a new method based on F CM can simulate a zonal flow damping correctly, and spurious zonal flow oscillations, which are observed in a conventional method based on a local Maxwellian distribution F LM (ψ, ε, μ), do not appear in the nonlinear regime. (author)

  8. Fully Electromagnetic Nonlinear Gyrokinetic Equations for Tokamak Edge Turbulence

    International Nuclear Information System (INIS)

    Hahm, T.S.; Wang, Lu; Madsen, J.

    2008-01-01

    An energy conserving set of the fully electromagnetic nonlinear gyrokinetic Vlasov equation and Maxwell's equations, which is applicable to both L-mode turbulence with large amplitude and H-mode turbulence in the presence of high E x B shear has been derived. The phase-space action variational Lie perturbation method ensures the preservation of the conservation laws of the underlying Vlasov-Maxwell system. Our generalized ordering takes ρ i θi ∼ L E ∼ L p i is the thermal ion Larmor radius and ρ θi = B/B θ ρ i ), as typically observed in the tokamak H-mode edge, with L E and L p being the radial electric field and pressure gradient lengths. We take k # perpendicular# ρ i ∼ 1 for generality, and keep the relative fluctuation amplitudes e(delta)φ/T i ∼ (delta)B/B up to the second order. Extending the electrostatic theory in the presence of high E x B shear [Hahm, Phys. Plasmas 3, 4658 (1996)], contributions of electromagnetic fluctuations to the particle charge density and current are explicitly evaluated via pull-back transformation from the gyrocenter distribution function in the gyrokinetic Maxwell's equation

  9. Neoclassical equilibrium in gyrokinetic simulations

    International Nuclear Information System (INIS)

    Garbet, X.; Dif-Pradalier, G.; Nguyen, C.; Sarazin, Y.; Grandgirard, V.; Ghendrih, Ph.

    2009-01-01

    This paper presents a set of model collision operators, which reproduce the neoclassical equilibrium and comply with the constraints of a full-f global gyrokinetic code. The assessment of these operators is based on an entropy variational principle, which allows one to perform a fast calculation of the neoclassical diffusivity and poloidal velocity. It is shown that the force balance equation is recovered at lowest order in the expansion parameter, the normalized gyroradius, hence allowing one to calculate correctly the radial electric field. Also, the conventional neoclassical transport and the poloidal velocity are reproduced in the plateau and banana regimes. The advantages and drawbacks of the various model operators are discussed in view of the requirements for neoclassical and turbulent transport.

  10. Comprehensive gyrokinetic simulation of tokamak turbulence at finite relative gyroradius

    International Nuclear Information System (INIS)

    Waltz, R.E.; Candy, J.; Rosenbluth, M.N.

    2003-01-01

    A continuum global gyrokinetic code GYRO has been developed to comprehensively simulate turbulent transport in actual experimental profiles and allow direct quantitative comparisons to the experimental transport flows. GYRO not only treats the now standard ion temperature gradient (ITG) mode turbulence, but also treats trapped and passing electrons with collisions and finite beta, and all in real tokamak geometry. Most importantly the code operates at finite relative gyroradius (ρ*) so as to treat the profile shear stabilization effects which break gyro Bohm scaling. The code operates in a cyclic flux tube limit which allows only gyro Bohm scaling and a noncylic radial annulus with physical profile variation. The later requires an adaptive source to maintain equilibrium profiles. Simple ITG simulations demonstrate the broken gyro Bohm scaling paradigm of Garbet and Waltz [Phys. Plasmas 3, 1898 (1996)]. Since broken gyro Bohm scaling depends on the actual rotational velocity shear rates competing with mode growth rates, direct comprehensive simulations of the DIII-D ρ*-scaled L-mode experiments are presented as a quantitative test of gyrokinetics and the paradigm. (author)

  11. A minimal collision operator for implementing neoclassical transport in gyrokinetic simulations

    International Nuclear Information System (INIS)

    Garbet, X.; Dif-Pradalier, G.; Nguyen, C.; Angelino, P.; Sarazin, Y.; Grandgirard, V.; Ghendrih, P.; Samain, A.

    2008-01-01

    This paper presents a class of collision operators, which reproduce neoclassical transport and comply with the constraints of a full-f global gyrokinetic code. The assessment of these operators is based on a variational entropy method, which allows a fast calculation of the neoclassical diffusivity and poloidal velocity.

  12. The Use of Linear Programming for Prediction.

    Science.gov (United States)

    Schnittjer, Carl J.

    The purpose of the study was to develop a linear programming model to be used for prediction, test the accuracy of the predictions, and compare the accuracy with that produced by curvilinear multiple regression analysis. (Author)

  13. L-mode validation studies of gyrokinetic turbulence simulations via multiscale and multifield turbulence measurements on the DIII-D tokamak

    International Nuclear Information System (INIS)

    Rhodes, T.L.; Doyle, E.J.; Hillesheim, J.C.; Peebles, W.A.; Schmitz, L.; Holland, C.; Smith, S.P.; Burrell, K.H.; Candy, J.; DeBoo, J.C.; Kinsey, J.E.; Petty, C.C.; Prater, R.; Staebler, G.M.; Waltz, R.E.; White, A.E.; McKee, G.R.; Mikkelsen, D.; Parker, S.; Chen, Y.

    2011-01-01

    A series of carefully designed experiments on DIII-D have taken advantage of a broad set of turbulence and profile diagnostics to rigorously test gyrokinetic turbulence simulations. In this paper the goals, tools and experiments performed in these validation studies are reviewed and specific examples presented. It is found that predictions of transport and fluctuation levels in the mid-core region (0.4 < ρ < 0.75) are in better agreement with experiment than those in the outer region (ρ ≥ 0.75) where edge coupling effects may become increasingly important and multiscale simulations may also be necessary. Validation studies such as these are crucial in developing confidence in a first-principles based predictive capability for ITER.

  14. Verification of gyrokinetic particle simulation of current-driven instability in fusion plasmas. I. Internal kink mode

    Energy Technology Data Exchange (ETDEWEB)

    McClenaghan, J.; Lin, Z.; Holod, I.; Deng, W.; Wang, Z. [University of California, Irvine, California 92697 (United States)

    2014-12-15

    The gyrokinetic toroidal code (GTC) capability has been extended for simulating internal kink instability with kinetic effects in toroidal geometry. The global simulation domain covers the magnetic axis, which is necessary for simulating current-driven instabilities. GTC simulation in the fluid limit of the kink modes in cylindrical geometry is verified by benchmarking with a magnetohydrodynamic eigenvalue code. Gyrokinetic simulations of the kink modes in the toroidal geometry find that ion kinetic effects significantly reduce the growth rate even when the banana orbit width is much smaller than the radial width of the perturbed current layer at the mode rational surface.

  15. Predicting birth weight with conditionally linear transformation models.

    Science.gov (United States)

    Möst, Lisa; Schmid, Matthias; Faschingbauer, Florian; Hothorn, Torsten

    2016-12-01

    Low and high birth weight (BW) are important risk factors for neonatal morbidity and mortality. Gynecologists must therefore accurately predict BW before delivery. Most prediction formulas for BW are based on prenatal ultrasound measurements carried out within one week prior to birth. Although successfully used in clinical practice, these formulas focus on point predictions of BW but do not systematically quantify uncertainty of the predictions, i.e. they result in estimates of the conditional mean of BW but do not deliver prediction intervals. To overcome this problem, we introduce conditionally linear transformation models (CLTMs) to predict BW. Instead of focusing only on the conditional mean, CLTMs model the whole conditional distribution function of BW given prenatal ultrasound parameters. Consequently, the CLTM approach delivers both point predictions of BW and fetus-specific prediction intervals. Prediction intervals constitute an easy-to-interpret measure of prediction accuracy and allow identification of fetuses subject to high prediction uncertainty. Using a data set of 8712 deliveries at the Perinatal Centre at the University Clinic Erlangen (Germany), we analyzed variants of CLTMs and compared them to standard linear regression estimation techniques used in the past and to quantile regression approaches. The best-performing CLTM variant was competitive with quantile regression and linear regression approaches in terms of conditional coverage and average length of the prediction intervals. We propose that CLTMs be used because they are able to account for possible heteroscedasticity, kurtosis, and skewness of the distribution of BWs. © The Author(s) 2014.

  16. Linear and nonlinear kinetic-stability studies in tokamaks

    International Nuclear Information System (INIS)

    Tang, W.M.; Chance, M.S.; Chen, L.; Krommes, J.A.; Lee, W.W.; Rewoldt, G.

    1982-09-01

    This paper presents results of theoretical investigations on important linear kinetic properties of low frequency instabilities in toroidal systems and on nonlinear processes which could significantly influence their impact on anomalous transport. Analytical and numerical methods and also particle simulations have been employed to carry out these studies. In particular, the following subjects are considered: (1) linear stability analysis of kinetic instabilities for realistic tokamak equilibria and the application of such calculations to the PDX and PLT tokamak experiments including the influence of a hot beam-ion component; (2) determination of nonlinearly saturated, statistically steady states of three interacting drift modes; and (3) gyrokinetic particle simulation of drift instabilities

  17. Neural Generalized Predictive Control of a non-linear Process

    DEFF Research Database (Denmark)

    Sørensen, Paul Haase; Nørgård, Peter Magnus; Ravn, Ole

    1998-01-01

    The use of neural network in non-linear control is made difficult by the fact the stability and robustness is not guaranteed and that the implementation in real time is non-trivial. In this paper we introduce a predictive controller based on a neural network model which has promising stability qu...... detail and discuss the implementation difficulties. The neural generalized predictive controller is tested on a pneumatic servo sys-tem.......The use of neural network in non-linear control is made difficult by the fact the stability and robustness is not guaranteed and that the implementation in real time is non-trivial. In this paper we introduce a predictive controller based on a neural network model which has promising stability...... qualities. The controller is a non-linear version of the well-known generalized predictive controller developed in linear control theory. It involves minimization of a cost function which in the present case has to be done numerically. Therefore, we develop the numerical algorithms necessary in substantial...

  18. Local gyrokinetic study of electrostatic microinstabilities in dipole plasmas

    Science.gov (United States)

    Xie, Hua-sheng; Zhang, Yi; Huang, Zi-cong; Ou, Wei-ke; Li, Bo

    2017-12-01

    A linear gyrokinetic particle-in-cell scheme, which is valid for an arbitrary perpendicular wavelength k⊥ρi and includes the parallel dynamic along the field line, is developed to study the local electrostatic drift modes in point and ring dipole plasmas. We find that the most unstable mode in this system can be either the electron mode or the ion mode. The properties and relations of these modes are studied in detail as a function of k⊥ρi , the density gradient κn, the temperature gradient κT, electron to ion temperature ratio τ=Te/Ti , and mass ratio mi/me . For conventional weak gradient parameters, the mode is on the ground state (with eigenstate number l = 0) and especially k∥˜0 for small k⊥ρi . Thus, the bounce averaged dispersion relation is also derived for comparison. For strong gradient and large k⊥ρi , most interestingly, higher order eigenstate modes with even (e.g., l = 2, 4) or odd (e.g., l = 1) parity can be most unstable, which is not expected in the previous studies. High order eigenstate can also easily be most unstable at weak gradient when τ>10 . This work can be particularly important to understand the turbulent transport in laboratory and space magnetosphere.

  19. Global gyrokinetic simulation of Tokamak edge pedestal instabilities.

    Science.gov (United States)

    Wan, Weigang; Parker, Scott E; Chen, Yang; Yan, Zheng; Groebner, Richard J; Snyder, Philip B

    2012-11-02

    Global electromagnetic gyrokinetic simulations show the existence of near threshold conditions for both a high-n kinetic ballooning mode (KBM) and an intermediate-n kinetic version of peeling-ballooning mode (KPBM) in the edge pedestal of two DIII-D H-mode discharges. When the magnetic shear is reduced in a narrow region of steep pressure gradient, the KPBM is significantly stabilized, while the KBM is weakly destabilized and hence becomes the most-unstable mode. Collisions decrease the KBM's critical β and increase the growth rate.

  20. Progress in gyrokinetic simulations of toroidal ITG turbulence

    International Nuclear Information System (INIS)

    Nevins, W.M.; Dimits, A.M.; Cohen, B.I.; Shumaker, D.E.

    2001-01-01

    The 3-D nonlinear toroidal gyrokinetic simulation code PG3EQ is used to study toroidal ion temperature gradient (ITG) driven turbulence - a key cause of the anomalous transport that limits tokamak plasma performance. Systematic studies of the dependence of ion thermal transport on various parameters and effects are presented, including dependence on E-vectorxB-vector and toroidal velocity shear, sensitivity to the force balance in simulations with radial temperature gradient variation, and the dependences on magnetic shear and ion temperature gradient. (author)

  1. Comparisons of theoretically predicted transport from ion temperature gradient instabilities to L-mode tokamak experiments

    International Nuclear Information System (INIS)

    Kotschenreuther, M.; Wong, H.V.; Lyster, P.L.; Berk, H.L.; Denton, R.; Miner, W.H.; Valanju, P.

    1991-12-01

    The theoretical transport from kinetic micro-instabilities driven by ion temperature gradients is a sheared slab is compared to experimentally inferred transport in L-mode tokamaks. Low noise gyrokinetic simulation techniques are used to obtain the ion thermal transport coefficient X. This X is much smaller than in experiments, and so cannot explain L-mode confinement. Previous predictions based on fluid models gave much greater X than experiments. Linear and nonlinear comparisons with the fluid model show that it greatly overestimates transport for experimental parameters. In addition, disagreements among previous analytic and simulation calculations of X in the fluid model are reconciled

  2. Nature of turbulent transport across sheared zonal flows: insights from gyrokinetic simulations

    International Nuclear Information System (INIS)

    Sanchez, R; Newman, D E; Leboeuf, J-N; Decyk, V K

    2011-01-01

    The traditional view regarding the reduction of turbulence-induced transport across a stable sheared flow invokes a reduction of the characteristic length scale in the direction perpendicular to the flow as a result of the shearing and stretching of eddies caused by the differential pull exerted in the direction of the flow. A reduced effective transport coefficient then suffices to capture the reduction, that can then be readily incorporated into a transport model. However, recent evidence from gyrokinetic simulations of the toroidal ion-temperature-gradient mode suggests that the dynamics of turbulent transport across sheared flows changes in a more fundamental manner, and that the use of reduced effective transport coefficients fails to capture the full dynamics that may exhibit both subdiffusion and non-Gaussian statistics. In this contribution, after briefly reviewing these results, we propose some candidates for the physical mechanisms responsible for endowing transport with such non-diffusive characteristics, backing these proposals with new numerical gyrokinetic data.

  3. Momentum transport in gyrokinetic turbulence

    Energy Technology Data Exchange (ETDEWEB)

    Buchholz, Rico

    2016-07-01

    In this thesis, the gyrokinetic-Vlasov code GKW is used to study turbulent transport, with a focus on radial transport of toroidal momentum. To support the studies on turbulent transport an eigenvalue solver has been implemented into GKW. This allows to find, not only the most unstable mode, but also subdominant modes. Furthermore it is possible to follow the modes in parameter scans. Furthermore, two fundamental mechanisms that can generate an intrinsic rotation have been investigated: profile shearing and the velocity nonlinearity. The study of toroidal momentum transport in a tokamak due to profile shearing reveals that the momentum flux can not be accurately described by the gradient in the turbulent intensity. Consequently, a description using the profile variation is used. A linear model has been developed that is able to reproduce the variations in the momentum flux as the profiles of density and temperature vary, reasonably well. It uses, not only the gradient length of density and temperature profile, but also their derivative, i.e. the second derivative of the logarithm of the temperature and the density profile. It is shown that both first as well as second derivatives contribute to the generation of a momentum flux. A difference between the linear and nonlinear simulations has been found with respect to the behaviour of the momentum flux. In linear simulations the momentum flux is independent of the normalized Larmor radius ρ{sub *}, whereas it is linear in ρ{sub *} for nonlinear simulations, provided ρ{sub *} is small enough (≤4.10{sup -3}). Nonlinear simulations reveal that the profile shearing can generate an intrinsic rotation comparable to that of current experiments. Under reactor conditions, however, the intrinsic rotation from the profile shearing is expected to be small due to the small normalized Larmor radius ρ{sub *}

  4. Astrophysical gyrokinetics: turbulence in pressure-anisotropic plasmas at ion scales and beyond

    Science.gov (United States)

    Kunz, M. W.; Abel, I. G.; Klein, K. G.

    2018-04-01

    We present a theoretical framework for describing electromagnetic kinetic turbulence in a multi-species, magnetized, pressure-anisotropic plasma. The turbulent fluctuations are assumed to be small compared to the mean field, to be spatially anisotropic with respect to it and to have frequencies small compared to the ion cyclotron frequency. At scales above the ion-Larmor radius, the theory reduces to the pressure-anisotropic generalization of kinetic reduced magnetohydrodynamics (KRMHD) formulated by Kunz et al. (J. Plasma Phys., vol. 81, 2015, 325810501). At scales at and below the ion-Larmor radius, three main objectives are achieved. First, we analyse the linear response of the pressure-anisotropic gyrokinetic system, and show it to be a generalization of previously explored limits. The effects of pressure anisotropy on the stability and collisionless damping of Alfvénic and compressive fluctuations are highlighted, with attention paid to the spectral location and width of the frequency jump that occurs as Alfvén waves transition into kinetic Alfvén waves. Secondly, we derive and discuss a very general gyrokinetic free-energy conservation law, which captures both the KRMHD free-energy conservation at long wavelengths and dual cascades of kinetic Alfvén waves and ion entropy at sub-ion-Larmor scales. We show that non-Maxwellian features in the distribution function change the amount of phase mixing and the efficiency of magnetic stresses, and thus influence the partitioning of free energy amongst the cascade channels. Thirdly, a simple model is used to show that pressure anisotropy, even within the bounds imposed on it by firehose and mirror instabilities, can cause order-of-magnitude variations in the ion-to-electron heating ratio due to the dissipation of Alfvénic turbulence. Our theory provides a foundation for determining how pressure anisotropy affects turbulent fluctuation spectra, the differential heating of particle species and the ratio of parallel

  5. Implementation of neural network based non-linear predictive

    DEFF Research Database (Denmark)

    Sørensen, Paul Haase; Nørgård, Peter Magnus; Ravn, Ole

    1998-01-01

    The paper describes a control method for non-linear systems based on generalized predictive control. Generalized predictive control (GPC) was developed to control linear systems including open loop unstable and non-minimum phase systems, but has also been proposed extended for the control of non......-linear systems. GPC is model-based and in this paper we propose the use of a neural network for the modeling of the system. Based on the neural network model a controller with extended control horizon is developed and the implementation issues are discussed, with particular emphasis on an efficient Quasi......-Newton optimization algorithm. The performance is demonstrated on a pneumatic servo system....

  6. Non-linear aeroelastic prediction for aircraft applications

    Science.gov (United States)

    de C. Henshaw, M. J.; Badcock, K. J.; Vio, G. A.; Allen, C. B.; Chamberlain, J.; Kaynes, I.; Dimitriadis, G.; Cooper, J. E.; Woodgate, M. A.; Rampurawala, A. M.; Jones, D.; Fenwick, C.; Gaitonde, A. L.; Taylor, N. V.; Amor, D. S.; Eccles, T. A.; Denley, C. J.

    2007-05-01

    Current industrial practice for the prediction and analysis of flutter relies heavily on linear methods and this has led to overly conservative design and envelope restrictions for aircraft. Although the methods have served the industry well, it is clear that for a number of reasons the inclusion of non-linearity in the mathematical and computational aeroelastic prediction tools is highly desirable. The increase in available and affordable computational resources, together with major advances in algorithms, mean that non-linear aeroelastic tools are now viable within the aircraft design and qualification environment. The Partnership for Unsteady Methods in Aerodynamics (PUMA) Defence and Aerospace Research Partnership (DARP) was sponsored in 2002 to conduct research into non-linear aeroelastic prediction methods and an academic, industry, and government consortium collaborated to address the following objectives: To develop useable methodologies to model and predict non-linear aeroelastic behaviour of complete aircraft. To evaluate the methodologies on real aircraft problems. To investigate the effect of non-linearities on aeroelastic behaviour and to determine which have the greatest effect on the flutter qualification process. These aims have been very effectively met during the course of the programme and the research outputs include: New methods available to industry for use in the flutter prediction process, together with the appropriate coaching of industry engineers. Interesting results in both linear and non-linear aeroelastics, with comprehensive comparison of methods and approaches for challenging problems. Additional embryonic techniques that, with further research, will further improve aeroelastics capability. This paper describes the methods that have been developed and how they are deployable within the industrial environment. We present a thorough review of the PUMA aeroelastics programme together with a comprehensive review of the relevant research

  7. Optimized Loading for Particle-in-cell Gyrokinetic Simulations

    International Nuclear Information System (INIS)

    Lewandowski, J.L.V.

    2004-01-01

    The problem of particle loading in particle-in-cell gyrokinetic simulations is addressed using a quadratic optimization algorithm. Optimized loading in configuration space dramatically reduces the short wavelength modes in the electrostatic potential that are partly responsible for the non-conservation of total energy; further, the long wavelength modes are resolved with good accuracy. As a result, the conservation of energy for the optimized loading is much better that the conservation of energy for the random loading. The method is valid for any geometry and can be coupled to optimization algorithms in velocity space

  8. Experimental and gyrokinetic investigation of core impurity transport in Alcator C-mod

    Science.gov (United States)

    Howard, N.; Greenwald, M.; Podpaly, Y.; Reinke, M. L.; Rice, J. E.; White, A. E.; Mikkelsen, D. R.; Puetterich, T.

    2010-11-01

    A new multiple pulse laser blow-off system coupled with an upgraded high resolution x-ray spectrometer with spatial resolution allow for the most detailed studies of impurity transport on Alcator C-mod to date. Trace impurity injections created by the laser blow-off technique were introduced into plasmas with a wide range of parameters and time evolving profiles of He-like calcium were measured. The unique measurement of a single charge state profile and line integrated emission measurements from spectroscopic diagnostics were compared with the simulated emission from the impurity transport code STRAHL. A nonlinear least squares fitting routine was coupled with STRAHL, allowing for core impurity transport coefficients with errors to be determined. With this method, experimental data from trace calcium injections were analyzed and radially dependent, core values (< r/a ˜.6) of the diffusive and convective components of the impurity flux were obtained. The STRAHL results are compared with linear and global, nonlinear simulations from the gyrokinetic code GYRO. Results of this comparison and an investigation of the underlying physics associated with turbulent impurity transport will be presented.

  9. Bringing global gyrokinetic turbulence simulations to the transport timescale using a multiscale approach

    Science.gov (United States)

    Parker, Jeffrey; Lodestro, Lynda; Told, Daniel; Merlo, Gabriele; Ricketson, Lee; Campos, Alejandro; Jenko, Frank; Hittinger, Jeffrey

    2017-10-01

    Predictive whole-device simulation models will play an increasingly important role in ensuring the success of fusion experiments and accelerating the development of fusion energy. In the core of tokamak plasmas, a separation of timescales between turbulence and transport makes a single direct simulation of both processes computationally expensive. We present the first demonstration of a multiple-timescale method coupling global gyrokinetic simulations with a transport solver to calculate the self-consistent, steady-state temperature profile. Initial results are highly encouraging, with the coupling method appearing robust to the difficult problem of turbulent fluctuations. The method holds potential for integrating first-principles turbulence simulations into whole-device models and advancing the understanding of global plasma behavior. Work supported by US DOE under Contract DE-AC52-07NA27344 and the Exascale Computing Project (17-SC-20-SC).

  10. Simulation of core turbulence measurement in Tore Supra ohmic regimes

    NARCIS (Netherlands)

    Hacquin, S.; Citrin, J.; Arnichand, H.; Sabot, R.; Bourdelle, C.; Garbet, X.; Kramer-Flecken, A.; Tore Supra team,

    2016-01-01

    This paper reports on a simulation of reflectometry measurement in Tore Supra ohmic discharges, for which the experimental observations as well as gyrokinetic non-linear computations predict a modification of turbulence spectrum between the linear (LOC) and the saturated ohmic confinement (SOC)

  11. A gyrokinetic calculation of transmission and reflection of the fast wave in the ion cyclotron range of frequencies

    International Nuclear Information System (INIS)

    Lashmore-Davies, C.N.; Fuchs, V.; Dendy, R.O.

    1993-01-01

    A full-wave equation has been obtained from the gyrokinetic theory for the fast wave traversing a minority cyclotron resonance [Phys. Fluids B 4, 493 (1992)] with the aid of the fast wave approximation [Phys. Fluids 31, 1614 (1988)]. This theory describes the transmission, reflection, and absorption of the fast wave for arbitrary values of the parallel wave number. For oblique propagation the absorption is due to both ion cyclotron damping by minority ions and mode conversion to the ion Bernstein wave. The results for a 3 He minority in a D plasma indicate that for perpendicular propagation and minority temperatures of a few keV the power lost by the fast wave is all mode converted whereas for minority temperatures ∼100 keV∼30% of the incident power is dissipated by the minority ions due to the gyrokinetic correction. The gyrokinetic correction also results in a significant reduction in the reflection coefficient for low field side incidence when k zLB approx-lt 1 and the minority and hybrid resonances overlap

  12. Performance evaluations of advanced massively parallel platforms based on gyrokinetic toroidal five-dimensional Eulerian code GT5D

    International Nuclear Information System (INIS)

    Idomura, Yasuhiro; Jolliet, Sebastien

    2010-01-01

    A gyrokinetic toroidal five dimensional Eulerian code GT5D is ported on six advanced massively parallel platforms and comprehensive benchmark tests are performed. A parallelisation technique based on physical properties of the gyrokinetic equation is presented. By extending the parallelisation technique with a hybrid parallel model, the scalability of the code is improved on platforms with multi-core processors. In the benchmark tests, a good salability is confirmed up to several thousands cores on every platforms, and the maximum sustained performance of ∼18.6 Tflops is achieved using 16384 cores of BX900. (author)

  13. Comment on 'On higher order corrections to gyrokinetic Vlasov-Poisson equations in the long wavelength limit' [Phys. Plasmas 16, 044506 (2009)

    International Nuclear Information System (INIS)

    Parra, Felix I.; Catto, Peter J.

    2009-01-01

    A recent publication [F. I. Parra and P. J. Catto, Plasma Phys. Controlled Fusion 50, 065014 (2008)] warned against the use of the lower order gyrokinetic Poisson equation at long wavelengths because the long wavelength, radial electric field must remain undetermined to the order the equation is obtained. Another reference [W. W. Lee and R. A. Kolesnikov, Phys. Plasmas 16, 044506 (2009)] criticizes these results by arguing that the higher order terms neglected in the most common gyrokinetic Poisson equation are formally smaller than the terms that are retained. This argument is flawed and ignores that the lower order terms, although formally larger, must cancel without determining the long wavelength, radial electric field. The reason for this cancellation is discussed. In addition, the origin of a nonlinear term present in the gyrokinetic Poisson equation [F. I. Parra and P. J. Catto, Plasma Phys. Controlled Fusion 50, 065014 (2008)] is explained.

  14. Implementation of neural network based non-linear predictive control

    DEFF Research Database (Denmark)

    Sørensen, Paul Haase; Nørgård, Peter Magnus; Ravn, Ole

    1999-01-01

    This paper describes a control method for non-linear systems based on generalized predictive control. Generalized predictive control (GPC) was developed to control linear systems, including open-loop unstable and non-minimum phase systems, but has also been proposed to be extended for the control...... of non-linear systems. GPC is model based and in this paper we propose the use of a neural network for the modeling of the system. Based on the neural network model, a controller with extended control horizon is developed and the implementation issues are discussed, with particular emphasis...... on an efficient quasi-Newton algorithm. The performance is demonstrated on a pneumatic servo system....

  15. Detailed study of spontaneous rotation generation in diverted H-mode plasma using the full-f gyrokinetic code XGC1

    Science.gov (United States)

    Seo, Janghoon; Chang, C. S.; Ku, S.; Kwon, J. M.; Yoon, E. S.

    2013-10-01

    The Full-f gyrokinetic code XGC1 is used to study the details of toroidal momentum generation in H-mode plasma. Diverted DIII-D geometry is used, with Monte Carlo neutral particles that are recycled at the limiter wall. Nonlinear Coulomb collisions conserve particle, momentum, and energy. Gyrokinetic ions and adiabatic electrons are used in the present simulation to include the effects from ion gyrokinetic turbulence and neoclassical physics, under self-consistent radial electric field generation. Ion orbit loss physics is automatically included. Simulations show a strong co-Ip flow in the H-mode layer at outside midplane, similarly to the experimental observation from DIII-D and ASDEX-U. The co-Ip flow in the edge propagates inward into core. It is found that the strong co-Ip flow generation is mostly from neoclassical physics. On the other hand, the inward momentum transport is from turbulence physics, consistently with the theory of residual stress from symmetry breaking. Therefore, interaction between the neoclassical and turbulence physics is a key factor in the spontaneous momentum generation.

  16. Linear regression crash prediction models : issues and proposed solutions.

    Science.gov (United States)

    2010-05-01

    The paper develops a linear regression model approach that can be applied to : crash data to predict vehicle crashes. The proposed approach involves novice data aggregation : to satisfy linear regression assumptions; namely error structure normality ...

  17. Nonlinear gyrokinetic simulations of the I-mode high confinement regime and comparisons with experiment

    Energy Technology Data Exchange (ETDEWEB)

    White, A. E., E-mail: whitea@mit.edu; Howard, N. T.; Creely, A. J.; Chilenski, M. A.; Greenwald, M.; Hubbard, A. E.; Hughes, J. W.; Marmar, E.; Rice, J. E.; Sierchio, J. M.; Sung, C.; Walk, J. R.; Whyte, D. G. [MIT Plasma Science and Fusion Center, Cambridge, Massachusetts 02139 (United States); Mikkelsen, D. R.; Edlund, E. M.; Kung, C. [Princeton Plasma Physics Laboratory, Princeton, New Jersey 08540 (United States); Holland, C. [University of California, San Diego (UCSD) San Diego, California 92093 (United States); Candy, J.; Petty, C. C. [General Atomics, P.O. Box 85608, San Diego, California 92186 (United States); Reinke, M. L. [York University, Heslington, York YO10 5DD (United Kingdom); and others

    2015-05-15

    For the first time, nonlinear gyrokinetic simulations of I-mode plasmas are performed and compared with experiment. I-mode is a high confinement regime, featuring energy confinement similar to H-mode, but without enhanced particle and impurity particle confinement [D. G. Whyte et al., Nucl. Fusion 50, 105005 (2010)]. As a consequence of the separation between heat and particle transport, I-mode exhibits several favorable characteristics compared to H-mode. The nonlinear gyrokinetic code GYRO [J. Candy and R. E. Waltz, J Comput. Phys. 186, 545 (2003)] is used to explore the effects of E × B shear and profile stiffness in I-mode and compare with L-mode. The nonlinear GYRO simulations show that I-mode core ion temperature and electron temperature profiles are more stiff than L-mode core plasmas. Scans of the input E × B shear in GYRO simulations show that E × B shearing of turbulence is a stronger effect in the core of I-mode than L-mode. The nonlinear simulations match the observed reductions in long wavelength density fluctuation levels across the L-I transition but underestimate the reduction of long wavelength electron temperature fluctuation levels. The comparisons between experiment and gyrokinetic simulations for I-mode suggest that increased E × B shearing of turbulence combined with increased profile stiffness are responsible for the reductions in core turbulence observed in the experiment, and that I-mode resembles H-mode plasmas more than L-mode plasmas with regards to marginal stability and temperature profile stiffness.

  18. Mechanisms for ITB formation and control in Alcator C-Mod identified through gyrokinetic simulations of TEM turbulence

    International Nuclear Information System (INIS)

    Ernst, D.R.; Basse, N.; Bonoli, P.T.; Catto, P.J.; Fiore, C.L.; Greenwald, M.; Hubbard, A.E.; Marmar, E.S.; Porkolab, M.; Rice, J.E.; Zeller, K.; Zhurovich, K.; Dorland, W.

    2005-01-01

    Internal particle and thermal energy transport barriers are produced in Alcator C-Mod with off-axis ICRF heating, with core densities exceeding 10 21 m -3 , without core fueling, and with little change in the temperature profile. Applying on-axis ICRF heating controls the core density gradient and rate of rise. The present study employs linear and nonlinear gyrokinetic simulations of trapped electron mode (TEM) turbulence to explore mechanisms for ITB formation and control in Alcator C-Mod ITB experiments. Anomalous pinches are found to be negligible in our simulations; further, the collisional Ware pinch is sufficient to account for the slow density rise, lasting many energy confinement times. The simulations have revealed new nonlinear physics of TEM turbulence. The critical density gradient for onset of TEM turbulent transport is nonlinearly up-shifted by zonal flows. As the density profile peaks, during ITB formation, this nonlinear critical gradient is eventually exceeded, and the turbulent particle diffusivity from GS2 gyrokinetic simulations matches the particle diffusivity from transport analysis, within experimental errors. A stable equilibrium is then established when the TEM turbulent diffusion balances the Ware pinch in the ITB. This equilibrium is sensitive to temperature through gyroBohm scaling of the TEM turbulent transport, and the collisionality dependence of the neoclassical pinch, providing for control of the density rate of rise with on-axis RF heating. With no core particle fueling, and ∼1 mm between density spatial channels, the C-Mod experiments provide a nearly ideal test bed for particle transport studies. The pure TEM is the only unstable drift mode in the ITB, producing particle transport driven by the density gradient. (author)

  19. Renormalized perturbation theory: Vlasov-Poisson System, weak turbulence limit and gyrokinetics

    International Nuclear Information System (INIS)

    Zhang, Y.Z.; Mahajan, S.M.

    1987-10-01

    The Self-consistency of the renormalized perturbation theory is demonstrated by applying it to the Vlasov-Poisson System and showing that the theory has the correct weak turbulence limit. Energy conservation is proved to arbitrary high order for the electrostatic drift waves. The theory is applied to derive renormalized equations for a low-β gyrokinetic system. Comparison of our theory with other current theories is presented. 22 refs

  20. Resolving the mystery of transport within internal transport barriers

    Energy Technology Data Exchange (ETDEWEB)

    Staebler, G. M.; Belli, E. A.; Candy, J.; Waltz, R. E.; Greenfield, C. M.; Lao, L. L.; Smith, S. P. [General Atomics, P.O. Box 85608, San Diego, California 92186-5608 (United States); Kinsey, J. E. [CompX, P.O. Box 2672, Del Mar, California 92014-5672 (United States); Grierson, B. A. [Princeton Plasma Physics Laboratory, P.O. Box 451, Princeton, New Jersey 08543-0451 (United States); Chrystal, C. [University of California-San Diego, 9500 Gilman Dr., La Jolla, California 92093-0417 (United States)

    2014-05-15

    The Trapped Gyro-Landau Fluid (TGLF) quasi-linear model [G. M. Staebler, et al., Phys. Plasmas 12, 102508 (2005)], which is calibrated to nonlinear gyrokinetic turbulence simulations, is now able to predict the electron density, electron and ion temperatures, and ion toroidal rotation simultaneously for internal transport barrier (ITB) discharges. This is a strong validation of gyrokinetic theory of ITBs, requiring multiple instabilities responsible for transport in different channels at different scales. The mystery of transport inside the ITB is that momentum and particle transport is far above the predicted neoclassical levels in apparent contradiction with the expectation from the theory of suppression of turbulence by E×B velocity shear. The success of TGLF in predicting ITB transport is due to the inclusion of ion gyro-radius scale modes that become dominant at high E×B velocity shear and to improvements to TGLF that allow momentum transport from gyrokinetic turbulence to be faithfully modeled.

  1. Particle-in-cell simulations of electron transport from plasma turbulence: recent progress in gyrokinetic particle simulations of turbulent plasmas

    International Nuclear Information System (INIS)

    Lin, Z; Rewoldt, G; Ethier, S; Hahm, T S; Lee, W W; Lewandowski, J L V; Nishimura, Y; Wang, W X

    2005-01-01

    Recent progress in gyrokinetic particle-in-cell simulations of turbulent plasmas using the gyrokinetic toroidal code (GTC) is surveyed. In particular, recent results for electron temperature gradient (ETG) modes and their resulting transport are presented. Also, turbulence spreading, and the effects of the parallel nonlinearity, are described. The GTC code has also been generalized for non-circular plasma cross-section, and initial results are presented. In addition, two distinct methods of generalizing the GTC code to be electromagnetic are described, along with preliminary results. Finally, a related code, GTC-Neo, for calculating neoclassical fluxes, electric fields, and velocities, are described

  2. Light impurity transport in JET ILW L-mode plasmas

    Science.gov (United States)

    Bonanomi, N.; Mantica, P.; Giroud, C.; Angioni, C.; Manas, P.; Menmuir, S.; Contributors, JET

    2018-03-01

    A series of experimental observations of light impurity profiles was carried out in JET (Joint European Torus) ITER-like wall (ILW) L-mode plasmas in order to investigate their transport mechanisms. These discharges feature the presence of 3He, Be, C, N, Ne, whose profiles measured by active Charge Exchange diagnostics are compared with quasi-linear and non-linear gyro-kinetic simulations. The peaking of 3He density follows the electron density peaking, Be and Ne are also peaked, while the density profiles of C and N are flat in the mid plasma region. Gyro-kinetic simulations predict peaked density profiles for all the light impurities studied and at all the radial positions considered, and fail predicting the flat or hollow profiles observed for C and N at mid radius in our cases.

  3. Advances in continuum kinetic and gyrokinetic simulations of turbulence on open-field line geometries

    Science.gov (United States)

    Hakim, Ammar; Shi, Eric; Juno, James; Bernard, Tess; Hammett, Greg

    2017-10-01

    For weakly collisional (or collisionless) plasmas, kinetic effects are required to capture the physics of micro-turbulence. We have implemented solvers for kinetic and gyrokinetic equations in the computational plasma physics framework, Gkeyll. We use a version of discontinuous Galerkin scheme that conserves energy exactly. Plasma sheaths are modeled with novel boundary conditions. Positivity of distribution functions is maintained via a reconstruction method, allowing robust simulations that continue to conserve energy even with positivity limiters. We have performed a large number of benchmarks, verifying the accuracy and robustness of our code. We demonstrate the application of our algorithm to two classes of problems (a) Vlasov-Maxwell simulations of turbulence in a magnetized plasma, applicable to space plasmas; (b) Gyrokinetic simulations of turbulence in open-field-line geometries, applicable to laboratory plasmas. Supported by the Max-Planck/Princeton Center for Plasma Physics, the SciDAC Center for the Study of Plasma Microturbulence, and DOE Contract DE-AC02-09CH11466.

  4. Gyrokinetic theory of perpendicular cyclotron resonance in a nonuniformly magnetized plasma

    International Nuclear Information System (INIS)

    Lashmore-Davies, C.N.; Dendy, R.O.

    1989-01-01

    The extension of gyrokinetic theory to arbitrary frequencies by Chen and Tsai [Phys. Fluids 26, 141 (1983); Plasma Phys. 25, 349 (1983)] is used to study cyclotron absorption in a straight magnetic field with a perpendicular, linear gradient in strength. The analysis includes the effects of magnetic field variation across the Larmor orbit and is restricted to propagation perpendicular to the field. It yields the following results for propagation into the field gradient. The standard optical depths for the fundamental O-mode and second harmonic X-mode resonances are obtained from the absorption profiles given in this paper, without invoking relativistic mass variation [see also Antonsen and Manheimer, Phys. Fluids 21, 2295 (1978)]. The compressional Alfven wave is shown to undergo perpendicular cyclotron damping at the fundamental minority resonance in a two-ion species plasma and at second harmonic resonance in a single-ion species plasma. Ion Bernstein waves propagating into the second harmonic resonance are no longer unattenuated, but are increasingly damped as they approach the resonance. It is shown how the kinetic power flow affects absorption profiles, yielding information previously obtainable only from full-wave theory. In all cases, the perpendicular cyclotron damping arises from the inclusion of magnetic field variation across the Larmor orbit

  5. Gyrokinetic particle-in-cell global simulations of ion-temperature-gradient and collisionless-trapped-electron-mode turbulence in tokamaks

    International Nuclear Information System (INIS)

    Jolliet, S.

    2009-02-01

    The goal of thermonuclear fusion research is to provide power plants, that will be able to produce one gigawatt of electricity. Among the different ways to achieve fusion, the tokamak, based on magnetic confinement, is the most promising one. A gas is heated up to hundreds of millions of degrees and becomes a plasma, which is maintained - or confined - in a toroidal vessel by helical magnetic field lines. Then, deuterium and tritium are injected and fuse to create an α particle and an energetic neutron. In order to have a favorable power balance, the power produced by fusion reactions must exceed the power needed to heat the plasma and the power losses. This can be cast in a very simple expression which stipulates that the product of the density, the temperature and the energy confinement time must exceed some given value. Unfortunately, present-days tokamaks are not able to reach this condition, mostly due to plasma turbulence. The latter phenomenon enhances the heat losses and degrades the energy confinement time, which cannot be predicted by analytical theories such as the so-called neoclassical theory in which the heat losses are caused by Coulomb collisions. Therefore, numerical simulations are being developed to model plasma turbulence, mainly caused by the Ion and Electron Temperature-Gradient and the Trapped-Electron-Mode (TEM) instabilities. The plasma is described by a distribution function which evolves according to the Vlasov equation. The electromagnetic fields created by the particles are self-consistently obtained through Maxwell’s equations. The resulting Vlasov-Maxwell system is greatly simplified by using the gyrokinetic theory, which consists, through an appropriate ordering, of eliminating the fast gyromotion (compared to the typical frequency of instabilities). Nevertheless, it is still extremely difficult to solve this system numerically due to the large range of time and spatial scales to be resolved. In this thesis, the Vlasov

  6. Fast Algorithms for High-Order Sparse Linear Prediction with Applications to Speech Processing

    DEFF Research Database (Denmark)

    Jensen, Tobias Lindstrøm; Giacobello, Daniele; van Waterschoot, Toon

    2016-01-01

    In speech processing applications, imposing sparsity constraints on high-order linear prediction coefficients and prediction residuals has proven successful in overcoming some of the limitation of conventional linear predictive modeling. However, this modeling scheme, named sparse linear prediction...... problem with lower accuracy than in previous work. In the experimental analysis, we clearly show that a solution with lower accuracy can achieve approximately the same performance as a high accuracy solution both objectively, in terms of prediction gain, as well as with perceptual relevant measures, when...... evaluated in a speech reconstruction application....

  7. Machine learning-based methods for prediction of linear B-cell epitopes.

    Science.gov (United States)

    Wang, Hsin-Wei; Pai, Tun-Wen

    2014-01-01

    B-cell epitope prediction facilitates immunologists in designing peptide-based vaccine, diagnostic test, disease prevention, treatment, and antibody production. In comparison with T-cell epitope prediction, the performance of variable length B-cell epitope prediction is still yet to be satisfied. Fortunately, due to increasingly available verified epitope databases, bioinformaticians could adopt machine learning-based algorithms on all curated data to design an improved prediction tool for biomedical researchers. Here, we have reviewed related epitope prediction papers, especially those for linear B-cell epitope prediction. It should be noticed that a combination of selected propensity scales and statistics of epitope residues with machine learning-based tools formulated a general way for constructing linear B-cell epitope prediction systems. It is also observed from most of the comparison results that the kernel method of support vector machine (SVM) classifier outperformed other machine learning-based approaches. Hence, in this chapter, except reviewing recently published papers, we have introduced the fundamentals of B-cell epitope and SVM techniques. In addition, an example of linear B-cell prediction system based on physicochemical features and amino acid combinations is illustrated in details.

  8. Gyrokinetic analyses of core heat transport in JT-60U plasmas with different toroidal rotation direction

    International Nuclear Information System (INIS)

    Narita, Emi; Fukuda, Takeshi; Honda, Mitsuru; Hayashi, Nobuhiko; Urano, Hajime; Ide, Shunsuke

    2015-01-01

    Tokamak plasmas with an internal transport barrier (ITB) are capable of maintaining improved confinement performance. The ITBs formed in plasmas with the weak magnetic shear and the weak radial electric field shear are often observed to be modest. In these ITB plasmas, it has been found that the electron temperature ITB is steeper when toroidal rotation is in a co-direction with respect to the plasma current than when toroidal rotation is in a counter-direction. To clarify the relationship between the direction of toroidal rotation and heat transport in the ITB region, we examine dominant instabilities using the flux-tube gyrokinetic code GS2. The linear calculations show a difference in the real frequencies; the counter-rotation case has a more trapped electron mode than the co-rotation case. In addition, the nonlinear calculations show that with this difference, the ratio of the electron heat diffusivity χ_e to the ion's χ_i is higher for the counter-rotation case than for the co-rotation case. The difference in χ_e /χ_i agrees with the experiment. We also find that the effect of the difference in the flow shear between the two cases due to the toroidal rotation direction on the linear growth rate is not significant. (author)

  9. Validation of Individual Non-Linear Predictive Pharmacokinetic ...

    African Journals Online (AJOL)

    3Department of Veterinary Medicine, Faculty of Agriculture, University of Novi Sad, Novi Sad, Republic of Serbia ... Purpose: To evaluate the predictive performance of phenytoin multiple dosing non-linear pharmacokinetic ... status epilepticus affects an estimated 152,000 ..... causal factors, i.e., infection, inflammation, tissue.

  10. Linear Prediction Using Refined Autocorrelation Function

    Directory of Open Access Journals (Sweden)

    M. Shahidur Rahman

    2007-07-01

    Full Text Available This paper proposes a new technique for improving the performance of linear prediction analysis by utilizing a refined version of the autocorrelation function. Problems in analyzing voiced speech using linear prediction occur often due to the harmonic structure of the excitation source, which causes the autocorrelation function to be an aliased version of that of the vocal tract impulse response. To estimate the vocal tract characteristics accurately, however, the effect of aliasing must be eliminated. In this paper, we employ homomorphic deconvolution technique in the autocorrelation domain to eliminate the aliasing effect occurred due to periodicity. The resulted autocorrelation function of the vocal tract impulse response is found to produce significant improvement in estimating formant frequencies. The accuracy of formant estimation is verified on synthetic vowels for a wide range of pitch frequencies typical for male and female speakers. The validity of the proposed method is also illustrated by inspecting the spectral envelopes of natural speech spoken by high-pitched female speaker. The synthesis filter obtained by the current method is guaranteed to be stable, which makes the method superior to many of its alternatives.

  11. Genomic prediction based on data from three layer lines: a comparison between linear methods

    NARCIS (Netherlands)

    Calus, M.P.L.; Huang, H.; Vereijken, J.; Visscher, J.; Napel, ten J.; Windig, J.J.

    2014-01-01

    Background The prediction accuracy of several linear genomic prediction models, which have previously been used for within-line genomic prediction, was evaluated for multi-line genomic prediction. Methods Compared to a conventional BLUP (best linear unbiased prediction) model using pedigree data, we

  12. Genomic prediction based on data from three layer lines using non-linear regression models.

    Science.gov (United States)

    Huang, Heyun; Windig, Jack J; Vereijken, Addie; Calus, Mario P L

    2014-11-06

    Most studies on genomic prediction with reference populations that include multiple lines or breeds have used linear models. Data heterogeneity due to using multiple populations may conflict with model assumptions used in linear regression methods. In an attempt to alleviate potential discrepancies between assumptions of linear models and multi-population data, two types of alternative models were used: (1) a multi-trait genomic best linear unbiased prediction (GBLUP) model that modelled trait by line combinations as separate but correlated traits and (2) non-linear models based on kernel learning. These models were compared to conventional linear models for genomic prediction for two lines of brown layer hens (B1 and B2) and one line of white hens (W1). The three lines each had 1004 to 1023 training and 238 to 240 validation animals. Prediction accuracy was evaluated by estimating the correlation between observed phenotypes and predicted breeding values. When the training dataset included only data from the evaluated line, non-linear models yielded at best a similar accuracy as linear models. In some cases, when adding a distantly related line, the linear models showed a slight decrease in performance, while non-linear models generally showed no change in accuracy. When only information from a closely related line was used for training, linear models and non-linear radial basis function (RBF) kernel models performed similarly. The multi-trait GBLUP model took advantage of the estimated genetic correlations between the lines. Combining linear and non-linear models improved the accuracy of multi-line genomic prediction. Linear models and non-linear RBF models performed very similarly for genomic prediction, despite the expectation that non-linear models could deal better with the heterogeneous multi-population data. This heterogeneity of the data can be overcome by modelling trait by line combinations as separate but correlated traits, which avoids the occasional

  13. Visual interrogation of gyrokinetic particle simulations

    International Nuclear Information System (INIS)

    Jones, Chad; Ma, K-L; Sanderson, Allen; Myers, Lee Roy Jr

    2007-01-01

    Gyrokinetic particle simulations are critical to the study of anomalous energy transport associated with plasma microturbulence in magnetic confinement fusion experiments. The simulations are conducted on massively parallel computers and produce large quantities of particles, variables, and time steps, thus presenting a formidable challenge to data analysis tasks. We present two new visualization techniques for scientists to improve their understanding of the time-varying, multivariate particle data. One technique allows scientists to examine correlations in multivariate particle data with tightly coupled views of the data in both physical space and variable space, and to visually identify and track features of interest. The second technique, built into SCIRun, allows scientists to perform range-based queries over a series of time slices and visualize the resulting particles using glyphs. The ability to navigate the multiple dimensions of the particle data, as well as query individual or a collection of particles, enables scientists to not only validate their simulations but also discover new phenomena in their data

  14. Introduction to Gyrokinetic Theory with Applications in Magnetic Confinement Research in Plasma Physics

    International Nuclear Information System (INIS)

    Tang, W.M.

    2005-01-01

    The present lecture provides an introduction to the subject of gyrokinetic theory with applications in the area of magnetic confinement research in plasma physics--the research arena from which this formalism was originally developed. It was presented as a component of the ''Short Course in Kinetic Theory within the Thematic Program in Partial Differential Equations'' held at the Fields Institute for Research in Mathematical Science (24 March 2004). This lecture also discusses the connection between the gyrokinetic formalism and powerful modern numerical simulations. Indeed, simulation, which provides a natural bridge between theory and experiment, is an essential modern tool for understanding complex plasma behavior. Progress has been stimulated in particular by the exponential growth of computer speed along with significant improvements in computer technology. The advances in both particle and fluid simulations of fine-scale turbulence and large-scale dynamics have produced increasingly good agreement between experimental observations and computational modeling. This was enabled by two key factors: (i) innovative advances in analytic and computational methods for developing reduced descriptions of physics phenomena spanning widely disparate temporal and spatial scales and (ii) access to powerful new computational resources

  15. Biochemical methane potential prediction of plant biomasses: Comparing chemical composition versus near infrared methods and linear versus non-linear models.

    Science.gov (United States)

    Godin, Bruno; Mayer, Frédéric; Agneessens, Richard; Gerin, Patrick; Dardenne, Pierre; Delfosse, Philippe; Delcarte, Jérôme

    2015-01-01

    The reliability of different models to predict the biochemical methane potential (BMP) of various plant biomasses using a multispecies dataset was compared. The most reliable prediction models of the BMP were those based on the near infrared (NIR) spectrum compared to those based on the chemical composition. The NIR predictions of local (specific regression and non-linear) models were able to estimate quantitatively, rapidly, cheaply and easily the BMP. Such a model could be further used for biomethanation plant management and optimization. The predictions of non-linear models were more reliable compared to those of linear models. The presentation form (green-dried, silage-dried and silage-wet form) of biomasses to the NIR spectrometer did not influence the performances of the NIR prediction models. The accuracy of the BMP method should be improved to enhance further the BMP prediction models. Copyright © 2014 Elsevier Ltd. All rights reserved.

  16. Gyrokinetic full f analysis of electric field dynamics and poloidal velocity in the FT2-tokamak configuration

    International Nuclear Information System (INIS)

    Leerink, S.; Heikkinen, J. A.; Janhunen, S. J.; Kiviniemi, T. P.; Nora, M.; Ogando, F.

    2008-01-01

    The ELMFIRE gyrokinetic simulation code has been used to perform full f simulations of the FT-2 tokamak. The dynamics of the radial electric field and the creation of poloidal velocity in the presence of turbulence are presented.

  17. Comparison between measured and predicted turbulence frequency spectra in ITG and TEM regimes

    Science.gov (United States)

    Citrin, J.; Arnichand, H.; Bernardo, J.; Bourdelle, C.; Garbet, X.; Jenko, F.; Hacquin, S.; Pueschel, M. J.; Sabot, R.

    2017-06-01

    The observation of distinct peaks in tokamak core reflectometry measurements—named quasi-coherent-modes (QCMs)—are identified as a signature of trapped-electron-mode (TEM) turbulence (Arnichand et al 2016 Plasma Phys. Control. Fusion 58 014037). This phenomenon is investigated with detailed linear and nonlinear gyrokinetic simulations using the Gene code. A Tore-Supra density scan is studied, which traverses through a linear (LOC) to saturated (SOC) ohmic confinement transition. The LOC and SOC phases are both simulated separately. In the LOC phase, where QCMs are observed, TEMs are robustly predicted unstable in linear studies. In the later SOC phase, where QCMs are no longer observed, ion-temperature-gradient (ITG) modes are identified. In nonlinear simulations, in the ITG (SOC) phase, a broadband spectrum is seen. In the TEM (LOC) phase, a clear emergence of a peak at the TEM frequencies is seen. This is due to reduced nonlinear frequency broadening of the underlying linear modes in the TEM regime compared with the ITG regime. A synthetic diagnostic of the nonlinearly simulated frequency spectra reproduces the features observed in the reflectometry measurements. These results support the identification of core QCMs as an experimental marker for TEM turbulence.

  18. Local and global eulerian gyrokinetic simulations of microturbulence in realistic geometry with applications to the TCV Tokamak

    International Nuclear Information System (INIS)

    Lapillonne, X.

    2010-04-01

    this work also focused on the description of the magnetic equilibrium. A circular concentric flux surface model as well as an interface with an MHD equilibrium code were implemented. A detailed investigation concerning the s -- α model, previously used in local codes, was also carried out. It was shown that inconsistencies in this model had resulted in misinterpreted agreement between local and global results at large ρ * = ρ s /a values, with ρ s the Larmor radius and a the minor radius of the Tokamak. True convergence between local and global simulations was finally obtained by correct treatment of the geometry in both cases and considering the appropriate ρ * → 0 limit in the latter case. The new global code was furthermore successfully tested and benchmarked against various other codes in the adiabatic electron limit in both the linear and nonlinear regime. A nonlinear ρ * scan was in addition carried out showing convergence to the local results in the limit ρ * → 0 and also providing further insight on previous disagreements between two other global gyrokinetic codes concerning ρ * convergence. Linear global simulations with kinetic electrons have shown consistent behavior with respect to local results. Using the interface with the MHD equilibrium code, the effects of plasma shaping on Ion Temperature Gradient (ITG) instabilities were investigated by means of local simulations. A favorable influence of elongation and negative triangularity was observed. It was shown that these effects could be mostly accounted for by the modifications of the effective flux-surface averaged temperature gradient. Most importantly, a unique effective nonlinear critical temperature gradient could be determined for the different considered elongations and triangularities. The local code was finally used to investigate particle and energy transport in the case of TCV discharges presenting an electron Internal Transport Barrier (eITB). It was shown that at the transition

  19. Large-scale linear programs in planning and prediction.

    Science.gov (United States)

    2017-06-01

    Large-scale linear programs are at the core of many traffic-related optimization problems in both planning and prediction. Moreover, many of these involve significant uncertainty, and hence are modeled using either chance constraints, or robust optim...

  20. Theoretical and Numerical Properties of a Gyrokinetic Plasma: Issues Related to Transport Time Scale Simulation

    International Nuclear Information System (INIS)

    Lee, W.W.

    2003-01-01

    Particle simulation has played an important role for the recent investigations on turbulence in magnetically confined plasmas. In this paper, theoretical and numerical properties of a gyrokinetic plasma as well as its relationship with magnetohydrodynamics (MHD) are discussed with the ultimate aim of simulating microturbulence in transport time scale using massively parallel computers

  1. Turbulence Spreading into Linearly Stable Zone and Transport Scaling

    International Nuclear Information System (INIS)

    Hahm, T.S.; Diamond, P.H.; Lin, Z.; Itoh, K.; Itoh, S.-I.

    2003-01-01

    We study the simplest problem of turbulence spreading corresponding to the spatio-temporal propagation of a patch of turbulence from a region where it is locally excited to a region of weaker excitation, or even local damping. A single model equation for the local turbulence intensity I(x, t) includes the effects of local linear growth and damping, spatially local nonlinear coupling to dissipation and spatial scattering of turbulence energy induced by nonlinear coupling. In the absence of dissipation, the front propagation into the linearly stable zone occurs with the property of rapid progression at small t, followed by slower subdiffusive progression at late times. The turbulence radial spreading into the linearly stable zone reduces the turbulent intensity in the linearly unstable zone, and introduces an additional dependence on the rho* is always equal to rho i/a to the turbulent intensity and the transport scaling. These are in broad, semi-quantitative agreements with a number of global gyrokinetic simulation results with zonal flows and without zonal flows. The front propagation stops when the radial flux of fluctuation energy from the linearly unstable region is balanced by local dissipation in the linearly stable region

  2. Who Will Win?: Predicting the Presidential Election Using Linear Regression

    Science.gov (United States)

    Lamb, John H.

    2007-01-01

    This article outlines a linear regression activity that engages learners, uses technology, and fosters cooperation. Students generated least-squares linear regression equations using TI-83 Plus[TM] graphing calculators, Microsoft[C] Excel, and paper-and-pencil calculations using derived normal equations to predict the 2004 presidential election.…

  3. Linear and nonlinear dynamic systems in financial time series prediction

    Directory of Open Access Journals (Sweden)

    Salim Lahmiri

    2012-10-01

    Full Text Available Autoregressive moving average (ARMA process and dynamic neural networks namely the nonlinear autoregressive moving average with exogenous inputs (NARX are compared by evaluating their ability to predict financial time series; for instance the S&P500 returns. Two classes of ARMA are considered. The first one is the standard ARMA model which is a linear static system. The second one uses Kalman filter (KF to estimate and predict ARMA coefficients. This model is a linear dynamic system. The forecasting ability of each system is evaluated by means of mean absolute error (MAE and mean absolute deviation (MAD statistics. Simulation results indicate that the ARMA-KF system performs better than the standard ARMA alone. Thus, introducing dynamics into the ARMA process improves the forecasting accuracy. In addition, the ARMA-KF outperformed the NARX. This result may suggest that the linear component found in the S&P500 return series is more dominant than the nonlinear part. In sum, we conclude that introducing dynamics into the ARMA process provides an effective system for S&P500 time series prediction.

  4. Convergence Guaranteed Nonlinear Constraint Model Predictive Control via I/O Linearization

    Directory of Open Access Journals (Sweden)

    Xiaobing Kong

    2013-01-01

    Full Text Available Constituting reliable optimal solution is a key issue for the nonlinear constrained model predictive control. Input-output feedback linearization is a popular method in nonlinear control. By using an input-output feedback linearizing controller, the original linear input constraints will change to nonlinear constraints and sometimes the constraints are state dependent. This paper presents an iterative quadratic program (IQP routine on the continuous-time system. To guarantee its convergence, another iterative approach is incorporated. The proposed algorithm can reach a feasible solution over the entire prediction horizon. Simulation results on both a numerical example and the continuous stirred tank reactors (CSTR demonstrate the effectiveness of the proposed method.

  5. Comparison between linear and non-parametric regression models for genome-enabled prediction in wheat.

    Science.gov (United States)

    Pérez-Rodríguez, Paulino; Gianola, Daniel; González-Camacho, Juan Manuel; Crossa, José; Manès, Yann; Dreisigacker, Susanne

    2012-12-01

    In genome-enabled prediction, parametric, semi-parametric, and non-parametric regression models have been used. This study assessed the predictive ability of linear and non-linear models using dense molecular markers. The linear models were linear on marker effects and included the Bayesian LASSO, Bayesian ridge regression, Bayes A, and Bayes B. The non-linear models (this refers to non-linearity on markers) were reproducing kernel Hilbert space (RKHS) regression, Bayesian regularized neural networks (BRNN), and radial basis function neural networks (RBFNN). These statistical models were compared using 306 elite wheat lines from CIMMYT genotyped with 1717 diversity array technology (DArT) markers and two traits, days to heading (DTH) and grain yield (GY), measured in each of 12 environments. It was found that the three non-linear models had better overall prediction accuracy than the linear regression specification. Results showed a consistent superiority of RKHS and RBFNN over the Bayesian LASSO, Bayesian ridge regression, Bayes A, and Bayes B models.

  6. Gyrokinetic Stability Studies of the Microtearing Mode in the National Spherical Torus Experiment H-mode

    International Nuclear Information System (INIS)

    Baumgaertel J.A., Redi M.H., Budny R.V., Rewoldt G., Dorland W.

    2005-01-01

    Insight into plasma microturbulence and transport is being sought using linear simulations of drift waves on the National Spherical Torus Experiment (NSTX), following a study of drift wave modes on the Alcator C-Mod Tokamak. Microturbulence is likely generated by instabilities of drift waves, which cause transport of heat and particles. Understanding this transport is important because the containment of heat and particles is required for the achievement of practical nuclear fusion. Microtearing modes may cause high heat transport through high electron thermal conductivity. It is hoped that microtearing will be stable along with good electron transport in the proposed low collisionality International Thermonuclear Experimental Reactor (ITER). Stability of the microtearing mode is investigated for conditions at mid-radius in a high density NSTX high performance (H-mode) plasma, which is compared to the proposed ITER plasmas. The microtearing mode is driven by the electron temperature gradient, and believed to be mediated by ion collisions and magnetic shear. Calculations are based on input files produced by TRXPL following TRANSP (a time-dependent transport analysis code) analysis. The variability of unstable mode growth rates is examined as a function of ion and electron collisionalities using the parallel gyrokinetic computational code GS2. Results show the microtearing mode stability dependence for a range of plasma collisionalities. Computation verifies analytic predictions that higher collisionalities than in the NSTX experiment increase microtearing instability growth rates, but that the modes are stabilized at the highest values. There is a transition of the dominant mode in the collisionality scan to ion temperature gradient character at both high and low collisionalities. The calculations suggest that plasma electron thermal confinement may be greatly improved in the low-collisionality ITER

  7. Predicting musically induced emotions from physiological inputs: linear and neural network models.

    Science.gov (United States)

    Russo, Frank A; Vempala, Naresh N; Sandstrom, Gillian M

    2013-01-01

    Listening to music often leads to physiological responses. Do these physiological responses contain sufficient information to infer emotion induced in the listener? The current study explores this question by attempting to predict judgments of "felt" emotion from physiological responses alone using linear and neural network models. We measured five channels of peripheral physiology from 20 participants-heart rate (HR), respiration, galvanic skin response, and activity in corrugator supercilii and zygomaticus major facial muscles. Using valence and arousal (VA) dimensions, participants rated their felt emotion after listening to each of 12 classical music excerpts. After extracting features from the five channels, we examined their correlation with VA ratings, and then performed multiple linear regression to see if a linear relationship between the physiological responses could account for the ratings. Although linear models predicted a significant amount of variance in arousal ratings, they were unable to do so with valence ratings. We then used a neural network to provide a non-linear account of the ratings. The network was trained on the mean ratings of eight of the 12 excerpts and tested on the remainder. Performance of the neural network confirms that physiological responses alone can be used to predict musically induced emotion. The non-linear model derived from the neural network was more accurate than linear models derived from multiple linear regression, particularly along the valence dimension. A secondary analysis allowed us to quantify the relative contributions of inputs to the non-linear model. The study represents a novel approach to understanding the complex relationship between physiological responses and musically induced emotion.

  8. Drug-Target Interaction Prediction through Label Propagation with Linear Neighborhood Information.

    Science.gov (United States)

    Zhang, Wen; Chen, Yanlin; Li, Dingfang

    2017-11-25

    Interactions between drugs and target proteins provide important information for the drug discovery. Currently, experiments identified only a small number of drug-target interactions. Therefore, the development of computational methods for drug-target interaction prediction is an urgent task of theoretical interest and practical significance. In this paper, we propose a label propagation method with linear neighborhood information (LPLNI) for predicting unobserved drug-target interactions. Firstly, we calculate drug-drug linear neighborhood similarity in the feature spaces, by considering how to reconstruct data points from neighbors. Then, we take similarities as the manifold of drugs, and assume the manifold unchanged in the interaction space. At last, we predict unobserved interactions between known drugs and targets by using drug-drug linear neighborhood similarity and known drug-target interactions. The experiments show that LPLNI can utilize only known drug-target interactions to make high-accuracy predictions on four benchmark datasets. Furthermore, we consider incorporating chemical structures into LPLNI models. Experimental results demonstrate that the model with integrated information (LPLNI-II) can produce improved performances, better than other state-of-the-art methods. The known drug-target interactions are an important information source for computational predictions. The usefulness of the proposed method is demonstrated by cross validation and the case study.

  9. Full-f XGC1 gyrokinetic study of improved ion energy confinement from impurity stabilization of ITG turbulence

    Science.gov (United States)

    Kim, Kyuho; Kwon, Jae-Min; Chang, C. S.; Seo, Janghoon; Ku, S.; Choe, W.

    2017-06-01

    Flux-driven full-f gyrokinetic simulations are performed to study carbon impurity effects on the ion temperature gradient (ITG) turbulence and ion thermal transport in a toroidal geometry. Employing the full-f gyrokinetic code XGC1, both main ions and impurities are evolved self-consistently including turbulence and neoclassical physics. It is found that the carbon impurity profile self-organizes to form an inwardly peaked density profile, which weakens the ITG instabilities and reduces the overall fluctuations and ion thermal transport. A stronger reduction appears in the low frequency components of the fluctuations. The global structure of E × B flow also changes, resulting in the reduction of global avalanche like transport events in the impure plasma. Detailed properties of impurity transport are also studied, and it is revealed that both the inward neoclassical pinch and the outward turbulent transport are equally important in the formation of the steady state impurity profile.

  10. Prediction of Mind-Wandering with Electroencephalogram and Non-linear Regression Modeling.

    Science.gov (United States)

    Kawashima, Issaku; Kumano, Hiroaki

    2017-01-01

    Mind-wandering (MW), task-unrelated thought, has been examined by researchers in an increasing number of articles using models to predict whether subjects are in MW, using numerous physiological variables. However, these models are not applicable in general situations. Moreover, they output only binary classification. The current study suggests that the combination of electroencephalogram (EEG) variables and non-linear regression modeling can be a good indicator of MW intensity. We recorded EEGs of 50 subjects during the performance of a Sustained Attention to Response Task, including a thought sampling probe that inquired the focus of attention. We calculated the power and coherence value and prepared 35 patterns of variable combinations and applied Support Vector machine Regression (SVR) to them. Finally, we chose four SVR models: two of them non-linear models and the others linear models; two of the four models are composed of a limited number of electrodes to satisfy model usefulness. Examination using the held-out data indicated that all models had robust predictive precision and provided significantly better estimations than a linear regression model using single electrode EEG variables. Furthermore, in limited electrode condition, non-linear SVR model showed significantly better precision than linear SVR model. The method proposed in this study helps investigations into MW in various little-examined situations. Further, by measuring MW with a high temporal resolution EEG, unclear aspects of MW, such as time series variation, are expected to be revealed. Furthermore, our suggestion that a few electrodes can also predict MW contributes to the development of neuro-feedback studies.

  11. Prediction of Mind-Wandering with Electroencephalogram and Non-linear Regression Modeling

    Directory of Open Access Journals (Sweden)

    Issaku Kawashima

    2017-07-01

    Full Text Available Mind-wandering (MW, task-unrelated thought, has been examined by researchers in an increasing number of articles using models to predict whether subjects are in MW, using numerous physiological variables. However, these models are not applicable in general situations. Moreover, they output only binary classification. The current study suggests that the combination of electroencephalogram (EEG variables and non-linear regression modeling can be a good indicator of MW intensity. We recorded EEGs of 50 subjects during the performance of a Sustained Attention to Response Task, including a thought sampling probe that inquired the focus of attention. We calculated the power and coherence value and prepared 35 patterns of variable combinations and applied Support Vector machine Regression (SVR to them. Finally, we chose four SVR models: two of them non-linear models and the others linear models; two of the four models are composed of a limited number of electrodes to satisfy model usefulness. Examination using the held-out data indicated that all models had robust predictive precision and provided significantly better estimations than a linear regression model using single electrode EEG variables. Furthermore, in limited electrode condition, non-linear SVR model showed significantly better precision than linear SVR model. The method proposed in this study helps investigations into MW in various little-examined situations. Further, by measuring MW with a high temporal resolution EEG, unclear aspects of MW, such as time series variation, are expected to be revealed. Furthermore, our suggestion that a few electrodes can also predict MW contributes to the development of neuro-feedback studies.

  12. A unified frame of predicting side effects of drugs by using linear neighborhood similarity.

    Science.gov (United States)

    Zhang, Wen; Yue, Xiang; Liu, Feng; Chen, Yanlin; Tu, Shikui; Zhang, Xining

    2017-12-14

    Drug side effects are one of main concerns in the drug discovery, which gains wide attentions. Investigating drug side effects is of great importance, and the computational prediction can help to guide wet experiments. As far as we known, a great number of computational methods have been proposed for the side effect predictions. The assumption that similar drugs may induce same side effects is usually employed for modeling, and how to calculate the drug-drug similarity is critical in the side effect predictions. In this paper, we present a novel measure of drug-drug similarity named "linear neighborhood similarity", which is calculated in a drug feature space by exploring linear neighborhood relationship. Then, we transfer the similarity from the feature space into the side effect space, and predict drug side effects by propagating known side effect information through a similarity-based graph. Under a unified frame based on the linear neighborhood similarity, we propose method "LNSM" and its extension "LNSM-SMI" to predict side effects of new drugs, and propose the method "LNSM-MSE" to predict unobserved side effect of approved drugs. We evaluate the performances of LNSM and LNSM-SMI in predicting side effects of new drugs, and evaluate the performances of LNSM-MSE in predicting missing side effects of approved drugs. The results demonstrate that the linear neighborhood similarity can improve the performances of side effect prediction, and the linear neighborhood similarity-based methods can outperform existing side effect prediction methods. More importantly, the proposed methods can predict side effects of new drugs as well as unobserved side effects of approved drugs under a unified frame.

  13. Gyrokinetic theory of fast-wave transmission with arbitrary parallel wave number in a non-uniformly magnetized plasma

    International Nuclear Information System (INIS)

    Lashmore-Davies, C.N.; Dendy, R.O.

    1990-01-01

    The gyrokinetic theory of ion cyclotron resonance is extended to include propagation at arbitrary angles to a straight equilibrium magnetic field with a linear perpendicular gradient in strength. The case of the compressional Alfven wave propagating in a D( 3 He) plasma is analyzed in detail, for arbitrary concentrations of the two species. A self-consistent local dispersion relation is obtained using a single mode description; this approach enables three-dimensional effects to be included and permits efficient calculation of the transmission coefficient. The dependence of this quantity on the species density ratio, minority temperature, plasma density, magnetic field and equilibrium scale length is obtained. A self-consistent treatment of the variation of the field polarization across the resonant region is included. Families of transmission curves are given as a function of the normalized parallel wave number for parameters relevant to Joint European Torus. Perpendicular absorption by the minority ions is also discussed, and shown to depend on a single parameter, the ratio of the ion thermal velocity to the Alfven speed. (author)

  14. First-principle description of collisional gyrokinetic turbulence in tokamak plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Dif-Pradalier, G

    2008-10-15

    This dissertation starts in chapter 1 with a comprehensive introduction to nuclear fusion, its basic physics, goals and means. It especially defines the concept of a fusion plasma and some of its essential physical properties. The following chapter 2 discusses some fundamental concepts of statistical physics. It introduces the kinetic and the fluid frameworks, compares them and highlights their respective strengths and limitations. The end of the chapter is dedicated to the fluid theory. It presents two new sets of closure relations for fluid equations which retain important pieces of physics, relevant in the weakly collisional tokamak regimes: collective resonances which lead to Landau damping and entropy production. Nonetheless, since the evolution of the turbulence is intrinsically nonlinear and deeply influenced by velocity space effects, a kinetic collisional description is most relevant. First focusing on the kinetic aspect, chapter 3 introduces the so-called gyrokinetic framework along with the numerical solver - the GYSELA code - which will be used throughout this dissertation. Very generically, code solving is an initial value problem. The impact on turbulent nonlinear evolution of out of equilibrium initial conditions is discussed while studying transient flows, self-organizing dynamics and memory effects due to initial conditions. This dissertation introduces an operational definition, now of routine use in the GYSELA code, for the initial state and concludes on the special importance of the accurate calculation of the radial electric field. The GYSELA framework is further extended in chapter 4 to describe Coulomb collisions. The implementation of a collision operator acting on the full distribution function is presented. Its successful confrontation to collisional theory (neoclassical theory) is also shown. GYSELA is now part of the few gyrokinetic codes which can self-consistently address the interplay between turbulence and collisions. While

  15. First-principle description of collisional gyrokinetic turbulence in tokamak plasmas

    International Nuclear Information System (INIS)

    Dif-Pradalier, G.

    2008-10-01

    This dissertation starts in chapter 1 with a comprehensive introduction to nuclear fusion, its basic physics, goals and means. It especially defines the concept of a fusion plasma and some of its essential physical properties. The following chapter 2 discusses some fundamental concepts of statistical physics. It introduces the kinetic and the fluid frameworks, compares them and highlights their respective strengths and limitations. The end of the chapter is dedicated to the fluid theory. It presents two new sets of closure relations for fluid equations which retain important pieces of physics, relevant in the weakly collisional tokamak regimes: collective resonances which lead to Landau damping and entropy production. Nonetheless, since the evolution of the turbulence is intrinsically nonlinear and deeply influenced by velocity space effects, a kinetic collisional description is most relevant. First focusing on the kinetic aspect, chapter 3 introduces the so-called gyrokinetic framework along with the numerical solver - the GYSELA code - which will be used throughout this dissertation. Very generically, code solving is an initial value problem. The impact on turbulent nonlinear evolution of out of equilibrium initial conditions is discussed while studying transient flows, self-organizing dynamics and memory effects due to initial conditions. This dissertation introduces an operational definition, now of routine use in the GYSELA code, for the initial state and concludes on the special importance of the accurate calculation of the radial electric field. The GYSELA framework is further extended in chapter 4 to describe Coulomb collisions. The implementation of a collision operator acting on the full distribution function is presented. Its successful confrontation to collisional theory (neoclassical theory) is also shown. GYSELA is now part of the few gyrokinetic codes which can self-consistently address the interplay between turbulence and collisions. While

  16. Analysis and optimization of gyrokinetic toroidal simulations on homogenous and heterogenous platforms

    International Nuclear Information System (INIS)

    Ibrahim, Khaled Z.; Madduri, Kamesh; Williams, Samuel; Wang, Bei; Oliker, Leonid

    2013-01-01

    The Gyrokinetic Toroidal Code (GTC) uses the particle-in-cell method to efficiently simulate plasma microturbulence. This paper presents novel analysis and optimization techniques to enhance the performance of GTC on large-scale machines. We introduce cell access analysis to better manage locality vs. synchronization tradeoffs on CPU and GPU-based architectures. Finally, our optimized hybrid parallel implementation of GTC uses MPI, OpenMP, and NVIDIA CUDA, achieves up to a 2× speedup over the reference Fortran version on multiple parallel systems, and scales efficiently to tens of thousands of cores.

  17. Gyrokinetic Simulations with External Resonant Magnetic Perturbations: Island Torque and Nonambipolar Transport with Rotation

    Science.gov (United States)

    Waltz, R. E.; Waelbroeck, F. L.

    2012-03-01

    Static external resonant magnetic perturbations (RMPs) have been added to the δf gyrokinetic code GYRO. This allows nonlinear gyrokinetic simulations of the nonambipolar radial current flow jr and the corresponding plasma torque (density) R[jrBθ/c], induced by islands that break the toroidal symmetry of a tokamak. This extends previous GYRO simulations for the transport of toroidal angular momentum (TAM) [1,2]. The focus is on full torus radial slice electrostatic simulations of induced q=m/n=6/3 islands with widths 5% of the minor radius. The island torque scales with the radial electric field Er the island width w, and the intensity I of the high-n micro-turbulence, as wErI^1/2. The net island torque is null at zero Er rather than at zero toroidal rotation. This means that there is a small co-directed magnetic acceleration to the small diamagnetic co-rotation corresponding to the zero Er which can be called the residual stress [2] from an externally induced island. Finite-beta GYRO simulations of a core radial slice demonstrate island unlocking and the RMP screening. 6pt[1] R.E. Waltz, et al., Phys. Plasmas 14, 122507 (2007). [2] R.E. Waltz, et al., Phys. Plasmas 18, 042504 (2011).

  18. A study of self organized criticality in ion temperature gradient mode driven gyrokinetic turbulence

    Science.gov (United States)

    Mavridis, M.; Isliker, H.; Vlahos, L.; Görler, T.; Jenko, F.; Told, D.

    2014-10-01

    An investigation on the characteristics of self organized criticality (Soc) in ITG mode driven turbulence is made, with the use of various statistical tools (histograms, power spectra, Hurst exponents estimated with the rescaled range analysis, and the structure function method). For this purpose, local non-linear gyrokinetic simulations of the cyclone base case scenario are performed with the GENE software package. Although most authors concentrate on global simulations, which seem to be a better choice for such an investigation, we use local simulations in an attempt to study the locally underlying mechanisms of Soc. We also study the structural properties of radially extended structures, with several tools (fractal dimension estimate, cluster analysis, and two dimensional autocorrelation function), in order to explore whether they can be characterized as avalanches. We find that, for large enough driving temperature gradients, the local simulations exhibit most of the features of Soc, with the exception of the probability distribution of observables, which show a tail, yet they are not of power-law form. The radial structures have the same radial extent at all temperature gradients examined; radial motion (transport) though appears only at large temperature gradients, in which case the radial structures can be interpreted as avalanches.

  19. A study of self organized criticality in ion temperature gradient mode driven gyrokinetic turbulence

    International Nuclear Information System (INIS)

    Mavridis, M.; Isliker, H.; Vlahos, L.; Görler, T.; Jenko, F.; Told, D.

    2014-01-01

    An investigation on the characteristics of self organized criticality (Soc) in ITG mode driven turbulence is made, with the use of various statistical tools (histograms, power spectra, Hurst exponents estimated with the rescaled range analysis, and the structure function method). For this purpose, local non-linear gyrokinetic simulations of the cyclone base case scenario are performed with the GENE software package. Although most authors concentrate on global simulations, which seem to be a better choice for such an investigation, we use local simulations in an attempt to study the locally underlying mechanisms of Soc. We also study the structural properties of radially extended structures, with several tools (fractal dimension estimate, cluster analysis, and two dimensional autocorrelation function), in order to explore whether they can be characterized as avalanches. We find that, for large enough driving temperature gradients, the local simulations exhibit most of the features of Soc, with the exception of the probability distribution of observables, which show a tail, yet they are not of power-law form. The radial structures have the same radial extent at all temperature gradients examined; radial motion (transport) though appears only at large temperature gradients, in which case the radial structures can be interpreted as avalanches

  20. A study of self organized criticality in ion temperature gradient mode driven gyrokinetic turbulence

    Energy Technology Data Exchange (ETDEWEB)

    Mavridis, M.; Isliker, H.; Vlahos, L. [Section of Astrophysics, Astronomy and Mechanics, Department of Physics, Aristotle University of Thessaloniki, GR-54124 Thessaloniki (Greece); Görler, T.; Jenko, F.; Told, D. [Max Planck Institute for Plasma Physics, Boltzmannstr. 2, 85748 Garching (Germany)

    2014-10-15

    An investigation on the characteristics of self organized criticality (Soc) in ITG mode driven turbulence is made, with the use of various statistical tools (histograms, power spectra, Hurst exponents estimated with the rescaled range analysis, and the structure function method). For this purpose, local non-linear gyrokinetic simulations of the cyclone base case scenario are performed with the GENE software package. Although most authors concentrate on global simulations, which seem to be a better choice for such an investigation, we use local simulations in an attempt to study the locally underlying mechanisms of Soc. We also study the structural properties of radially extended structures, with several tools (fractal dimension estimate, cluster analysis, and two dimensional autocorrelation function), in order to explore whether they can be characterized as avalanches. We find that, for large enough driving temperature gradients, the local simulations exhibit most of the features of Soc, with the exception of the probability distribution of observables, which show a tail, yet they are not of power-law form. The radial structures have the same radial extent at all temperature gradients examined; radial motion (transport) though appears only at large temperature gradients, in which case the radial structures can be interpreted as avalanches.

  1. Gyrokinetic particle simulation of neoclassical transport

    International Nuclear Information System (INIS)

    Lin, Z.; Tang, W.M.; Lee, W.W.

    1995-01-01

    A time varying weighting (δf ) scheme for gyrokinetic particle simulation is applied to a steady-state, multispecies simulation of neoclassical transport. Accurate collision operators conserving momentum and energy are developed and implemented. Simulation results using these operators are found to agree very well with neoclassical theory. For example, it is dynamically demonstrated that like-particle collisions produce no particle flux and that the neoclassical fluxes are ambipolar for an ion--electron plasma. An important physics feature of the present scheme is the introduction of toroidal flow to the simulations. Simulation results are in agreement with the existing analytical neoclassical theory. The poloidal electric field associated with toroidal mass flow is found to enhance density gradient-driven electron particle flux and the bootstrap current while reducing temperature gradient-driven flux and current. Finally, neoclassical theory in steep gradient profile relevant to the edge regime is examined by taking into account finite banana width effects. In general, in the present work a valuable new capability for studying important aspects of neoclassical transport inaccessible by conventional analytical calculation processes is demonstrated. copyright 1995 American Institute of Physics

  2. Structural Dynamic Analyses And Test Predictions For Spacecraft Structures With Non-Linearities

    Science.gov (United States)

    Vergniaud, Jean-Baptiste; Soula, Laurent; Newerla, Alfred

    2012-07-01

    The overall objective of the mechanical development and verification process is to ensure that the spacecraft structure is able to sustain the mechanical environments encountered during launch. In general the spacecraft structures are a-priori assumed to behave linear, i.e. the responses to a static load or dynamic excitation, respectively, will increase or decrease proportionally to the amplitude of the load or excitation induced. However, past experiences have shown that various non-linearities might exist in spacecraft structures and the consequences of their dynamic effects can significantly affect the development and verification process. Current processes are mainly adapted to linear spacecraft structure behaviour. No clear rules exist for dealing with major structure non-linearities. They are handled outside the process by individual analysis and margin policy, and analyses after tests to justify the CLA coverage. Non-linearities can primarily affect the current spacecraft development and verification process on two aspects. Prediction of flights loads by launcher/satellite coupled loads analyses (CLA): only linear satellite models are delivered for performing CLA and no well-established rules exist how to properly linearize a model when non- linearities are present. The potential impact of the linearization on the results of the CLA has not yet been properly analyzed. There are thus difficulties to assess that CLA results will cover actual flight levels. Management of satellite verification tests: the CLA results generated with a linear satellite FEM are assumed flight representative. If the internal non- linearities are present in the tested satellite then there might be difficulties to determine which input level must be passed to cover satellite internal loads. The non-linear behaviour can also disturb the shaker control, putting the satellite at risk by potentially imposing too high levels. This paper presents the results of a test campaign performed in

  3. Technical note: A linear model for predicting δ13 Cprotein.

    Science.gov (United States)

    Pestle, William J; Hubbe, Mark; Smith, Erin K; Stevenson, Joseph M

    2015-08-01

    Development of a model for the prediction of δ(13) Cprotein from δ(13) Ccollagen and Δ(13) Cap-co . Model-generated values could, in turn, serve as "consumer" inputs for multisource mixture modeling of paleodiet. Linear regression analysis of previously published controlled diet data facilitated the development of a mathematical model for predicting δ(13) Cprotein (and an experimentally generated error term) from isotopic data routinely generated during the analysis of osseous remains (δ(13) Cco and Δ(13) Cap-co ). Regression analysis resulted in a two-term linear model (δ(13) Cprotein (%) = (0.78 × δ(13) Cco ) - (0.58× Δ(13) Cap-co ) - 4.7), possessing a high R-value of 0.93 (r(2)  = 0.86, P analysis of human osseous remains. These predicted values are ideal for use in multisource mixture modeling of dietary protein source contribution. © 2015 Wiley Periodicals, Inc.

  4. Predicting musically induced emotions from physiological inputs: Linear and neural network models

    Directory of Open Access Journals (Sweden)

    Frank A. Russo

    2013-08-01

    Full Text Available Listening to music often leads to physiological responses. Do these physiological responses contain sufficient information to infer emotion induced in the listener? The current study explores this question by attempting to predict judgments of 'felt' emotion from physiological responses alone using linear and neural network models. We measured five channels of peripheral physiology from 20 participants – heart rate, respiration, galvanic skin response, and activity in corrugator supercilii and zygomaticus major facial muscles. Using valence and arousal (VA dimensions, participants rated their felt emotion after listening to each of 12 classical music excerpts. After extracting features from the five channels, we examined their correlation with VA ratings, and then performed multiple linear regression to see if a linear relationship between the physiological responses could account for the ratings. Although linear models predicted a significant amount of variance in arousal ratings, they were unable to do so with valence ratings. We then used a neural network to provide a nonlinear account of the ratings. The network was trained on the mean ratings of eight of the 12 excerpts and tested on the remainder. Performance of the neural network confirms that physiological responses alone can be used to predict musically induced emotion. The nonlinear model derived from the neural network was more accurate than linear models derived from multiple linear regression, particularly along the valence dimension. A secondary analysis allowed us to quantify the relative contributions of inputs to the nonlinear model. The study represents a novel approach to understanding the complex relationship between physiological responses and musically induced emotion.

  5. Development of a global toroidal gyrokinetic Vlasov code with new real space field solver

    International Nuclear Information System (INIS)

    Obrejan, Kevin; Imadera, Kenji; Li, Ji-Quan; Kishimoto, Yasuaki

    2015-01-01

    This work introduces a new full-f toroidal gyrokinetic (GK) Vlasov simulation code that uses a real space field solver. This solver enables us to compute the gyro-averaging operators in real space to allow proper treatment of finite Larmor radius (FLR) effects without requiring any particular hypothesis and in any magnetic field configuration (X-point, D-shaped etc). The code was well verified through benchmark tests such as toroidal Ion Temperature Gradient (ITG) instability and collisionless damping of zonal flow. (author)

  6. Modified linear predictive coding approach for moving target tracking by Doppler radar

    Science.gov (United States)

    Ding, Yipeng; Lin, Xiaoyi; Sun, Ke-Hui; Xu, Xue-Mei; Liu, Xi-Yao

    2016-07-01

    Doppler radar is a cost-effective tool for moving target tracking, which can support a large range of civilian and military applications. A modified linear predictive coding (LPC) approach is proposed to increase the target localization accuracy of the Doppler radar. Based on the time-frequency analysis of the received echo, the proposed approach first real-time estimates the noise statistical parameters and constructs an adaptive filter to intelligently suppress the noise interference. Then, a linear predictive model is applied to extend the available data, which can help improve the resolution of the target localization result. Compared with the traditional LPC method, which empirically decides the extension data length, the proposed approach develops an error array to evaluate the prediction accuracy and thus, adjust the optimum extension data length intelligently. Finally, the prediction error array is superimposed with the predictor output to correct the prediction error. A series of experiments are conducted to illustrate the validity and performance of the proposed techniques.

  7. SciDAC GSEP: Gyrokinetic Simulation of Energetic Particle Turbulence and Transport

    Energy Technology Data Exchange (ETDEWEB)

    Lin, Zhihong [Univ. of California, Irvine, CA (United States)

    2017-12-30

    Energetic particle (EP) confinement is a key physics issue for burning plasma experiment ITER, the crucial next step in the quest for clean and abundant energy, since ignition relies on self-heating by energetic fusion products (α-particles). Due to the strong coupling of EP with burning thermal plasmas, plasma confinement property in the ignition regime is one of the most uncertain factors when extrapolating from existing fusion devices to the ITER tokamak. EP population in current tokamaks are mostly produced by auxiliary heating such as neutral beam injection (NBI) and radio frequency (RF) heating. Remarkable progress in developing comprehensive EP simulation codes and understanding basic EP physics has been made by two concurrent SciDAC EP projects GSEP funded by the Department of Energy (DOE) Office of Fusion Energy Science (OFES), which have successfully established gyrokinetic turbulence simulation as a necessary paradigm shift for studying the EP confinement in burning plasmas. Verification and validation have rapidly advanced through close collaborations between simulation, theory, and experiment. Furthermore, productive collaborations with computational scientists have enabled EP simulation codes to effectively utilize current petascale computers and emerging exascale computers. We review here key physics progress in the GSEP projects regarding verification and validation of gyrokinetic simulations, nonlinear EP physics, EP coupling with thermal plasmas, and reduced EP transport models. Advances in high performance computing through collaborations with computational scientists that enable these large scale electromagnetic simulations are also highlighted. These results have been widely disseminated in numerous peer-reviewed publications including many Phys. Rev. Lett. papers and many invited presentations at prominent fusion conferences such as the biennial International Atomic Energy Agency (IAEA) Fusion Energy Conference and the annual meeting of the

  8. Including collisions in gyrokinetic tokamak and stellarator simulations

    International Nuclear Information System (INIS)

    Kauffmann, Karla

    2012-01-01

    Particle and heat transport in fusion devices often exceed the neoclassical prediction. This anomalous transport is thought to be produced by turbulence caused by microinstabilities such as ion and electron-temperature-gradient (ITG/ETG) and trapped-electron-mode (TEM) instabilities, the latter ones known for being strongly influenced by collisions. Additionally, in stellarators, the neoclassical transport can be important in the core, and therefore investigation of the effects of collisions is an important field of study. Prior to this thesis, however, no gyrokinetic simulations retaining collisions had been performed in stellarator geometry. In this work, collisional effects were added to EUTERPE, a previously collisionless gyrokinetic code which utilizes the δf method. To simulate the collisions, a pitch-angle scattering operator was employed, and its implementation was carried out following the methods proposed in [Takizuka and Abe 1977, Vernay Master's thesis 2008]. To test this implementation, the evolution of the distribution function in a homogeneous plasma was first simulated, where Legendre polynomials constitute eigenfunctions of the collision operator. Also, the solution of the Spitzer problem was reproduced for a cylinder and a tokamak. Both these tests showed that collisions were correctly implemented and that the code is suited for more complex simulations. As a next step, the code was used to calculate the neoclassical radial particle flux by neglecting any turbulent fluctuations in the distribution function and the electric field. Particle fluxes in the neoclassical analytical regimes were simulated for tokamak and stellarator (LHD) configurations. In addition to the comparison with analytical fluxes, a successful benchmark with the DKES code was presented for the tokamak case, which further validates the code for neoclassical simulations. In the final part of the work, the effects of collisions were investigated for slab and toroidal ITGs and

  9. Including collisions in gyrokinetic tokamak and stellarator simulations

    Energy Technology Data Exchange (ETDEWEB)

    Kauffmann, Karla

    2012-04-10

    Particle and heat transport in fusion devices often exceed the neoclassical prediction. This anomalous transport is thought to be produced by turbulence caused by microinstabilities such as ion and electron-temperature-gradient (ITG/ETG) and trapped-electron-mode (TEM) instabilities, the latter ones known for being strongly influenced by collisions. Additionally, in stellarators, the neoclassical transport can be important in the core, and therefore investigation of the effects of collisions is an important field of study. Prior to this thesis, however, no gyrokinetic simulations retaining collisions had been performed in stellarator geometry. In this work, collisional effects were added to EUTERPE, a previously collisionless gyrokinetic code which utilizes the {delta}f method. To simulate the collisions, a pitch-angle scattering operator was employed, and its implementation was carried out following the methods proposed in [Takizuka and Abe 1977, Vernay Master's thesis 2008]. To test this implementation, the evolution of the distribution function in a homogeneous plasma was first simulated, where Legendre polynomials constitute eigenfunctions of the collision operator. Also, the solution of the Spitzer problem was reproduced for a cylinder and a tokamak. Both these tests showed that collisions were correctly implemented and that the code is suited for more complex simulations. As a next step, the code was used to calculate the neoclassical radial particle flux by neglecting any turbulent fluctuations in the distribution function and the electric field. Particle fluxes in the neoclassical analytical regimes were simulated for tokamak and stellarator (LHD) configurations. In addition to the comparison with analytical fluxes, a successful benchmark with the DKES code was presented for the tokamak case, which further validates the code for neoclassical simulations. In the final part of the work, the effects of collisions were investigated for slab and toroidal

  10. Response to Comment on 'On Higher-Order Corrections to Gyrokinetic Vlasov-Poisson Equations in the Long Wavelength Limit [Phys. Plasmas 16,044506 (2009)]'

    International Nuclear Information System (INIS)

    Lee, W.W.; Kolesnikov, R.A.

    2009-01-01

    We show in this Response that the nonlinear Poisson's equation in our original paper derived from the drift kinetic approach can be verified by using the nonlinear gyrokinetic Poisson's equation of Dubin et al. (Phys. Fluids 26, 3524 (1983)). This nonlinear contribution in φ 2 is indeed of the order of k # perpendicular# 4 in the long wavelength limit and remains finite for zero ion temperature, in contrast to the nonlinear term by Parra and Catto (Plasma Phys. Control. Fusion 50, 065014 (2008)), which is of the order of k # perpendicular# 2 and diverges for T i → 0. For comparison, the leading term for the gyrokinetic Poisson's equation in this limit is of the order of k # perpendicular# 2 φ.

  11. Grid-based Parallel Data Streaming Implemented for the Gyrokinetic Toroidal Code

    International Nuclear Information System (INIS)

    Klasky, S.; Ethier, S.; Lin, Z.; Martins, K.; McCune, D.; Samtaney, R.

    2003-01-01

    We have developed a threaded parallel data streaming approach using Globus to transfer multi-terabyte simulation data from a remote supercomputer to the scientist's home analysis/visualization cluster, as the simulation executes, with negligible overhead. Data transfer experiments show that this concurrent data transfer approach is more favorable compared with writing to local disk and then transferring this data to be post-processed. The present approach is conducive to using the grid to pipeline the simulation with post-processing and visualization. We have applied this method to the Gyrokinetic Toroidal Code (GTC), a 3-dimensional particle-in-cell code used to study microturbulence in magnetic confinement fusion from first principles plasma theory

  12. Linear and nonlinear models for predicting fish bioconcentration factors for pesticides.

    Science.gov (United States)

    Yuan, Jintao; Xie, Chun; Zhang, Ting; Sun, Jinfang; Yuan, Xuejie; Yu, Shuling; Zhang, Yingbiao; Cao, Yunyuan; Yu, Xingchen; Yang, Xuan; Yao, Wu

    2016-08-01

    This work is devoted to the applications of the multiple linear regression (MLR), multilayer perceptron neural network (MLP NN) and projection pursuit regression (PPR) to quantitative structure-property relationship analysis of bioconcentration factors (BCFs) of pesticides tested on Bluegill (Lepomis macrochirus). Molecular descriptors of a total of 107 pesticides were calculated with the DRAGON Software and selected by inverse enhanced replacement method. Based on the selected DRAGON descriptors, a linear model was built by MLR, nonlinear models were developed using MLP NN and PPR. The robustness of the obtained models was assessed by cross-validation and external validation using test set. Outliers were also examined and deleted to improve predictive power. Comparative results revealed that PPR achieved the most accurate predictions. This study offers useful models and information for BCF prediction, risk assessment, and pesticide formulation. Copyright © 2016 Elsevier Ltd. All rights reserved.

  13. Clarifications to the limitations of the s-α equilibrium model for gyrokinetic computations of turbulence

    International Nuclear Information System (INIS)

    Lapillonne, X.; Brunner, S.; Dannert, T.; Jolliet, S.; Marinoni, A.; Villard, L.; Goerler, T.; Jenko, F.; Merz, F.

    2009-01-01

    In the context of gyrokinetic flux-tube simulations of microturbulence in magnetized toroidal plasmas, different treatments of the magnetic equilibrium are examined. Considering the Cyclone DIII-D base case parameter set [Dimits et al., Phys. Plasmas 7, 969 (2000)], significant differences in the linear growth rates, the linear and nonlinear critical temperature gradients, and the nonlinear ion heat diffusivities are observed between results obtained using either an s-α or a magnetohydrodynamic (MHD) equilibrium. Similar disagreements have been reported previously [Redd et al., Phys. Plasmas 6, 1162 (1999)]. In this paper it is shown that these differences result primarily from the approximation made in the standard implementation of the s-α model, in which the straight field line angle is identified to the poloidal angle, leading to inconsistencies of order ε (ε=a/R is the inverse aspect ratio, a the minor radius and R the major radius). An equilibrium model with concentric, circular flux surfaces and a correct treatment of the straight field line angle gives results very close to those using a finite ε, low β MHD equilibrium. Such detailed investigation of the equilibrium implementation is of particular interest when comparing flux tube and global codes. It is indeed shown here that previously reported agreements between local and global simulations in fact result from the order ε inconsistencies in the s-α model, coincidentally compensating finite ρ * effects in the global calculations, where ρ * =ρ s /a with ρ s the ion sound Larmor radius. True convergence between local and global simulations is finally obtained by correct treatment of the geometry in both cases, and considering the appropriate ρ * →0 limit in the latter case.

  14. The implementation of a toroidal limiter model into the gyrokinetic code ELMFIRE

    Energy Technology Data Exchange (ETDEWEB)

    Leerink, S.; Janhunen, S.J.; Kiviniemi, T.P.; Nora, M. [Euratom-Tekes Association, Helsinki University of Technology (Finland); Heikkinen, J.A. [Euratom-Tekes Association, VTT, P.O. Box 1000, FI-02044 VTT (Finland); Ogando, F. [Universidad Nacional de Educacion a Distancia, Madrid (Spain)

    2008-03-15

    The ELMFIRE full nonlinear gyrokinetic simulation code has been developed for calculations of plasma evolution and dynamics of turbulence in tokamak geometry. The code is applicable for calculations of strong perturbations in particle distribution function, rapid transients and steep gradients in plasma. Benchmarking against experimental reflectometry data from the FT2 tokamak is being discussed and in this paper a model for comparison and studying poloidal velocity is presented. To make the ELMFIRE code suitable for scrape-off layer simulations a simplified toroidal limiter model has been implemented. The model is be discussed and first results are presented. (copyright 2008 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim) (orig.)

  15. Suppressing Electron Turbulence and Triggering Internal Transport Barriers with Reversed Magnetic Shear in the National Spherical Torus Experiment

    Science.gov (United States)

    Peterson, Jayson Luc

    2011-10-01

    Observations in the National Spherical Torus Experiment (NSTX) have found electron temperature gradients that greatly exceed the linear threshold for the onset for electron temperature gradient-driven (ETG) turbulence. These discharges, deemed electron internal transport barriers (e-ITBs), coincide with a reversal in the shear of the magnetic field and with a reduction in electron-scale density fluctuations, qualitatively consistent with earlier gyrokinetic predictions. To investigate this phenomenon further, we numerically model electron turbulence in NSTX reversed-shear plasmas using the gyrokinetic turbulence code GYRO. These first-of-a-kind nonlinear gyrokinetic simulations of NSTX e-ITBs confirm that reversing the magnetic shear can allow the plasma to reach electron temperature gradients well beyond the critical gradient for the linear onset of instability. This effect is very strong, with the nonlinear threshold for significant transport approaching three times the linear critical gradient in some cases, in contrast with moderate shear cases, which can drive significant ETG turbulence at much lower gradients. In addition to the experimental implications of this upshifted nonlinear critical gradient, we explore the behavior of ETG turbulence during reversed shear discharges. This work is supported by the SciDAC Center for the Study of Plasma Microturbulence, DOE Contract DE-AC02-09CH11466, and used the resources of NCCS at ORNL and NERSC at LBNL. M. Ono et al., Nucl. Fusion 40, 557 (2000).

  16. A national-scale model of linear features improves predictions of farmland biodiversity.

    Science.gov (United States)

    Sullivan, Martin J P; Pearce-Higgins, James W; Newson, Stuart E; Scholefield, Paul; Brereton, Tom; Oliver, Tom H

    2017-12-01

    Modelling species distribution and abundance is important for many conservation applications, but it is typically performed using relatively coarse-scale environmental variables such as the area of broad land-cover types. Fine-scale environmental data capturing the most biologically relevant variables have the potential to improve these models. For example, field studies have demonstrated the importance of linear features, such as hedgerows, for multiple taxa, but the absence of large-scale datasets of their extent prevents their inclusion in large-scale modelling studies.We assessed whether a novel spatial dataset mapping linear and woody-linear features across the UK improves the performance of abundance models of 18 bird and 24 butterfly species across 3723 and 1547 UK monitoring sites, respectively.Although improvements in explanatory power were small, the inclusion of linear features data significantly improved model predictive performance for many species. For some species, the importance of linear features depended on landscape context, with greater importance in agricultural areas. Synthesis and applications . This study demonstrates that a national-scale model of the extent and distribution of linear features improves predictions of farmland biodiversity. The ability to model spatial variability in the role of linear features such as hedgerows will be important in targeting agri-environment schemes to maximally deliver biodiversity benefits. Although this study focuses on farmland, data on the extent of different linear features are likely to improve species distribution and abundance models in a wide range of systems and also can potentially be used to assess habitat connectivity.

  17. Prediction of minimum temperatures in an alpine region by linear and non-linear post-processing of meteorological models

    Directory of Open Access Journals (Sweden)

    R. Barbiero

    2007-05-01

    Full Text Available Model Output Statistics (MOS refers to a method of post-processing the direct outputs of numerical weather prediction (NWP models in order to reduce the biases introduced by a coarse horizontal resolution. This technique is especially useful in orographically complex regions, where large differences can be found between the NWP elevation model and the true orography. This study carries out a comparison of linear and non-linear MOS methods, aimed at the prediction of minimum temperatures in a fruit-growing region of the Italian Alps, based on the output of two different NWPs (ECMWF T511–L60 and LAMI-3. Temperature, of course, is a particularly important NWP output; among other roles it drives the local frost forecast, which is of great interest to agriculture. The mechanisms of cold air drainage, a distinctive aspect of mountain environments, are often unsatisfactorily captured by global circulation models. The simplest post-processing technique applied in this work was a correction for the mean bias, assessed at individual model grid points. We also implemented a multivariate linear regression on the output at the grid points surrounding the target area, and two non-linear models based on machine learning techniques: Neural Networks and Random Forest. We compare the performance of all these techniques on four different NWP data sets. Downscaling the temperatures clearly improved the temperature forecasts with respect to the raw NWP output, and also with respect to the basic mean bias correction. Multivariate methods generally yielded better results, but the advantage of using non-linear algorithms was small if not negligible. RF, the best performing method, was implemented on ECMWF prognostic output at 06:00 UTC over the 9 grid points surrounding the target area. Mean absolute errors in the prediction of 2 m temperature at 06:00 UTC were approximately 1.2°C, close to the natural variability inside the area itself.

  18. A Systematic Method for Verification and Validation of Gyrokinetic Microstability Codes

    Energy Technology Data Exchange (ETDEWEB)

    Bravenec, Ronald [Fourth State Research, Austin, TX (United States)

    2017-11-14

    My original proposal for the period Feb. 15, 2014 through Feb. 14, 2017 called for an integrated validation and verification effort carried out by myself with collaborators. The validation component would require experimental profile and power-balance analysis. In addition, it would require running the gyrokinetic codes varying the input profiles within experimental uncertainties to seek agreement with experiment before discounting a code as invalidated. Therefore, validation would require a major increase of effort over my previous grant periods which covered only code verification (code benchmarking). Consequently, I had requested full-time funding. Instead, I am being funded at somewhat less than half time (5 calendar months per year). As a consequence, I decided to forego the validation component and to only continue the verification efforts.

  19. Warped Linear Prediction of Physical Model Excitations with Applications in Audio Compression and Instrument Synthesis

    Science.gov (United States)

    Glass, Alexis; Fukudome, Kimitoshi

    2004-12-01

    A sound recording of a plucked string instrument is encoded and resynthesized using two stages of prediction. In the first stage of prediction, a simple physical model of a plucked string is estimated and the instrument excitation is obtained. The second stage of prediction compensates for the simplicity of the model in the first stage by encoding either the instrument excitation or the model error using warped linear prediction. These two methods of compensation are compared with each other, and to the case of single-stage warped linear prediction, adjustments are introduced, and their applications to instrument synthesis and MPEG4's audio compression within the structured audio format are discussed.

  20. Multispecies density peaking in gyrokinetic turbulence simulations of low collisionality Alcator C-Mod plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Mikkelsen, D. R., E-mail: dmikkelsen@pppl.gov; Bitter, M.; Delgado-Aparicio, L.; Hill, K. W. [Princeton Plasma Physics Laboratory, P.O. Box 451, Princeton, New Jersey 08543 (United States); Greenwald, M.; Howard, N. T.; Hughes, J. W.; Rice, J. E. [MIT Plasma Science and Fusion Center, 175 Albany St., Cambridge, Massachusetts 02139 (United States); Reinke, M. L. [MIT Plasma Science and Fusion Center, 175 Albany St., Cambridge, Massachusetts 02139 (United States); York Plasma Institute, Department of Physics, University of York, Heslington, York YO10 5DD (United Kingdom); Podpaly, Y. [MIT Plasma Science and Fusion Center, 175 Albany St., Cambridge, Massachusetts 02139 (United States); AAAS S and T Fellow placed in the Directorate for Engineering, NSF, 4201 Wilson Blvd., Arlington, Virginia 22230 (United States); Ma, Y. [MIT Plasma Science and Fusion Center, 175 Albany St., Cambridge, Massachusetts 02139 (United States); ITER Organization, Route de Vinon-sur-Verdon, CS 90 046, 13067 St Paul Lez Durance Cedex (France); Candy, J.; Waltz, R. E. [General Atomics, P.O. Box 85608, San Diego, California 92186-5608 (United States)

    2015-06-15

    Peaked density profiles in low-collisionality AUG and JET H-mode plasmas are probably caused by a turbulently driven particle pinch, and Alcator C-Mod experiments confirmed that collisionality is a critical parameter. Density peaking in reactors could produce a number of important effects, some beneficial, such as enhanced fusion power and transport of fuel ions from the edge to the core, while others are undesirable, such as lower beta limits, reduced radiation from the plasma edge, and consequently higher divertor heat loads. Fundamental understanding of the pinch will enable planning to optimize these impacts. We show that density peaking is predicted by nonlinear gyrokinetic turbulence simulations based on measured profile data from low collisionality H-mode plasma in Alcator C-Mod. Multiple ion species are included to determine whether hydrogenic density peaking has an isotope dependence or is influenced by typical levels of low-Z impurities, and whether impurity density peaking depends on the species. We find that the deuterium density profile is slightly more peaked than that of hydrogen, and that experimentally relevant levels of boron have no appreciable effect on hydrogenic density peaking. The ratio of density at r/a = 0.44 to that at r/a = 0.74 is 1.2 for the majority D and minority H ions (and for electrons), and increases with impurity Z: 1.1 for helium, 1.15 for boron, 1.3 for neon, 1.4 for argon, and 1.5 for molybdenum. The ion temperature profile is varied to match better the predicted heat flux with the experimental transport analysis, but the resulting factor of two change in heat transport has only a weak effect on the predicted density peaking.

  1. Advances in comprehensive gyrokinetic simulations of transport in tokamaks

    International Nuclear Information System (INIS)

    Waltz, R.E.; Candy, J.; Hinton, F.L.; Estrada-Mila, C.; Kinsey, J.E.

    2005-01-01

    A continuum global gyrokinetic code GYRO has been developed to comprehensively simulate core turbulent transport in actual experimental profiles and enable direct quantitative comparisons to the experimental transport flows. GYRO not only treats the now standard ion temperature gradient (ITG) mode turbulence, but also treats trapped and passing electrons with collisions and finite β, equilibrium ExB shear stabilization, and all in real tokamak geometry. Most importantly the code operates at finite relative gyroradius (ρ*) so as to treat the profile shear stabilization and nonlocal effects which can break gyroBohm scaling. The code operates in either a cyclic flux-tube limit (which allows only gyroBohm scaling) or globally with physical profile variation. Bohm scaling of DIII-D L-mode has been simulated with power flows matching experiment within error bars on the ion temperature gradient. Mechanisms for broken gyroBohm scaling, neoclassical ion flows embedded in turbulence, turbulent dynamos and profile corrugations, are illustrated. (author)

  2. ADVANCES IN COMPREHENSIVE GYROKINETIC SIMULATIONS OF TRANSPORT IN TOKAMAKS

    International Nuclear Information System (INIS)

    WALTZ, R. E; CANDY, J; HINTON, F. L; ESTRADA-MILA, C; KINSEY, J.E

    2004-01-01

    A continuum global gyrokinetic code GYRO has been developed to comprehensively simulate core turbulent transport in actual experimental profiles and enable direct quantitative comparisons to the experimental transport flows. GYRO not only treats the now standard ion temperature gradient (ITG) mode turbulence, but also treats trapped and passing electrons with collisions and finite β, equilibrium ExB shear stabilization, and all in real tokamak geometry. Most importantly the code operates at finite relative gyroradius (ρ * ) so as to treat the profile shear stabilization and nonlocal effects which can break gyroBohm scaling. The code operates in either a cyclic flux-tube limit (which allows only gyroBohm scaling) or globally with physical profile variation. Bohm scaling of DIII-D L-mode has been simulated with power flows matching experiment within error bars on the ion temperature gradient. Mechanisms for broken gyroBohm scaling, neoclassical ion flows embedded in turbulence, turbulent dynamos and profile corrugations, are illustrated

  3. Applications of Kalman filters based on non-linear functions to numerical weather predictions

    Directory of Open Access Journals (Sweden)

    G. Galanis

    2006-10-01

    Full Text Available This paper investigates the use of non-linear functions in classical Kalman filter algorithms on the improvement of regional weather forecasts. The main aim is the implementation of non linear polynomial mappings in a usual linear Kalman filter in order to simulate better non linear problems in numerical weather prediction. In addition, the optimal order of the polynomials applied for such a filter is identified. This work is based on observations and corresponding numerical weather predictions of two meteorological parameters characterized by essential differences in their evolution in time, namely, air temperature and wind speed. It is shown that in both cases, a polynomial of low order is adequate for eliminating any systematic error, while higher order functions lead to instabilities in the filtered results having, at the same time, trivial contribution to the sensitivity of the filter. It is further demonstrated that the filter is independent of the time period and the geographic location of application.

  4. Applications of Kalman filters based on non-linear functions to numerical weather predictions

    Directory of Open Access Journals (Sweden)

    G. Galanis

    2006-10-01

    Full Text Available This paper investigates the use of non-linear functions in classical Kalman filter algorithms on the improvement of regional weather forecasts. The main aim is the implementation of non linear polynomial mappings in a usual linear Kalman filter in order to simulate better non linear problems in numerical weather prediction. In addition, the optimal order of the polynomials applied for such a filter is identified. This work is based on observations and corresponding numerical weather predictions of two meteorological parameters characterized by essential differences in their evolution in time, namely, air temperature and wind speed. It is shown that in both cases, a polynomial of low order is adequate for eliminating any systematic error, while higher order functions lead to instabilities in the filtered results having, at the same time, trivial contribution to the sensitivity of the filter. It is further demonstrated that the filter is independent of the time period and the geographic location of application.

  5. Improving the Prediction of Total Surgical Procedure Time Using Linear Regression Modeling

    Directory of Open Access Journals (Sweden)

    Eric R. Edelman

    2017-06-01

    Full Text Available For efficient utilization of operating rooms (ORs, accurate schedules of assigned block time and sequences of patient cases need to be made. The quality of these planning tools is dependent on the accurate prediction of total procedure time (TPT per case. In this paper, we attempt to improve the accuracy of TPT predictions by using linear regression models based on estimated surgeon-controlled time (eSCT and other variables relevant to TPT. We extracted data from a Dutch benchmarking database of all surgeries performed in six academic hospitals in The Netherlands from 2012 till 2016. The final dataset consisted of 79,983 records, describing 199,772 h of total OR time. Potential predictors of TPT that were included in the subsequent analysis were eSCT, patient age, type of operation, American Society of Anesthesiologists (ASA physical status classification, and type of anesthesia used. First, we computed the predicted TPT based on a previously described fixed ratio model for each record, multiplying eSCT by 1.33. This number is based on the research performed by van Veen-Berkx et al., which showed that 33% of SCT is generally a good approximation of anesthesia-controlled time (ACT. We then systematically tested all possible linear regression models to predict TPT using eSCT in combination with the other available independent variables. In addition, all regression models were again tested without eSCT as a predictor to predict ACT separately (which leads to TPT by adding SCT. TPT was most accurately predicted using a linear regression model based on the independent variables eSCT, type of operation, ASA classification, and type of anesthesia. This model performed significantly better than the fixed ratio model and the method of predicting ACT separately. Making use of these more accurate predictions in planning and sequencing algorithms may enable an increase in utilization of ORs, leading to significant financial and productivity related

  6. Improving the Prediction of Total Surgical Procedure Time Using Linear Regression Modeling.

    Science.gov (United States)

    Edelman, Eric R; van Kuijk, Sander M J; Hamaekers, Ankie E W; de Korte, Marcel J M; van Merode, Godefridus G; Buhre, Wolfgang F F A

    2017-01-01

    For efficient utilization of operating rooms (ORs), accurate schedules of assigned block time and sequences of patient cases need to be made. The quality of these planning tools is dependent on the accurate prediction of total procedure time (TPT) per case. In this paper, we attempt to improve the accuracy of TPT predictions by using linear regression models based on estimated surgeon-controlled time (eSCT) and other variables relevant to TPT. We extracted data from a Dutch benchmarking database of all surgeries performed in six academic hospitals in The Netherlands from 2012 till 2016. The final dataset consisted of 79,983 records, describing 199,772 h of total OR time. Potential predictors of TPT that were included in the subsequent analysis were eSCT, patient age, type of operation, American Society of Anesthesiologists (ASA) physical status classification, and type of anesthesia used. First, we computed the predicted TPT based on a previously described fixed ratio model for each record, multiplying eSCT by 1.33. This number is based on the research performed by van Veen-Berkx et al., which showed that 33% of SCT is generally a good approximation of anesthesia-controlled time (ACT). We then systematically tested all possible linear regression models to predict TPT using eSCT in combination with the other available independent variables. In addition, all regression models were again tested without eSCT as a predictor to predict ACT separately (which leads to TPT by adding SCT). TPT was most accurately predicted using a linear regression model based on the independent variables eSCT, type of operation, ASA classification, and type of anesthesia. This model performed significantly better than the fixed ratio model and the method of predicting ACT separately. Making use of these more accurate predictions in planning and sequencing algorithms may enable an increase in utilization of ORs, leading to significant financial and productivity related benefits.

  7. Nonlinear gyrokinetic equations for low-frequency electromagnetic waves in general plasma equilibria

    International Nuclear Information System (INIS)

    Frieman, E.A.; Chen, L.

    1981-10-01

    A nonlinear gyrokinetic formalism for low-frequency (less than the cyclotron frequency) microscopic electromagnetic perturbations in general magnetic field configurations is developed. The nonlinear equations thus derived are valid in the strong-turbulence regime and contain effects due to finite Larmor radius, plasma inhomogeneities, and magentic field geometries. The specific case of axisymmetric tokamaks is then considered, and a model nonlinear equation is derived for electrostatic drift waves. Also, applying the formalism to the shear Alfven wave heating sceme, it is found that nonlinear ion Landau damping of kinetic shear-Alfven waves is modified, both qualitatively and quantitatively, by the diamagnetic drift effects. In particular, wave energy is found to cascade in wavenumber instead of frequency

  8. Linear and Non-linear Multi-Input Multi-Output Model Predictive Control of Continuous Stirred Tank Reactor

    Directory of Open Access Journals (Sweden)

    Muayad Al-Qaisy

    2015-02-01

    Full Text Available In this article, multi-input multi-output (MIMO linear model predictive controller (LMPC based on state space model and nonlinear model predictive controller based on neural network (NNMPC are applied on a continuous stirred tank reactor (CSTR. The idea is to have a good control system that will be able to give optimal performance, reject high load disturbance, and track set point change. In order to study the performance of the two model predictive controllers, MIMO Proportional-Integral-Derivative controller (PID strategy is used as benchmark. The LMPC, NNMPC, and PID strategies are used for controlling the residual concentration (CA and reactor temperature (T. NNMPC control shows a superior performance over the LMPC and PID controllers by presenting a smaller overshoot and shorter settling time.

  9. Towards the optimization of a gyrokinetic Particle-In-Cell (PIC) code on large-scale hybrid architectures

    International Nuclear Information System (INIS)

    Ohana, N; Lanti, E; Tran, T M; Brunner, S; Hariri, F; Villard, L; Jocksch, A; Gheller, C

    2016-01-01

    With the aim of enabling state-of-the-art gyrokinetic PIC codes to benefit from the performance of recent multithreaded devices, we developed an application from a platform called the “PIC-engine” [1, 2, 3] embedding simplified basic features of the PIC method. The application solves the gyrokinetic equations in a sheared plasma slab using B-spline finite elements up to fourth order to represent the self-consistent electrostatic field. Preliminary studies of the so-called Particle-In-Fourier (PIF) approach, which uses Fourier modes as basis functions in the periodic dimensions of the system instead of the real-space grid, show that this method can be faster than PIC for simulations with a small number of Fourier modes. Similarly to the PIC-engine, multiple levels of parallelism have been implemented using MPI+OpenMP [2] and MPI+OpenACC [1], the latter exploiting the computational power of GPUs without requiring complete code rewriting. It is shown that sorting particles [3] can lead to performance improvement by increasing data locality and vectorizing grid memory access. Weak scalability tests have been successfully run on the GPU-equipped Cray XC30 Piz Daint (at CSCS) up to 4,096 nodes. The reduced time-to-solution will enable more realistic and thus more computationally intensive simulations of turbulent transport in magnetic fusion devices. (paper)

  10. Kinetic simulations of neoclassical and anomalous transport processes in helical systems

    International Nuclear Information System (INIS)

    Sugama, Hideo; Watanabe, Tomohiko; Nunami, Masanori; Satake, Shinsuke; Matsuoka, Seikichi; Tanaka, Kenji

    2012-01-01

    Drift kinetic and gyrokinetic theories and simulations are powerful means for quantitative predictions of neoclassical and anomalous transport fluxes in helical systems such as the Large Helical Device (LHD). The δf Monte Carlo particle simulation code, FORTEC-3D, is used to predict radial profiles of the neoclassical particle and heat transport fluxes and the radial electric field in helical systems. The radial electric field profiles in the LHD plasmas are calculated from the ambipolarity condition for the neoclassical particle fluxes obtained by the global simulations using the FORTEC-3D code, in which effects of ion or electron finite orbit widths are included. Gyrokinetic Vlasov simulations using the GKV code verify the theoretical prediction that the neoclassical optimization of helical magnetic configuration enhances the zonal flow generation which leads to the reduction of the turbulent heat diffusivity χ i due to the ion temperature gradient (ITG) turbulence. Comparisons between results for the high ion temperature LHD experiment and the gyrokinetic simulations using the GKV-X code show that the χ i profile and the poloidal wave number spectrum of the density fluctuation obtained from the simulations are in reasonable agreements with the experimental results. It is predicted theoretically and confirmed by the linear GKV simulations that the E × B rotation due to the background radial electric field E r can enhance the zonal-flow response to a given source. Thus, in helical systems, the turbulent transport is linked to the neoclassical transport through E r which is determined from the ambipolar condition for neoclassical particle fluxes and influences the zonal flow generation leading to reduction of the turbulent transport. In order to investigate the E r effect on the regulation of the turbulent transport by the zonal flow generation, the flux-tube bundle model is proposed as a new method for multiscale gyrokinetic simulations. (author)

  11. Benchmark studies of the gyro-Landau-fluid code and gyro-kinetic codes on kinetic ballooning modes

    Energy Technology Data Exchange (ETDEWEB)

    Tang, T. F. [Dalian University of Technology, Dalian 116024 (China); Lawrence Livermore National Laboratory, Livermore, California 94550 (United States); Xu, X. Q. [Lawrence Livermore National Laboratory, Livermore, California 94550 (United States); Ma, C. H. [Fusion Simulation Center, School of Physics, Peking University, Beijing (China); Bass, E. M.; Candy, J. [General Atomics, P.O. Box 85608, San Diego, California 92186-5608 (United States); Holland, C. [University of California San Diego, La Jolla, California 92093-0429 (United States)

    2016-03-15

    A Gyro-Landau-Fluid (GLF) 3 + 1 model has been recently implemented in BOUT++ framework, which contains full Finite-Larmor-Radius effects, Landau damping, and toroidal resonance [Ma et al., Phys. Plasmas 22, 055903 (2015)]. A linear global beta scan has been conducted using the JET-like circular equilibria (cbm18 series), showing that the unstable modes are kinetic ballooning modes (KBMs). In this work, we use the GYRO code, which is a gyrokinetic continuum code widely used for simulation of the plasma microturbulence, to benchmark with GLF 3 + 1 code on KBMs. To verify our code on the KBM case, we first perform the beta scan based on “Cyclone base case parameter set.” We find that the growth rate is almost the same for two codes, and the KBM mode is further destabilized as beta increases. For JET-like global circular equilibria, as the modes localize in peak pressure gradient region, a linear local beta scan using the same set of equilibria has been performed at this position for comparison. With the drift kinetic electron module in the GYRO code by including small electron-electron collision to damp electron modes, GYRO generated mode structures and parity suggest that they are kinetic ballooning modes, and the growth rate is comparable to the GLF results. However, a radial scan of the pedestal for a particular set of cbm18 equilibria, using GYRO code, shows different trends for the low-n and high-n modes. The low-n modes show that the linear growth rate peaks at peak pressure gradient position as GLF results. However, for high-n modes, the growth rate of the most unstable mode shifts outward to the bottom of pedestal and the real frequency of what was originally the KBMs in ion diamagnetic drift direction steadily approaches and crosses over to the electron diamagnetic drift direction.

  12. Gyrokinetic analysis of ion temperature gradient modes in the presence of sheared flows

    International Nuclear Information System (INIS)

    Artun, M.; Tang, W.M.

    1992-01-01

    The linearized gyrokinetic equation governing electrostatic microinstabilities in the presence of sheared equilibrium flow in both the z and y directions has been systematically derived for a sheared slab geometry, where in the large aspect ratio limit z and y directions correspond to the toroidal and poloidal directions respectively. In the familiar long perpendicular wavelength regime (κ perpendicular ρi > 1), the analysis leads to a comprehensive kinetic differential eigenmode equation which is solved numerically. The numerical results have been successfully cross-checked against analytic estimates in the fluid limit. For typical conditions, the Ion Temperature Gradient (ηi) modes are found to be stabilized for y-direction flows with a velocity shear scale comparable to that of the ion temperature gradient and velocities of a few percent of the sound speed. Sheared flows in the z-direction taken along are usually destabilizing, with the effect being independent of the sign of the flow. However, when both types are simultaneously considered, it is found that in the presence of shared z-direction flow, sheared y-direction flow can be either stabilizing or destabilizing depending on the relative sign of these flows. However, for sufficiently large values of υ' y the mode is completely stabilized regardless of the sign of υ' z υ' y . The importance of a proper kinetic treatment of this problem is supported by comparisons with fluid estimates. In particular, when such effects are favorable, significantly smaller values of sheared y-direction flow are required for stability than fluid estimates would indicate

  13. Investigating the radial structure of axisymmetric fluctuations in the TCV tokamak with local and global gyrokinetic GENE simulations

    Science.gov (United States)

    Merlo, G.; Brunner, S.; Huang, Z.; Coda, S.; Görler, T.; Villard, L.; Bañón Navarro, A.; Dominski, J.; Fontana, M.; Jenko, F.; Porte, L.; Told, D.

    2018-03-01

    Axisymmetric (n = 0) density fluctuations measured in the TCV tokamak are observed to possess a frequency f 0 which is either varying (radially dispersive oscillations) or a constant over a large fraction of the plasma minor radius (radially global oscillations) as reported in a companion paper (Z Huang et al, this issue). Given that f 0 scales with the sound speed and given the poloidal structure of density fluctuations, these oscillations were interpreted as Geodesic Acoustic Modes, even though f 0 is in fact smaller than the local linear GAM frequency {f}{GAM}. In this work we employ the Eulerian gyrokinetic code GENE to simulate TCV relevant conditions and investigate the nature and properties of these oscillations, in particular their relation to the safety factor profile. Local and global simulations are carried out and a good qualitative agreement is observed between experiments and simulations. By varying also the plasma temperature and density profiles, we conclude that a variation of the edge safety factor alone is not sufficient to induce a transition from global to radially inhomogeneous oscillations, as was initially suggested by experimental results. This transition appears instead to be the combined result of variations in the different plasma profiles, collisionality and finite machine size effects. Simulations also show that radially global GAM-like oscillations can be observed in all fluxes and fluctuation fields, suggesting that they are the result of a complex nonlinear process involving also finite toroidal mode numbers and not just linear global GAM eigenmodes.

  14. Genomic prediction based on data from three layer lines using non-linear regression models

    NARCIS (Netherlands)

    Huang, H.; Windig, J.J.; Vereijken, A.; Calus, M.P.L.

    2014-01-01

    Background - Most studies on genomic prediction with reference populations that include multiple lines or breeds have used linear models. Data heterogeneity due to using multiple populations may conflict with model assumptions used in linear regression methods. Methods - In an attempt to alleviate

  15. Electromagnetic Transport From Microtearing Mode Turbulence

    International Nuclear Information System (INIS)

    Guttenfelder, W.; Candy, J.; Kaye, S.M.; Nevins, W.M.; Wang, E.; Bell, R.E.; Hammett, G.W.; LeBlanc, B.P.; Mikkelsen, D.R.; Yuh, H.

    2011-01-01

    This Letter presents non-linear gyrokinetic simulations of microtearing mode turbulence. The simulations include collisional and electromagnetic effects and use experimental parameters from a high beta discharge in the National Spherical Torus Experiment (NSTX). The predicted electron thermal transport is comparable to that given by experimental analysis, and it is dominated by the electromagnetic contribution of electrons free streaming along the resulting stochastic magnetic field line trajectories. Experimental values of flow shear can significantly reduce the predicted transport.

  16. Numerical and Theoretical Studies of Turbulence and Transport with E x B Shear Flows

    International Nuclear Information System (INIS)

    Krommes, J.A.; Chance, M.S.; Hahm, T.S.; Lin, Z.

    1999-01-01

    This paper reports: (1) substantial transport reduction by turbulence-driven E x B flows observed in 3D nonlinear gyrokinetic simulations of microturbulence in magnetically-confined toroidal plasmas; (2) analytical derivation of the effective shearing rate for the time-dependent E x B flow; (3) interpretation of experimental data using linear gyrokinetic microinstability rotation models of E x B shear; and (4) other developments in gyrokinetic theory and simulation

  17. Iterated non-linear model predictive control based on tubes and contractive constraints.

    Science.gov (United States)

    Murillo, M; Sánchez, G; Giovanini, L

    2016-05-01

    This paper presents a predictive control algorithm for non-linear systems based on successive linearizations of the non-linear dynamic around a given trajectory. A linear time varying model is obtained and the non-convex constrained optimization problem is transformed into a sequence of locally convex ones. The robustness of the proposed algorithm is addressed adding a convex contractive constraint. To account for linearization errors and to obtain more accurate results an inner iteration loop is added to the algorithm. A simple methodology to obtain an outer bounding-tube for state trajectories is also presented. The convergence of the iterative process and the stability of the closed-loop system are analyzed. The simulation results show the effectiveness of the proposed algorithm in controlling a quadcopter type unmanned aerial vehicle. Copyright © 2016 ISA. Published by Elsevier Ltd. All rights reserved.

  18. Gyrokinetic theory and dynamics of the tokamak edge

    Energy Technology Data Exchange (ETDEWEB)

    Scott, B. [Max-Planck-Institut fuer Plasmaphysik, Garching (Germany)

    2016-08-15

    The validity of modern gyrokinetic field theory is assessed for the tokamak edge. The basic structure of the Lagrangian and resulting equations and their conservation laws is reviewed. The conventional microturbulence ordering for expansion is small potential/arbitrary wavelength. The equilibrium ordering for expansion is long wavelength/arbitrary amplitude. The long-wavelength form of the conventional Lagrangian is derived in detail. The two Lagrangians are shown to match at long wavelength if the E x B Mach number is small enough for its corrections to the gyroaveraging to be neglected. Therefore, the conventional derivation and its Lagrangian can be used at all wavelengths if these conditions are satisfied. Additionally, dynamical compressibility of the magnetic field can be neglected if the plasma beta is small. This allows general use of a shear-Alfven Lagrangian for edge turbulence and self consistent equilibrium-scale phenomena for flows, currents, and heat fluxes for conventional tokamaks without further modification by higher-order terms. Corrections in polarisation and toroidal angular momentum transport due to these higher-order terms for global edge turbulence computations are shown to be small. (copyright 2016 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim)

  19. Bayesian prediction of spatial count data using generalized linear mixed models

    DEFF Research Database (Denmark)

    Christensen, Ole Fredslund; Waagepetersen, Rasmus Plenge

    2002-01-01

    Spatial weed count data are modeled and predicted using a generalized linear mixed model combined with a Bayesian approach and Markov chain Monte Carlo. Informative priors for a data set with sparse sampling are elicited using a previously collected data set with extensive sampling. Furthermore, ...

  20. Nonlinear gyrokinetics: a powerful tool for the description of microturbulence in magnetized plasmas

    International Nuclear Information System (INIS)

    Krommes, John A

    2010-01-01

    Gyrokinetics is the description of low-frequency dynamics in magnetized plasmas. In magnetic-confinement fusion, it provides the most fundamental basis for numerical simulations of microturbulence; there are astrophysical applications as well. In this tutorial, a sketch of the derivation of the novel dynamical system comprising the nonlinear gyrokinetic (GK) equation (GKE) and the coupled electrostatic GK Poisson equation will be given by using modern Lagrangian and Lie perturbation methods. No background in plasma physics is required in order to appreciate the logical development. The GKE describes the evolution of an ensemble of gyrocenters moving in a weakly inhomogeneous background magnetic field and in the presence of electromagnetic perturbations with wavelength of the order of the ion gyroradius. Gyrocenters move with effective drifts, which may be obtained by an averaging procedure that systematically, order by order, removes gyrophase dependence. To that end, the use of the Lagrangian differential one-form as well as the content and advantages of Lie perturbation theory will be explained. The electromagnetic fields follow via Maxwell's equations from the charge and current density of the particles. Particle and gyrocenter densities differ by an important polarization effect. That is calculated formally by a 'pull-back' (a concept from differential geometry) of the gyrocenter distribution to the laboratory coordinate system. A natural truncation then leads to the closed GK dynamical system. Important properties such as GK energy conservation and fluctuation noise will be mentioned briefly, as will the possibility (and difficulties) of deriving nonlinear gyrofluid equations suitable for rapid numerical solution-although it is probably best to directly simulate the GKE. By the end of the tutorial, students should appreciate the GKE as an extremely powerful tool and will be prepared for later lectures describing its applications to physical problems.

  1. Nonlinear Gyrokinetics: A Powerful Tool for the Description of Microturbulence in Magnetized Plasmas

    International Nuclear Information System (INIS)

    Krommes, John E.

    2010-01-01

    Gyrokinetics is the description of low-frequency dynamics in magnetized plasmas. In magnetic-confinement fusion, it provides the most fundamental basis for numerical simulations of microturbulence; there are astrophysical applications as well. In this tutorial, a sketch of the derivation of the novel dynamical system comprising the nonlinear gyrokinetic (GK) equation (GKE) and the coupled electrostatic GK Poisson equation will be given by using modern Lagrangian and Lie perturbation methods. No background in plasma physics is required in order to appreciate the logical development. The GKE describes the evolution of an ensemble of gyrocenters moving in a weakly inhomogeneous background magnetic field and in the presence of electromagnetic perturbations with wavelength of the order of the ion gyroradius. Gyrocenters move with effective drifts, which may be obtained by an averaging procedure that systematically, order by order, removes gyrophase dependence. To that end, the use of the Lagrangian differential one-form as well as the content and advantages of Lie perturbation theory will be explained. The electromagnetic fields follow via Maxwell's equations from the charge and current density of the particles. Particle and gyrocenter densities differ by an important polarization effect. That is calculated formally by a 'pull-back' (a concept from differential geometry) of the gyrocenter distribution to the laboratory coordinate system. A natural truncation then leads to the closed GK dynamical system. Important properties such as GK energy conservation and fluctuation noise will be mentioned briefly, as will the possibility (and diffculties) of deriving nonlinear gyro fluid equations suitable for rapid numerical solution - although it is probably best to directly simulate the GKE. By the end of the tutorial, students should appreciate the GKE as an extremely powerful tool and will be prepared for later lectures describing its applications to physical problems.

  2. Financial Distress Prediction using Linear Discriminant Analysis and Support Vector Machine

    Science.gov (United States)

    Santoso, Noviyanti; Wibowo, Wahyu

    2018-03-01

    A financial difficulty is the early stages before the bankruptcy. Bankruptcies caused by the financial distress can be seen from the financial statements of the company. The ability to predict financial distress became an important research topic because it can provide early warning for the company. In addition, predicting financial distress is also beneficial for investors and creditors. This research will be made the prediction model of financial distress at industrial companies in Indonesia by comparing the performance of Linear Discriminant Analysis (LDA) and Support Vector Machine (SVM) combined with variable selection technique. The result of this research is prediction model based on hybrid Stepwise-SVM obtains better balance among fitting ability, generalization ability and model stability than the other models.

  3. Study of the L-mode tokamak plasma “shortfall” with local and global nonlinear gyrokinetic δf particle-in-cell simulation

    Energy Technology Data Exchange (ETDEWEB)

    Chowdhury, J.; Wan, Weigang; Chen, Yang; Parker, Scott E. [Department of Physics, University of Colorado, Boulder, Colorado 80309 (United States); Groebner, Richard J. [General Atomics, Post Office Box 85068, San Diego, California 92186 (United States); Holland, C. [University of California at San Diego, La Jolla, California 92093 (United States); Howard, N. T. [Oak Ridge Institute for Science and Education (ORISE), Oak Ridge, Tennessee 37831 (United States)

    2014-11-15

    The δ f particle-in-cell code GEM is used to study the transport “shortfall” problem of gyrokinetic simulations. In local simulations, the GEM results confirm the previously reported simulation results of DIII-D [Holland et al., Phys. Plasmas 16, 052301 (2009)] and Alcator C-Mod [Howard et al., Nucl. Fusion 53, 123011 (2013)] tokamaks with the continuum code GYRO. Namely, for DIII-D the simulations closely predict the ion heat flux at the core, while substantially underpredict transport towards the edge; while for Alcator C-Mod, the simulations show agreement with the experimental values of ion heat flux, at least within the range of experimental error. Global simulations are carried out for DIII-D L-mode plasmas to study the effect of edge turbulence on the outer core ion heat transport. The edge turbulence enhances the outer core ion heat transport through turbulence spreading. However, this edge turbulence spreading effect is not enough to explain the transport underprediction.

  4. ADVANCES IN COMPREHENSIVE GYROKINETIC SIMULATIONS OF TRANSPORT IN TOKAMAKS

    International Nuclear Information System (INIS)

    WALTZ, RE; CANDY, J; HINTON, FL; ESTRADA-MILA, C; KINSEY, JE.

    2004-01-01

    A continuum global gyrokinetic code GYRO has been developed to comprehensively simulate core turbulent transport in actual experimental profiles and enable direct quantitative comparisons to the experimental transport flows. GYRO not only treats the now standard ion temperature gradient (ITG) mode turbulence, but also treats trapped and passing electrons with collisions and finite β, equilibrium ExB shear stabilization, and all in real tokamak geometry. Most importantly the code operates at finite relative gyroradius (ρ * ) so as to treat the profile shear stabilization and nonlocal effects which can break gyroBohm scaling. The code operates in either a cyclic flux-tube limit (which allows only gyroBohm scaling) or a globally with physical profile variation. Rohm scaling of DIII-D L-mode has been simulated with power flows matching experiment within error bars on the ion temperature gradient. Mechanisms for broken gyroBohm scaling, neoclassical ion flows embedded in turbulence, turbulent dynamos and profile corrugations, plasma pinches and impurity flow, and simulations at fixed flow rather than fixed gradient are illustrated and discussed

  5. Using NCAP to predict RFI effects in linear bipolar integrated circuits

    Science.gov (United States)

    Fang, T.-F.; Whalen, J. J.; Chen, G. K. C.

    1980-11-01

    Applications of the Nonlinear Circuit Analysis Program (NCAP) to calculate RFI effects in electronic circuits containing discrete semiconductor devices have been reported upon previously. The objective of this paper is to demonstrate that the computer program NCAP also can be used to calcuate RFI effects in linear bipolar integrated circuits (IC's). The IC's reported upon are the microA741 operational amplifier (op amp) which is one of the most widely used IC's, and a differential pair which is a basic building block in many linear IC's. The microA741 op amp was used as the active component in a unity-gain buffer amplifier. The differential pair was used in a broad-band cascode amplifier circuit. The computer program NCAP was used to predict how amplitude-modulated RF signals are demodulated in the IC's to cause undesired low-frequency responses. The predicted and measured results for radio frequencies in the 0.050-60-MHz range are in good agreement.

  6. Predicting recovery of cognitive function soon after stroke: differential modeling of logarithmic and linear regression.

    Science.gov (United States)

    Suzuki, Makoto; Sugimura, Yuko; Yamada, Sumio; Omori, Yoshitsugu; Miyamoto, Masaaki; Yamamoto, Jun-ichi

    2013-01-01

    Cognitive disorders in the acute stage of stroke are common and are important independent predictors of adverse outcome in the long term. Despite the impact of cognitive disorders on both patients and their families, it is still difficult to predict the extent or duration of cognitive impairments. The objective of the present study was, therefore, to provide data on predicting the recovery of cognitive function soon after stroke by differential modeling with logarithmic and linear regression. This study included two rounds of data collection comprising 57 stroke patients enrolled in the first round for the purpose of identifying the time course of cognitive recovery in the early-phase group data, and 43 stroke patients in the second round for the purpose of ensuring that the correlation of the early-phase group data applied to the prediction of each individual's degree of cognitive recovery. In the first round, Mini-Mental State Examination (MMSE) scores were assessed 3 times during hospitalization, and the scores were regressed on the logarithm and linear of time. In the second round, calculations of MMSE scores were made for the first two scoring times after admission to tailor the structures of logarithmic and linear regression formulae to fit an individual's degree of functional recovery. The time course of early-phase recovery for cognitive functions resembled both logarithmic and linear functions. However, MMSE scores sampled at two baseline points based on logarithmic regression modeling could estimate prediction of cognitive recovery more accurately than could linear regression modeling (logarithmic modeling, R(2) = 0.676, PLogarithmic modeling based on MMSE scores could accurately predict the recovery of cognitive function soon after the occurrence of stroke. This logarithmic modeling with mathematical procedures is simple enough to be adopted in daily clinical practice.

  7. Global approach to the spectral problem of microinstabilities in tokamak plasmas using a gyrokinetic model

    International Nuclear Information System (INIS)

    Brunner, S.

    1997-08-01

    Ion temperature gradient (ITG)-related instabilities are studied in tokamak-like plasmas with the help of a new global eigenvalue code. Ions are modelled in the frame of gyrokinetic theory so that finite Larmor radius effects of these particles are retained to all orders. Non-adiabatic trapped electron dynamics is taken into account through the bounce-averaged drift kinetic equation. Assuming electrostatic perturbations, the system is closed with the quasineutrality relation. Practical methods are presented which make this global approach feasible. These include a non-standard wave decomposition compatible with the curved geometry as well as adapting an efficient root finding algorithm for computing the unstable spectrum. These techniques are applied to a low pressure configuration given by a large aspect ratio torus with circular, concentric magnetic surfaces. Simulations from a linear, time evolution, particle in cell code provide a useful benchmark. Comparisons with local ballooning calculations for different parameter scans enable further validation while illustrating the limits of that representation at low toroidal wave numbers or for non-interchange-like instabilities. The stabilizing effect of negative magnetic shear is also considered, in which case the global results show not only an attenuation of the growth rate but also a reduction of the radial extent induced by a transition from the toroidal- to the slab-ITG mode. Contributions of trapped electrons to the ITG instability as well as the possible coupling to the trapped electron mode are clearly brought to the fore. (author) figs., tabs., 69 refs

  8. Simulation of microtearing turbulence in national spherical torus experiment

    Energy Technology Data Exchange (ETDEWEB)

    Guttenfelder, W.; Kaye, S. M.; Bell, R. E.; Hammett, G. W.; LeBlanc, B. P.; Mikkelsen, D. R.; Ren, Y. [Princeton Plasma Physics Laboratory, Princeton New Jersey 08543 (United States); Candy, J. [General Atomics, San Diego, California 92186 (United States); Nevins, W. M.; Wang, E. [Lawrence Livermore National Laboratory, Livermore, California 04551 (United States); Zhang, J.; Crocker, N. A. [University of California Los Angeles, California 90095 (United States); Yuh, H. [Nova Photonics Inc., Princeton, New Jersey 08540 (United States)

    2012-05-15

    Thermal energy confinement times in National Spherical Torus Experiment (NSTX) dimensionless parameter scans increase with decreasing collisionality. While ion thermal transport is neoclassical, the source of anomalous electron thermal transport in these discharges remains unclear, leading to considerable uncertainty when extrapolating to future spherical tokamak (ST) devices at much lower collisionality. Linear gyrokinetic simulations find microtearing modes to be unstable in high collisionality discharges. First non-linear gyrokinetic simulations of microtearing turbulence in NSTX show they can yield experimental levels of transport. Magnetic flutter is responsible for almost all the transport ({approx}98%), perturbed field line trajectories are globally stochastic, and a test particle stochastic transport model agrees to within 25% of the simulated transport. Most significantly, microtearing transport is predicted to increase with electron collisionality, consistent with the observed NSTX confinement scaling. While this suggests microtearing modes may be the source of electron thermal transport, the predictions are also very sensitive to electron temperature gradient, indicating the scaling of the instability threshold is important. In addition, microtearing turbulence is susceptible to suppression via sheared E Multiplication-Sign B flows as experimental values of E Multiplication-Sign B shear (comparable to the linear growth rates) dramatically reduce the transport below experimental values. Refinements in numerical resolution and physics model assumptions are expected to minimize the apparent discrepancy. In cases where the predicted transport is strong, calculations suggest that a proposed polarimetry diagnostic may be sensitive to the magnetic perturbations associated with the unique structure of microtearing turbulence.

  9. Simulation Of Microtearing Turbulence In NSTX

    International Nuclear Information System (INIS)

    Guttenfelder, W.; Candy, J.; Kaye, S.M.; Nevins, W.M.; Wanag, E.; Zhang, J.; Bell, R.E.; Crocker, N.A.; Hammett, G.W.; LeBlanc, B.P.; Mikkelsen, D.R.; Ren, Y.; Yuh, H.

    2012-01-01

    Thermal energy confinement times in NSTX dimensionless parameter scans increase with decreasing collisionality. While ion thermal transport is neoclassical, the source of anomalous electron thermal transport in these discharges remains unclear, leading to considerable uncertainty when extrapolating to future ST devices at much lower collisionality. Linear gyrokinetic simulations find microtearing modes to be unstable in high collisionality discharges. First non-linear gyrokinetic simulations of microtearing turbulence in NSTX show they can yield experimental levels of transport. Magnetic flutter is responsible for almost all the transport (∼98%), perturbed field line trajectories are globally stochastic, and a test particle stochastic transport model agrees to within 25% of the simulated transport. Most significantly, microtearing transport is predicted to increase with electron collisionality, consistent with the observed NSTX confinement scaling. While this suggests microtearing modes may be the source of electron thermal transport, the predictions are also very sensitive to electron temperature gradient, indicating the scaling of the instability threshold is important. In addition, microtearing turbulence is susceptible to suppression via sheared E-B flows as experimental values of E-B shear (comparable to the linear growth rates) dramatically reduce the transport below experimental values. Refinements in numerical resolution and physics model assumptions are expected to minimize the apparent discrepancy. In cases where the predicted transport is strong, calculations suggest that a proposed polarimetry diagnostic may be sensitive to the magnetic perturbations associated with the unique structure of microtearing turbulence.

  10. Linear filters as a method of real-time prediction of geomagnetic activity

    International Nuclear Information System (INIS)

    McPherron, R.L.; Baker, D.N.; Bargatze, L.F.

    1985-01-01

    Important factors controlling geomagnetic activity include the solar wind velocity, the strength of the interplanetary magnetic field (IMF), and the field orientation. Because these quantities change so much in transit through the solar wind, real-time monitoring immediately upstream of the earth provides the best input for any technique of real-time prediction. One such technique is linear prediction filtering which utilizes past histories of the input and output of a linear system to create a time-invariant filter characterizing the system. Problems of nonlinearity or temporal changes of the system can be handled by appropriate choice of input parameters and piecewise approximation in various ranges of the input. We have created prediction filters for all the standard magnetic indices and tested their efficiency. The filters show that the initial response of the magnetosphere to a southward turning of the IMF peaks in 20 minutes and then again in 55 minutes. After a northward turning, auroral zone indices and the midlatitude ASYM index return to background within 2 hours, while Dst decays exponentially with a time constant of about 8 hours. This paper describes a simple, real-time system utilizing these filters which could predict a substantial fraction of the variation in magnetic activity indices 20 to 50 minutes in advance

  11. Model for predicting non-linear crack growth considering load sequence effects (LOSEQ)

    International Nuclear Information System (INIS)

    Fuehring, H.

    1982-01-01

    A new analytical model for predicting non-linear crack growth is presented which takes into account the retardation as well as the acceleration effects due to irregular loading. It considers not only the maximum peak of a load sequence to effect crack growth but also all other loads of the history according to a generalised memory criterion. Comparisons between crack growth predicted by using the LOSEQ-programme and experimentally observed data are presented. (orig.) [de

  12. Multiscale gyrokinetics for rotating tokamak plasmas: fluctuations, transport and energy flows.

    Science.gov (United States)

    Abel, I G; Plunk, G G; Wang, E; Barnes, M; Cowley, S C; Dorland, W; Schekochihin, A A

    2013-11-01

    This paper presents a complete theoretical framework for studying turbulence and transport in rapidly rotating tokamak plasmas. The fundamental scale separations present in plasma turbulence are codified as an asymptotic expansion in the ratio ε = ρi/α of the gyroradius to the equilibrium scale length. Proceeding order by order in this expansion, a set of coupled multiscale equations is developed. They describe an instantaneous equilibrium, the fluctuations driven by gradients in the equilibrium quantities, and the transport-timescale evolution of mean profiles of these quantities driven by the interplay between the equilibrium and the fluctuations. The equilibrium distribution functions are local Maxwellians with each flux surface rotating toroidally as a rigid body. The magnetic equilibrium is obtained from the generalized Grad-Shafranov equation for a rotating plasma, determining the magnetic flux function from the mean pressure and velocity profiles of the plasma. The slow (resistive-timescale) evolution of the magnetic field is given by an evolution equation for the safety factor q. Large-scale deviations of the distribution function from a Maxwellian are given by neoclassical theory. The fluctuations are determined by the 'high-flow' gyrokinetic equation, from which we derive the governing principle for gyrokinetic turbulence in tokamaks: the conservation and local (in space) cascade of the free energy of the fluctuations (i.e. there is no turbulence spreading). Transport equations for the evolution of the mean density, temperature and flow velocity profiles are derived. These transport equations show how the neoclassical and fluctuating corrections to the equilibrium Maxwellian act back upon the mean profiles through fluxes and heating. The energy and entropy conservation laws for the mean profiles are derived from the transport equations. Total energy, thermal, kinetic and magnetic, is conserved and there is no net turbulent heating. Entropy is produced

  13. Center for Gyrokinetic/MHD Hybrid Simulation of Energetic Particle Physics in Toroidal Plasmas (CSEPP). Final report

    International Nuclear Information System (INIS)

    Chen, Yang

    2012-01-01

    At Colorado University-Boulder the primary task is to extend our gyrokinetic Particle-in-Cell simulation of tokamak micro-turbulence and transport to the area of energetic particle physics. We have implemented a gyrokinetic ion/massless fluid electron hybrid model in the global δf-PIC code GEM, and benchmarked the code with analytic results on the thermal ion radiative damping rate of Toroidal Alfven Eigenmodes (TAE) and with mode frequency and spatial structure from eigenmode analysis. We also performed nonlinear simulations of both a single-n mode (n is the toroidal mode number) and multiple-n modes, and in the case of single-n, benchmarked the code on the saturation amplitude vs. particle collision rate with analytical theory. Most simulations use the f method for both ions species, but we have explored the full-f method for energetic particles in cases where the burst amplitude of the excited instabilities is large as to cause significant re-distribution or loss of the energetic particles. We used the hybrid model to study the stability of high-n TAEs in ITER. Our simulations show that the most unstable modes in ITER lie in the rage of 10 α (0) = 0.7% for the fully shaped ITER equilibrium. We also carried nonlinear simulations of the most unstable n = 15 mode and found that the saturation amplitude for the nominal ITER discharge is too low to cause large redistribution or loss of alpha particles. To include kinetic electron effects in the hybrid model we have studied a kinetic electron closure scheme for the fluid electron model. The most important element of the closure scheme is a complete Ohm's law for the parallel electric field E || , derived by combining the quasi-neutrality condition, the Ampere's equation and the v || moment of the gyrokinetic equations. A discretization method for the closure scheme is studied in detail for a three-dimensional shear-less slab plasma. It is found that for long-wavelength shear Alfven waves the kinetic closure scheme

  14. EURATOM-CEA association. Controlled fusion. Management committee nr 79. Activity report. National collaborations (Universities and CNRS). November 2007 - October 2005

    International Nuclear Information System (INIS)

    Garbet, X.; Benkadda, S.; Ottaviani, M.; Escande, D.; Blum, J.; Brenier, Y.; Lutjens, H.; Ghendrih, Ph.; Lima, R.; Bertrand, P.; Firpo, M.C.

    2005-12-01

    This publication presents several research projects on controlled fusion lead in collaboration by CNRS and academic teams. The general framework of these projects concerns theoretical developments in gyro-kinetics, transport and equilibrium to develop the required tools for the modelling of fusing plasmas. It comprises a study of characterisation and control of turbulent transport in tokamak plasmas, a study on the magnetic self-organisation of fusing plasmas, a gyro-kinetic modelling of tokamak plasmas, a study of identification and optimal control of plasma equilibrium in a tokamak, a gyrokinetic approach to the Vlasov equation, a study of the linear and non linear dynamics of instability modes in a tokamak plasma by using the model of extended magnetohydrodynamics, a study of the control of turbulence in magnetic fusion plasmas, and a study of the non linear regime of the n=1, m=1 mode

  15. Application of linear and non-linear low-Re k-ε models in two-dimensional predictions of convective heat transfer in passages with sudden contractions

    International Nuclear Information System (INIS)

    Raisee, M.; Hejazi, S.H.

    2007-01-01

    This paper presents comparisons between heat transfer predictions and measurements for developing turbulent flow through straight rectangular channels with sudden contractions at the mid-channel section. The present numerical results were obtained using a two-dimensional finite-volume code which solves the governing equations in a vertical plane located at the lateral mid-point of the channel. The pressure field is obtained with the well-known SIMPLE algorithm. The hybrid scheme was employed for the discretization of convection in all transport equations. For modeling of the turbulence, a zonal low-Reynolds number k-ε model and the linear and non-linear low-Reynolds number k-ε models with the 'Yap' and 'NYP' length-scale correction terms have been employed. The main objective of present study is to examine the ability of the above turbulence models in the prediction of convective heat transfer in channels with sudden contraction at a mid-channel section. The results of this study show that a sudden contraction creates a relatively small recirculation bubble immediately downstream of the channel contraction. This separation bubble influences the distribution of local heat transfer coefficient and increases the heat transfer levels by a factor of three. Computational results indicate that all the turbulence models employed produce similar flow fields. The zonal k-ε model produces the wrong Nusselt number distribution by underpredicting heat transfer levels in the recirculation bubble and overpredicting them in the developing region. The linear low-Re k-ε model, on the other hand, returns the correct Nusselt number distribution in the recirculation region, although it somewhat overpredicts heat transfer levels in the developing region downstream of the separation bubble. The replacement of the 'Yap' term with the 'NYP' term in the linear low-Re k-ε model results in a more accurate local Nusselt number distribution. Moreover, the application of the non-linear k

  16. Comparison of Linear Prediction Models for Audio Signals

    Directory of Open Access Journals (Sweden)

    2009-03-01

    Full Text Available While linear prediction (LP has become immensely popular in speech modeling, it does not seem to provide a good approach for modeling audio signals. This is somewhat surprising, since a tonal signal consisting of a number of sinusoids can be perfectly predicted based on an (all-pole LP model with a model order that is twice the number of sinusoids. We provide an explanation why this result cannot simply be extrapolated to LP of audio signals. If noise is taken into account in the tonal signal model, a low-order all-pole model appears to be only appropriate when the tonal components are uniformly distributed in the Nyquist interval. Based on this observation, different alternatives to the conventional LP model can be suggested. Either the model should be changed to a pole-zero, a high-order all-pole, or a pitch prediction model, or the conventional LP model should be preceded by an appropriate frequency transform, such as a frequency warping or downsampling. By comparing these alternative LP models to the conventional LP model in terms of frequency estimation accuracy, residual spectral flatness, and perceptual frequency resolution, we obtain several new and promising approaches to LP-based audio modeling.

  17. Gyrokinetic Calculations of Microturbulence and Transport for NSTX and Alcator-CMOD H-modes

    International Nuclear Information System (INIS)

    Redi, M.H.; Dorland, W.; Bell, R.; Bonoli, P.; Bourdelle, C.; Candy, J.; Ernst, D.; Fiore, C.; Gates, D.; Hammett, G.; Hill, K.; Kaye, S.; LeBlanc, B.; Menard, J.; Mikkelsen, D.; Rewoldt, G.; Rice, J.; Waltz, R.; Wukitch, S.

    2003-01-01

    Recent H-mode experiments on NSTX [National Spherical Torus Experiment] and experiments on Alcator-CMOD, which also exhibit internal transport barriers (ITB), have been examined with gyrokinetic simulations with the GS2 and GYRO codes to identify the underlying key plasma parameters for control of plasma performance and, ultimately, the successful operation of future reactors such as ITER [International Thermonuclear Experimental Reactor]. On NSTX the H-mode is characterized by remarkably good ion confinement and electron temperature profiles highly resilient in time. On CMOD, an ITB with a very steep electron density profile develops following off-axis radio-frequency heating and establishment of H-mode. Both experiments exhibit ion thermal confinement at the neoclassical level. Electron confinement is also good in the CMOD core

  18. Reduced model prediction of electron temperature profiles in microtearing-dominated National Spherical Torus eXperiment plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Kaye, S. M., E-mail: skaye@pppl.gov; Guttenfelder, W.; Bell, R. E.; Gerhardt, S. P.; LeBlanc, B. P.; Maingi, R. [Princeton Plasma Physics Laboratory, Princeton University, Princeton, New Jersey 08543 (United States)

    2014-08-15

    A representative H-mode discharge from the National Spherical Torus eXperiment is studied in detail to utilize it as a basis for a time-evolving prediction of the electron temperature profile using an appropriate reduced transport model. The time evolution of characteristic plasma variables such as β{sub e}, ν{sub e}{sup ∗}, the MHD α parameter, and the gradient scale lengths of T{sub e}, T{sub i}, and n{sub e} were examined as a prelude to performing linear gyrokinetic calculations to determine the fastest growing micro instability at various times and locations throughout the discharge. The inferences from the parameter evolutions and the linear stability calculations were consistent. Early in the discharge, when β{sub e} and ν{sub e}{sup ∗} were relatively low, ballooning parity modes were dominant. As time progressed and both β{sub e} and ν{sub e}{sup ∗} increased, microtearing became the dominant low-k{sub θ} mode, especially in the outer half of the plasma. There are instances in time and radius, however, where other modes, at higher-k{sub θ}, may, in addition to microtearing, be important for driving electron transport. Given these results, the Rebut-Lallia-Watkins (RLW) electron thermal diffusivity model, which is based on microtearing-induced transport, was used to predict the time-evolving electron temperature across most of the profile. The results indicate that RLW does a good job of predicting T{sub e} for times and locations where microtearing was determined to be important, but not as well when microtearing was predicted to be stable or subdominant.

  19. Linearized and Kernelized Sparse Multitask Learning for Predicting Cognitive Outcomes in Alzheimer’s Disease

    Directory of Open Access Journals (Sweden)

    Xiaoli Liu

    2018-01-01

    Full Text Available Alzheimer’s disease (AD has been not only the substantial financial burden to the health care system but also the emotional burden to patients and their families. Predicting cognitive performance of subjects from their magnetic resonance imaging (MRI measures and identifying relevant imaging biomarkers are important research topics in the study of Alzheimer’s disease. Recently, the multitask learning (MTL methods with sparsity-inducing norm (e.g., l2,1-norm have been widely studied to select the discriminative feature subset from MRI features by incorporating inherent correlations among multiple clinical cognitive measures. However, these previous works formulate the prediction tasks as a linear regression problem. The major limitation is that they assumed a linear relationship between the MRI features and the cognitive outcomes. Some multikernel-based MTL methods have been proposed and shown better generalization ability due to the nonlinear advantage. We quantify the power of existing linear and nonlinear MTL methods by evaluating their performance on cognitive score prediction of Alzheimer’s disease. Moreover, we extend the traditional l2,1-norm to a more general lql1-norm (q≥1. Experiments on the Alzheimer’s Disease Neuroimaging Initiative database showed that the nonlinear l2,1lq-MKMTL method not only achieved better prediction performance than the state-of-the-art competitive methods but also effectively fused the multimodality data.

  20. Multispectral code excited linear prediction coding and its application in magnetic resonance images.

    Science.gov (United States)

    Hu, J H; Wang, Y; Cahill, P T

    1997-01-01

    This paper reports a multispectral code excited linear prediction (MCELP) method for the compression of multispectral images. Different linear prediction models and adaptation schemes have been compared. The method that uses a forward adaptive autoregressive (AR) model has been proven to achieve a good compromise between performance, complexity, and robustness. This approach is referred to as the MFCELP method. Given a set of multispectral images, the linear predictive coefficients are updated over nonoverlapping three-dimensional (3-D) macroblocks. Each macroblock is further divided into several 3-D micro-blocks, and the best excitation signal for each microblock is determined through an analysis-by-synthesis procedure. The MFCELP method has been applied to multispectral magnetic resonance (MR) images. To satisfy the high quality requirement for medical images, the error between the original image set and the synthesized one is further specified using a vector quantizer. This method has been applied to images from 26 clinical MR neuro studies (20 slices/study, three spectral bands/slice, 256x256 pixels/band, 12 b/pixel). The MFCELP method provides a significant visual improvement over the discrete cosine transform (DCT) based Joint Photographers Expert Group (JPEG) method, the wavelet transform based embedded zero-tree wavelet (EZW) coding method, and the vector tree (VT) coding method, as well as the multispectral segmented autoregressive moving average (MSARMA) method we developed previously.

  1. Predicting Madura cattle growth curve using non-linear model

    Science.gov (United States)

    Widyas, N.; Prastowo, S.; Widi, T. S. M.; Baliarti, E.

    2018-03-01

    Madura cattle is Indonesian native. It is a composite breed that has undergone hundreds of years of selection and domestication to reach nowadays remarkable uniformity. Crossbreeding has reached the isle of Madura and the Madrasin, a cross between Madura cows and Limousine semen emerged. This paper aimed to compare the growth curve between Madrasin and one type of pure Madura cows, the common Madura cattle (Madura) using non-linear models. Madura cattles are kept traditionally thus reliable records are hardly available. Data were collected from small holder farmers in Madura. Cows from different age classes (5years) were observed, and body measurements (chest girth, body length and wither height) were taken. In total 63 Madura and 120 Madrasin records obtained. Linear model was built with cattle sub-populations and age as explanatory variables. Body weights were estimated based on the chest girth. Growth curves were built using logistic regression. Results showed that within the same age, Madrasin has significantly larger body compared to Madura (plogistic models fit better for Madura and Madrasin cattle data; with the estimated MSE for these models were 39.09 and 759.28 with prediction accuracy of 99 and 92% for Madura and Madrasin, respectively. Prediction of growth curve using logistic regression model performed well in both types of Madura cattle. However, attempts to administer accurate data on Madura cattle are necessary to better characterize and study these cattle.

  2. Gyrokinetic continuum simulations of turbulence in the Texas Helimak

    Science.gov (United States)

    Bernard, T. N.; Shi, E. L.; Hammett, G. W.; Hakim, A.; Taylor, E. I.

    2017-10-01

    We have used the Gkeyll code to perform 3x-2v full-f gyrokinetic continuum simulations of electrostatic plasma turbulence in the Texas Helimak. The Helimak is an open field-line experiment with magnetic curvature and shear. It is useful for validating numerical codes due to its extensive diagnostics and simple, helical geometry, which is similar to the scrape-off layer region of tokamaks. Interchange and drift-wave modes are the main turbulence mechanisms in the device, and potential biasing is applied to study the effect of velocity shear on turbulence reduction. With Gkeyll, we varied field-line pitch angle and simulated biased and unbiased cases to study different turbulent regimes and turbulence reduction. These are the first kinetic simulations of the Helimak and resulting plasma profiles agree fairly well with experimental data. This research demonstrates Gkeyll's progress towards 5D simulations of the SOL region of fusion devices. Supported by the U.S. DOE SCGSR program under contract DE-SC0014664, the Max-Planck/Princeton Center for Plasma Physics, the SciDAC Center for the Study of Plasma Microturbulence, and DOE contract DE-AC02-09CH11466.

  3. Improved Methods for Pitch Synchronous Linear Prediction Analysis of Speech

    OpenAIRE

    劉, 麗清

    2015-01-01

    Linear prediction (LP) analysis has been applied to speech system over the last few decades. LP technique is well-suited for speech analysis due to its ability to model speech production process approximately. Hence LP analysis has been widely used for speech enhancement, low-bit-rate speech coding in cellular telephony, speech recognition, characteristic parameter extraction (vocal tract resonances frequencies, fundamental frequency called pitch) and so on. However, the performance of the co...

  4. Fast Low-to-High Confinement Mode Bifurcation Dynamics in a Tokamak Edge Plasma Gyrokinetic Simulation.

    Science.gov (United States)

    Chang, C S; Ku, S; Tynan, G R; Hager, R; Churchill, R M; Cziegler, I; Greenwald, M; Hubbard, A E; Hughes, J W

    2017-04-28

    Transport barrier formation and its relation to sheared flows in fluids and plasmas are of fundamental interest in various natural and laboratory observations and of critical importance in achieving an economical energy production in a magnetic fusion device. Here we report the first observation of an edge transport barrier formation event in an electrostatic gyrokinetic simulation carried out in a realistic diverted tokamak edge geometry under strong forcing by a high rate of heat deposition. The results show that turbulent Reynolds-stress-driven sheared E×B flows act in concert with neoclassical orbit loss to quench turbulent transport and form a transport barrier just inside the last closed magnetic flux surface.

  5. A Homogeneous and Self-Dual Interior-Point Linear Programming Algorithm for Economic Model Predictive Control

    DEFF Research Database (Denmark)

    Sokoler, Leo Emil; Frison, Gianluca; Skajaa, Anders

    2015-01-01

    We develop an efficient homogeneous and self-dual interior-point method (IPM) for the linear programs arising in economic model predictive control of constrained linear systems with linear objective functions. The algorithm is based on a Riccati iteration procedure, which is adapted to the linear...... system of equations solved in homogeneous and self-dual IPMs. Fast convergence is further achieved using a warm-start strategy. We implement the algorithm in MATLAB and C. Its performance is tested using a conceptual power management case study. Closed loop simulations show that 1) the proposed algorithm...

  6. On the universality of power laws for tokamak plasma predictions

    Science.gov (United States)

    Garcia, J.; Cambon, D.; Contributors, JET

    2018-02-01

    Significant deviations from well established power laws for the thermal energy confinement time, obtained from extensive databases analysis as the IPB98(y,2), have been recently reported in dedicated power scans. In order to illuminate the adequacy, validity and universality of power laws as tools for predicting plasma performance, a simplified analysis has been carried out in the framework of a minimal modeling for heat transport which is, however, able to account for the interplay between turbulence and collinear effects with the input power known to play a role in experiments with significant deviations from such power laws. Whereas at low powers, the usual scaling laws are recovered with little influence of other plasma parameters, resulting in a robust power low exponent, at high power it is shown how the exponents obtained are extremely sensitive to the heating deposition, the q-profile or even the sampling or the number of points considered due to highly non-linear behavior of the heat transport. In particular circumstances, even a minimum of the thermal energy confinement time with the input power can be obtained, which means that the approach of the energy confinement time as a power law might be intrinsically invalid. Therefore plasma predictions with a power law approximation with a constant exponent obtained from a regression of a broad range of powers and other plasma parameters which can non-linearly affect and suppress heat transport, can lead to misleading results suggesting that this approach should be taken cautiously and its results continuously compared with modeling which can properly capture the underline physics, as gyrokinetic simulations.

  7. The Dangers of Estimating V˙O2max Using Linear, Nonexercise Prediction Models.

    Science.gov (United States)

    Nevill, Alan M; Cooke, Carlton B

    2017-05-01

    This study aimed to compare the accuracy and goodness of fit of two competing models (linear vs allometric) when estimating V˙O2max (mL·kg·min) using nonexercise prediction models. The two competing models were fitted to the V˙O2max (mL·kg·min) data taken from two previously published studies. Study 1 (the Allied Dunbar National Fitness Survey) recruited 1732 randomly selected healthy participants, 16 yr and older, from 30 English parliamentary constituencies. Estimates of V˙O2max were obtained using a progressive incremental test on a motorized treadmill. In study 2, maximal oxygen uptake was measured directly during a fatigue limited treadmill test in older men (n = 152) and women (n = 146) 55 to 86 yr old. In both studies, the quality of fit associated with estimating V˙O2max (mL·kg·min) was superior using allometric rather than linear (additive) models based on all criteria (R, maximum log-likelihood, and Akaike information criteria). Results suggest that linear models will systematically overestimate V˙O2max for participants in their 20s and underestimate V˙O2max for participants in their 60s and older. The residuals saved from the linear models were neither normally distributed nor independent of the predicted values nor age. This will probably explain the absence of a key quadratic age term in the linear models, crucially identified using allometric models. Not only does the curvilinear age decline within an exponential function follow a more realistic age decline (the right-hand side of a bell-shaped curve), but the allometric models identified either a stature-to-body mass ratio (study 1) or a fat-free mass-to-body mass ratio (study 2), both associated with leanness when estimating V˙O2max. Adopting allometric models will provide more accurate predictions of V˙O2max (mL·kg·min) using plausible, biologically sound, and interpretable models.

  8. Global gyrokinetic simulations of the H-mode tokamak edge pedestal

    Energy Technology Data Exchange (ETDEWEB)

    Wan, Weigang; Parker, Scott E.; Chen, Yang [Department of Physics, University of Colorado, Boulder, Colorado 80309 (United States); Groebner, Richard J. [General Atomics, Post Office Box 85068, San Diego, California 92186 (United States); Yan, Zheng [University of Wisconsin-Madison, Madison, Wisconsin 53706 (United States); Pankin, Alexei Y.; Kruger, Scott E. [Tech-X Corporation, 5621 Arapahoe Ave., Boulder, Colorado 80305 (United States)

    2013-05-15

    Global gyrokinetic simulations of DIII-D H-mode edge pedestal show two types of instabilities may exist approaching the onset of edge localized modes: an intermediate-n, high frequency mode which we identify as the “kinetic peeling ballooning mode (KPBM),” and a high-n, low frequency mode. Our previous study [W. Wan et al., Phys. Rev. Lett. 109, 185004 (2012)] has shown that when the safety factor profile is flattened around the steep pressure gradient region, the high-n mode is clearly kinetic ballooning mode and becomes the dominant instability. Otherwise, the KPBM dominates. Here, the properties of the two instabilities are studied by varying the density and temperature profiles. It is found that the KPBM is destabilized by density and ion temperature gradient, and the high-n mode is mostly destabilized by electron temperature gradient. Nonlinear simulations with the KPBM saturate at high levels. The equilibrium radial electric field (E{sub r}) reduces the transport. The effect of the parallel equilibrium current is found to be weak.

  9. Application of genetic algorithm - multiple linear regressions to predict the activity of RSK inhibitors

    Directory of Open Access Journals (Sweden)

    Avval Zhila Mohajeri

    2015-01-01

    Full Text Available This paper deals with developing a linear quantitative structure-activity relationship (QSAR model for predicting the RSK inhibition activity of some new compounds. A dataset consisting of 62 pyrazino [1,2-α] indole, diazepino [1,2-α] indole, and imidazole derivatives with known inhibitory activities was used. Multiple linear regressions (MLR technique combined with the stepwise (SW and the genetic algorithm (GA methods as variable selection tools was employed. For more checking stability, robustness and predictability of the proposed models, internal and external validation techniques were used. Comparison of the results obtained, indicate that the GA-MLR model is superior to the SW-MLR model and that it isapplicable for designing novel RSK inhibitors.

  10. Predicting Fuel Ignition Quality Using 1H NMR Spectroscopy and Multiple Linear Regression

    KAUST Repository

    Abdul Jameel, Abdul Gani; Naser, Nimal; Emwas, Abdul-Hamid M.; Dooley, Stephen; Sarathy, Mani

    2016-01-01

    An improved model for the prediction of ignition quality of hydrocarbon fuels has been developed using 1H nuclear magnetic resonance (NMR) spectroscopy and multiple linear regression (MLR) modeling. Cetane number (CN) and derived cetane number (DCN

  11. Comparison of the Predictive Performance and Interpretability of Random Forest and Linear Models on Benchmark Data Sets.

    Science.gov (United States)

    Marchese Robinson, Richard L; Palczewska, Anna; Palczewski, Jan; Kidley, Nathan

    2017-08-28

    The ability to interpret the predictions made by quantitative structure-activity relationships (QSARs) offers a number of advantages. While QSARs built using nonlinear modeling approaches, such as the popular Random Forest algorithm, might sometimes be more predictive than those built using linear modeling approaches, their predictions have been perceived as difficult to interpret. However, a growing number of approaches have been proposed for interpreting nonlinear QSAR models in general and Random Forest in particular. In the current work, we compare the performance of Random Forest to those of two widely used linear modeling approaches: linear Support Vector Machines (SVMs) (or Support Vector Regression (SVR)) and partial least-squares (PLS). We compare their performance in terms of their predictivity as well as the chemical interpretability of the predictions using novel scoring schemes for assessing heat map images of substructural contributions. We critically assess different approaches for interpreting Random Forest models as well as for obtaining predictions from the forest. We assess the models on a large number of widely employed public-domain benchmark data sets corresponding to regression and binary classification problems of relevance to hit identification and toxicology. We conclude that Random Forest typically yields comparable or possibly better predictive performance than the linear modeling approaches and that its predictions may also be interpreted in a chemically and biologically meaningful way. In contrast to earlier work looking at interpretation of nonlinear QSAR models, we directly compare two methodologically distinct approaches for interpreting Random Forest models. The approaches for interpreting Random Forest assessed in our article were implemented using open-source programs that we have made available to the community. These programs are the rfFC package ( https://r-forge.r-project.org/R/?group_id=1725 ) for the R statistical

  12. Predicting oropharyngeal tumor volume throughout the course of radiation therapy from pretreatment computed tomography data using general linear models.

    Science.gov (United States)

    Yock, Adam D; Rao, Arvind; Dong, Lei; Beadle, Beth M; Garden, Adam S; Kudchadker, Rajat J; Court, Laurence E

    2014-05-01

    The purpose of this work was to develop and evaluate the accuracy of several predictive models of variation in tumor volume throughout the course of radiation therapy. Nineteen patients with oropharyngeal cancers were imaged daily with CT-on-rails for image-guided alignment per an institutional protocol. The daily volumes of 35 tumors in these 19 patients were determined and used to generate (1) a linear model in which tumor volume changed at a constant rate, (2) a general linear model that utilized the power fit relationship between the daily and initial tumor volumes, and (3) a functional general linear model that identified and exploited the primary modes of variation between time series describing the changing tumor volumes. Primary and nodal tumor volumes were examined separately. The accuracy of these models in predicting daily tumor volumes were compared with those of static and linear reference models using leave-one-out cross-validation. In predicting the daily volume of primary tumors, the general linear model and the functional general linear model were more accurate than the static reference model by 9.9% (range: -11.6%-23.8%) and 14.6% (range: -7.3%-27.5%), respectively, and were more accurate than the linear reference model by 14.2% (range: -6.8%-40.3%) and 13.1% (range: -1.5%-52.5%), respectively. In predicting the daily volume of nodal tumors, only the 14.4% (range: -11.1%-20.5%) improvement in accuracy of the functional general linear model compared to the static reference model was statistically significant. A general linear model and a functional general linear model trained on data from a small population of patients can predict the primary tumor volume throughout the course of radiation therapy with greater accuracy than standard reference models. These more accurate models may increase the prognostic value of information about the tumor garnered from pretreatment computed tomography images and facilitate improved treatment management.

  13. Predicting oropharyngeal tumor volume throughout the course of radiation therapy from pretreatment computed tomography data using general linear models

    International Nuclear Information System (INIS)

    Yock, Adam D.; Kudchadker, Rajat J.; Rao, Arvind; Dong, Lei; Beadle, Beth M.; Garden, Adam S.; Court, Laurence E.

    2014-01-01

    Purpose: The purpose of this work was to develop and evaluate the accuracy of several predictive models of variation in tumor volume throughout the course of radiation therapy. Methods: Nineteen patients with oropharyngeal cancers were imaged daily with CT-on-rails for image-guided alignment per an institutional protocol. The daily volumes of 35 tumors in these 19 patients were determined and used to generate (1) a linear model in which tumor volume changed at a constant rate, (2) a general linear model that utilized the power fit relationship between the daily and initial tumor volumes, and (3) a functional general linear model that identified and exploited the primary modes of variation between time series describing the changing tumor volumes. Primary and nodal tumor volumes were examined separately. The accuracy of these models in predicting daily tumor volumes were compared with those of static and linear reference models using leave-one-out cross-validation. Results: In predicting the daily volume of primary tumors, the general linear model and the functional general linear model were more accurate than the static reference model by 9.9% (range: −11.6%–23.8%) and 14.6% (range: −7.3%–27.5%), respectively, and were more accurate than the linear reference model by 14.2% (range: −6.8%–40.3%) and 13.1% (range: −1.5%–52.5%), respectively. In predicting the daily volume of nodal tumors, only the 14.4% (range: −11.1%–20.5%) improvement in accuracy of the functional general linear model compared to the static reference model was statistically significant. Conclusions: A general linear model and a functional general linear model trained on data from a small population of patients can predict the primary tumor volume throughout the course of radiation therapy with greater accuracy than standard reference models. These more accurate models may increase the prognostic value of information about the tumor garnered from pretreatment computed tomography

  14. The application of sparse linear prediction dictionary to compressive sensing in speech signals

    Directory of Open Access Journals (Sweden)

    YOU Hanxu

    2016-04-01

    Full Text Available Appling compressive sensing (CS,which theoretically guarantees that signal sampling and signal compression can be achieved simultaneously,into audio and speech signal processing is one of the most popular research topics in recent years.In this paper,K-SVD algorithm was employed to learn a sparse linear prediction dictionary regarding as the sparse basis of underlying speech signals.Compressed signals was obtained by applying random Gaussian matrix to sample original speech frames.Orthogonal matching pursuit (OMP and compressive sampling matching pursuit (CoSaMP were adopted to recovery original signals from compressed one.Numbers of experiments were carried out to investigate the impact of speech frames length,compression ratios,sparse basis and reconstruction algorithms on CS performance.Results show that sparse linear prediction dictionary can advance the performance of speech signals reconstruction compared with discrete cosine transform (DCT matrix.

  15. Predicting recycling behaviour: Comparison of a linear regression model and a fuzzy logic model.

    Science.gov (United States)

    Vesely, Stepan; Klöckner, Christian A; Dohnal, Mirko

    2016-03-01

    In this paper we demonstrate that fuzzy logic can provide a better tool for predicting recycling behaviour than the customarily used linear regression. To show this, we take a set of empirical data on recycling behaviour (N=664), which we randomly divide into two halves. The first half is used to estimate a linear regression model of recycling behaviour, and to develop a fuzzy logic model of recycling behaviour. As the first comparison, the fit of both models to the data included in estimation of the models (N=332) is evaluated. As the second comparison, predictive accuracy of both models for "new" cases (hold-out data not included in building the models, N=332) is assessed. In both cases, the fuzzy logic model significantly outperforms the regression model in terms of fit. To conclude, when accurate predictions of recycling and possibly other environmental behaviours are needed, fuzzy logic modelling seems to be a promising technique. Copyright © 2015 Elsevier Ltd. All rights reserved.

  16. Computationally Efficient Amplitude Modulated Sinusoidal Audio Coding using Frequency-Domain Linear Prediction

    DEFF Research Database (Denmark)

    Christensen, M. G.; Jensen, Søren Holdt

    2006-01-01

    A method for amplitude modulated sinusoidal audio coding is presented that has low complexity and low delay. This is based on a subband processing system, where, in each subband, the signal is modeled as an amplitude modulated sum of sinusoids. The envelopes are estimated using frequency......-domain linear prediction and the prediction coefficients are quantized. As a proof of concept, we evaluate different configurations in a subjective listening test, and this shows that the proposed method offers significant improvements in sinusoidal coding. Furthermore, the properties of the frequency...

  17. Robust entry guidance using linear covariance-based model predictive control

    Directory of Open Access Journals (Sweden)

    Jianjun Luo

    2017-02-01

    Full Text Available For atmospheric entry vehicles, guidance design can be accomplished by solving an optimal issue using optimal control theories. However, traditional design methods generally focus on the nominal performance and do not include considerations of the robustness in the design process. This paper proposes a linear covariance-based model predictive control method for robust entry guidance design. Firstly, linear covariance analysis is employed to directly incorporate the robustness into the guidance design. The closed-loop covariance with the feedback updated control command is initially formulated to provide the expected errors of the nominal state variables in the presence of uncertainties. Then, the closed-loop covariance is innovatively used as a component of the cost function to guarantee the robustness to reduce its sensitivity to uncertainties. After that, the models predictive control is used to solve the optimal problem, and the control commands (bank angles are calculated. Finally, a series of simulations for different missions have been completed to demonstrate the high performance in precision and the robustness with respect to initial perturbations as well as uncertainties in the entry process. The 3σ confidence region results in the presence of uncertainties which show that the robustness of the guidance has been improved, and the errors of the state variables are decreased by approximately 35%.

  18. Evaluation of accuracy of linear regression models in predicting urban stormwater discharge characteristics.

    Science.gov (United States)

    Madarang, Krish J; Kang, Joo-Hyon

    2014-06-01

    Stormwater runoff has been identified as a source of pollution for the environment, especially for receiving waters. In order to quantify and manage the impacts of stormwater runoff on the environment, predictive models and mathematical models have been developed. Predictive tools such as regression models have been widely used to predict stormwater discharge characteristics. Storm event characteristics, such as antecedent dry days (ADD), have been related to response variables, such as pollutant loads and concentrations. However it has been a controversial issue among many studies to consider ADD as an important variable in predicting stormwater discharge characteristics. In this study, we examined the accuracy of general linear regression models in predicting discharge characteristics of roadway runoff. A total of 17 storm events were monitored in two highway segments, located in Gwangju, Korea. Data from the monitoring were used to calibrate United States Environmental Protection Agency's Storm Water Management Model (SWMM). The calibrated SWMM was simulated for 55 storm events, and the results of total suspended solid (TSS) discharge loads and event mean concentrations (EMC) were extracted. From these data, linear regression models were developed. R(2) and p-values of the regression of ADD for both TSS loads and EMCs were investigated. Results showed that pollutant loads were better predicted than pollutant EMC in the multiple regression models. Regression may not provide the true effect of site-specific characteristics, due to uncertainty in the data. Copyright © 2014 The Research Centre for Eco-Environmental Sciences, Chinese Academy of Sciences. Published by Elsevier B.V. All rights reserved.

  19. Recent advances in gyrokinetic full-f particle simulation of medium sized Tokamaks with ELMFIRE

    International Nuclear Information System (INIS)

    Janhunen, S.J.; Kiviniemi, T.P.; Korpio, T.; Leerink, S.; Nora, M.; Heikkinen, J.A.; Ogando, F.

    2010-01-01

    Large-scale kinetic simulations of toroidal plasmas based on first principles are called for in studies of transition from low to high confinement mode and internal transport barrier formation in the core plasma. Such processes are best observed and diagnosed in detached plasma conditions in mid-sized tokamaks, so gyrokinetic simulations for these conditions are warranted. A first principles test-particle based kinetic model ELMFIRE[1] has been developed and used in interpretation[1,2] of FT-2 and DIII-D experiments. In this work we summarize progress in Cyclone (DIII-D core) and ASDEX Upgrade pedestal region simulations, and show that in simulations the choice of adiabatic electrons results in quenching of turbulence (copyright 2010 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim) (orig.)

  20. Recent advances in gyrokinetic full-f particle simulation of medium sized Tokamaks with ELMFIRE

    Energy Technology Data Exchange (ETDEWEB)

    Janhunen, S.J.; Kiviniemi, T.P.; Korpio, T.; Leerink, S.; Nora, M. [Helsinki University of Technology, Euratom-Tekes Association, Espoo (Finland); Heikkinen, J.A. [VTT, Euratom-Tekes Association, Espoo (Finland); Ogando, F. [Helsinki University of Technology, Euratom-Tekes Association, Espoo (Finland); Universidad Nacional de Educacion a Distancia, Madrid (Spain)

    2010-05-15

    Large-scale kinetic simulations of toroidal plasmas based on first principles are called for in studies of transition from low to high confinement mode and internal transport barrier formation in the core plasma. Such processes are best observed and diagnosed in detached plasma conditions in mid-sized tokamaks, so gyrokinetic simulations for these conditions are warranted. A first principles test-particle based kinetic model ELMFIRE[1] has been developed and used in interpretation[1,2] of FT-2 and DIII-D experiments. In this work we summarize progress in Cyclone (DIII-D core) and ASDEX Upgrade pedestal region simulations, and show that in simulations the choice of adiabatic electrons results in quenching of turbulence (copyright 2010 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim) (orig.)

  1. Daily Suspended Sediment Discharge Prediction Using Multiple Linear Regression and Artificial Neural Network

    Science.gov (United States)

    Uca; Toriman, Ekhwan; Jaafar, Othman; Maru, Rosmini; Arfan, Amal; Saleh Ahmar, Ansari

    2018-01-01

    Prediction of suspended sediment discharge in a catchments area is very important because it can be used to evaluation the erosion hazard, management of its water resources, water quality, hydrology project management (dams, reservoirs, and irrigation) and to determine the extent of the damage that occurred in the catchments. Multiple Linear Regression analysis and artificial neural network can be used to predict the amount of daily suspended sediment discharge. Regression analysis using the least square method, whereas artificial neural networks using Radial Basis Function (RBF) and feedforward multilayer perceptron with three learning algorithms namely Levenberg-Marquardt (LM), Scaled Conjugate Descent (SCD) and Broyden-Fletcher-Goldfarb-Shanno Quasi-Newton (BFGS). The number neuron of hidden layer is three to sixteen, while in output layer only one neuron because only one output target. The mean absolute error (MAE), root mean square error (RMSE), coefficient of determination (R2 ) and coefficient of efficiency (CE) of the multiple linear regression (MLRg) value Model 2 (6 input variable independent) has the lowest the value of MAE and RMSE (0.0000002 and 13.6039) and highest R2 and CE (0.9971 and 0.9971). When compared between LM, SCG and RBF, the BFGS model structure 3-7-1 is the better and more accurate to prediction suspended sediment discharge in Jenderam catchment. The performance value in testing process, MAE and RMSE (13.5769 and 17.9011) is smallest, meanwhile R2 and CE (0.9999 and 0.9998) is the highest if it compared with the another BFGS Quasi-Newton model (6-3-1, 9-10-1 and 12-12-1). Based on the performance statistics value, MLRg, LM, SCG, BFGS and RBF suitable and accurately for prediction by modeling the non-linear complex behavior of suspended sediment responses to rainfall, water depth and discharge. The comparison between artificial neural network (ANN) and MLRg, the MLRg Model 2 accurately for to prediction suspended sediment discharge (kg

  2. Sparsity in Linear Predictive Coding of Speech

    DEFF Research Database (Denmark)

    Giacobello, Daniele

    of the effectiveness of their application in audio processing. The second part of the thesis deals with introducing sparsity directly in the linear prediction analysis-by-synthesis (LPAS) speech coding paradigm. We first propose a novel near-optimal method to look for a sparse approximate excitation using a compressed...... one with direct applications to coding but also consistent with the speech production model of voiced speech, where the excitation of the all-pole filter can be modeled as an impulse train, i.e., a sparse sequence. Introducing sparsity in the LP framework will also bring to de- velop the concept...... sensing formulation. Furthermore, we define a novel re-estimation procedure to adapt the predictor coefficients to the given sparse excitation, balancing the two representations in the context of speech coding. Finally, the advantages of the compact parametric representation of a segment of speech, given...

  3. Quasi-closed phase forward-backward linear prediction analysis of speech for accurate formant detection and estimation.

    Science.gov (United States)

    Gowda, Dhananjaya; Airaksinen, Manu; Alku, Paavo

    2017-09-01

    Recently, a quasi-closed phase (QCP) analysis of speech signals for accurate glottal inverse filtering was proposed. However, the QCP analysis which belongs to the family of temporally weighted linear prediction (WLP) methods uses the conventional forward type of sample prediction. This may not be the best choice especially in computing WLP models with a hard-limiting weighting function. A sample selective minimization of the prediction error in WLP reduces the effective number of samples available within a given window frame. To counter this problem, a modified quasi-closed phase forward-backward (QCP-FB) analysis is proposed, wherein each sample is predicted based on its past as well as future samples thereby utilizing the available number of samples more effectively. Formant detection and estimation experiments on synthetic vowels generated using a physical modeling approach as well as natural speech utterances show that the proposed QCP-FB method yields statistically significant improvements over the conventional linear prediction and QCP methods.

  4. A Riccati Based Homogeneous and Self-Dual Interior-Point Method for Linear Economic Model Predictive Control

    DEFF Research Database (Denmark)

    Sokoler, Leo Emil; Frison, Gianluca; Edlund, Kristian

    2013-01-01

    In this paper, we develop an efficient interior-point method (IPM) for the linear programs arising in economic model predictive control of linear systems. The novelty of our algorithm is that it combines a homogeneous and self-dual model, and a specialized Riccati iteration procedure. We test...

  5. Prediction of Complex Human Traits Using the Genomic Best Linear Unbiased Predictor

    DEFF Research Database (Denmark)

    de los Campos, Gustavo; Vazquez, Ana I; Fernando, Rohan

    2013-01-01

    Despite important advances from Genome Wide Association Studies (GWAS), for most complex human traits and diseases, a sizable proportion of genetic variance remains unexplained and prediction accuracy (PA) is usually low. Evidence suggests that PA can be improved using Whole-Genome Regression (WGR......) models where phenotypes are regressed on hundreds of thousands of variants simultaneously. The Genomic Best Linear Unbiased Prediction G-BLUP, a ridge-regression type method) is a commonly used WGR method and has shown good predictive performance when applied to plant and animal breeding populations....... However, breeding and human populations differ greatly in a number of factors that can affect the predictive performance of G-BLUP. Using theory, simulations, and real data analysis, we study the erformance of G-BLUP when applied to data from related and unrelated human subjects. Under perfect linkage...

  6. Gyrokinetic particle simulation of neoclassical transport in the pedestal/scrape-off region of a tokamak plasma

    Energy Technology Data Exchange (ETDEWEB)

    Ku, S [Courant Institute of Mathematical Sciences, New York University (United States); Chang, C-S [Courant Institute of Mathematical Sciences, New York University (United States); Adams, M [Columbia University (United States); Cummings, J [California Institute of Technology (United States); Hinton, F [Hinton Associates (United States); Keyes, D [Columbia University (United States); Klasky, S [Oak Ridge National Laboratory (United States); Lee, W [Princeton Plasma Physics Laboratory (United States); Lin, Z [University of California at Irvine (United States); Parker, S [University of Colorado at Boulder (United States)

    2006-09-15

    A gyrokinetic neoclassical solution for a diverted tokamak edge plasma has been obtained for the first time using the massively parallel Jaguar XT3 computer at Oak Ridge National Laboratory. The solutions show similar characteristics to the experimental observations: electric potential is positive in the scrape-off layer and negative in the H-mode layer, and the parallel rotation is positive in the scrape-off layer and at the inside boundary of the H-mode layer. However, the solution also makes a new physical discovery that there is a strong ExB convective flow in the scrape-off plasma. A general introduction to the edge simulation problem is also presented.

  7. An improved robust model predictive control for linear parameter-varying input-output models

    NARCIS (Netherlands)

    Abbas, H.S.; Hanema, J.; Tóth, R.; Mohammadpour, J.; Meskin, N.

    2018-01-01

    This paper describes a new robust model predictive control (MPC) scheme to control the discrete-time linear parameter-varying input-output models subject to input and output constraints. Closed-loop asymptotic stability is guaranteed by including a quadratic terminal cost and an ellipsoidal terminal

  8. Database-driven web interface automating gyrokinetic simulations for validation

    Science.gov (United States)

    Ernst, D. R.

    2010-11-01

    We are developing a web interface to connect plasma microturbulence simulation codes with experimental data. The website automates the preparation of gyrokinetic simulations utilizing plasma profile and magnetic equilibrium data from TRANSP analysis of experiments, read from MDSPLUS over the internet. This database-driven tool saves user sessions, allowing searches of previous simulations, which can be restored to repeat the same analysis for a new discharge. The website includes a multi-tab, multi-frame, publication quality java plotter Webgraph, developed as part of this project. Input files can be uploaded as templates and edited with context-sensitive help. The website creates inputs for GS2 and GYRO using a well-tested and verified back-end, in use for several years for the GS2 code [D. R. Ernst et al., Phys. Plasmas 11(5) 2637 (2004)]. A centralized web site has the advantage that users receive bug fixes instantaneously, while avoiding the duplicated effort of local compilations. Possible extensions to the database to manage run outputs, toward prototyping for the Fusion Simulation Project, are envisioned. Much of the web development utilized support from the DoE National Undergraduate Fellowship program [e.g., A. Suarez and D. R. Ernst, http://meetings.aps.org/link/BAPS.2005.DPP.GP1.57.

  9. Linear predictions of supercritical flow instability in two parallel channels

    International Nuclear Information System (INIS)

    Shah, M.

    2008-01-01

    A steady state linear code that can predict thermo-hydraulic instability boundaries in a two parallel channel system under supercritical conditions has been developed. Linear and non-linear solutions of the instability boundary in a two parallel channel system are also compared. The effect of gravity on the instability boundary in a two parallel channel system, by changing the orientation of the system flow from horizontal flow to vertical up-flow and vertical down-flow has been analyzed. Vertical up-flow is found to be more unstable than horizontal flow and vertical down flow is found to be the most unstable configuration. The type of instability present in each flow-orientation of a parallel channel system has been checked and the density wave oscillation type is observed in horizontal flow and vertical up-flow, while the static type of instability is observed in a vertical down-flow for the cases studied here. The parameters affecting the instability boundary, such as the heating power, inlet temperature, inlet and outlet K-factors are varied to assess their effects. This study is important for the design of future Generation IV nuclear reactors in which supercritical light water is proposed as the primary coolant. (author)

  10. Quantifying the predictive consequences of model error with linear subspace analysis

    Science.gov (United States)

    White, Jeremy T.; Doherty, John E.; Hughes, Joseph D.

    2014-01-01

    All computer models are simplified and imperfect simulators of complex natural systems. The discrepancy arising from simplification induces bias in model predictions, which may be amplified by the process of model calibration. This paper presents a new method to identify and quantify the predictive consequences of calibrating a simplified computer model. The method is based on linear theory, and it scales efficiently to the large numbers of parameters and observations characteristic of groundwater and petroleum reservoir models. The method is applied to a range of predictions made with a synthetic integrated surface-water/groundwater model with thousands of parameters. Several different observation processing strategies and parameterization/regularization approaches are examined in detail, including use of the Karhunen-Loève parameter transformation. Predictive bias arising from model error is shown to be prediction specific and often invisible to the modeler. The amount of calibration-induced bias is influenced by several factors, including how expert knowledge is applied in the design of parameterization schemes, the number of parameters adjusted during calibration, how observations and model-generated counterparts are processed, and the level of fit with observations achieved through calibration. Failure to properly implement any of these factors in a prediction-specific manner may increase the potential for predictive bias in ways that are not visible to the calibration and uncertainty analysis process.

  11. A review of model predictive control: moving from linear to nonlinear design methods

    International Nuclear Information System (INIS)

    Nandong, J.; Samyudia, Y.; Tade, M.O.

    2006-01-01

    Linear model predictive control (LMPC) has now been considered as an industrial control standard in process industry. Its extension to nonlinear cases however has not yet gained wide acceptance due to many reasons, e.g. excessively heavy computational load and effort, thus, preventing its practical implementation in real-time control. The application of nonlinear MPC (NMPC) is advantageous for processes with strong nonlinearity or when the operating points are frequently moved from one set point to another due to, for instance, changes in market demands. Much effort has been dedicated towards improving the computational efficiency of NMPC as well as its stability analysis. This paper provides a review on alternative ways of extending linear MPC to the nonlinear one. We also highlight the critical issues pertinent to the applications of NMPC and discuss possible solutions to address these issues. In addition, we outline the future research trend in the area of model predictive control by emphasizing on the potential applications of multi-scale process model within NMPC

  12. Memory-efficient optimization of Gyrokinetic particle-to-grid interpolation for multicore processors

    Energy Technology Data Exchange (ETDEWEB)

    Madduri, Kamesh [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Williams, Samuel [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Ethier, Stephane [Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Oliker, Leonid [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Shalf, John [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Strohmaier, Erich [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Yelicky, Katherine [Univ. of California, Berkeley, CA (United States)

    2009-01-01

    We present multicore parallelization strategies for the particle-to-grid interpolation step in the Gyrokinetic Toroidal Code (GTC), a 3D particle-in-cell (PIC) application to study turbulent transport in magnetic-confinement fusion devices. Particle-grid interpolation is a known performance bottleneck in several PIC applications. In GTC, this step involves particles depositing charges to a 3D toroidal mesh, and multiple particles may contribute to the charge at a grid point. We design new parallel algorithms for the GTC charge deposition kernel, and analyze their performance on three leading multicore platforms. We implement thirteen different variants for this kernel and identify the best-performing ones given typical PIC parameters such as the grid size, number of particles per cell, and the GTC-specific particle Larmor radius variation. We find that our best strategies can be 2x faster than the reference optimized MPI implementation, and our analysis provides insight into desirable architectural features for high-performance PIC simulation codes.

  13. Predicting haemodynamic networks using electrophysiology: The role of non-linear and cross-frequency interactions

    Science.gov (United States)

    Tewarie, P.; Bright, M.G.; Hillebrand, A.; Robson, S.E.; Gascoyne, L.E.; Morris, P.G.; Meier, J.; Van Mieghem, P.; Brookes, M.J.

    2016-01-01

    Understanding the electrophysiological basis of resting state networks (RSNs) in the human brain is a critical step towards elucidating how inter-areal connectivity supports healthy brain function. In recent years, the relationship between RSNs (typically measured using haemodynamic signals) and electrophysiology has been explored using functional Magnetic Resonance Imaging (fMRI) and magnetoencephalography (MEG). Significant progress has been made, with similar spatial structure observable in both modalities. However, there is a pressing need to understand this relationship beyond simple visual similarity of RSN patterns. Here, we introduce a mathematical model to predict fMRI-based RSNs using MEG. Our unique model, based upon a multivariate Taylor series, incorporates both phase and amplitude based MEG connectivity metrics, as well as linear and non-linear interactions within and between neural oscillations measured in multiple frequency bands. We show that including non-linear interactions, multiple frequency bands and cross-frequency terms significantly improves fMRI network prediction. This shows that fMRI connectivity is not only the result of direct electrophysiological connections, but is also driven by the overlap of connectivity profiles between separate regions. Our results indicate that a complete understanding of the electrophysiological basis of RSNs goes beyond simple frequency-specific analysis, and further exploration of non-linear and cross-frequency interactions will shed new light on distributed network connectivity, and its perturbation in pathology. PMID:26827811

  14. Linear genetic programming application for successive-station monthly streamflow prediction

    Science.gov (United States)

    Danandeh Mehr, Ali; Kahya, Ercan; Yerdelen, Cahit

    2014-09-01

    In recent decades, artificial intelligence (AI) techniques have been pronounced as a branch of computer science to model wide range of hydrological phenomena. A number of researches have been still comparing these techniques in order to find more effective approaches in terms of accuracy and applicability. In this study, we examined the ability of linear genetic programming (LGP) technique to model successive-station monthly streamflow process, as an applied alternative for streamflow prediction. A comparative efficiency study between LGP and three different artificial neural network algorithms, namely feed forward back propagation (FFBP), generalized regression neural networks (GRNN), and radial basis function (RBF), has also been presented in this study. For this aim, firstly, we put forward six different successive-station monthly streamflow prediction scenarios subjected to training by LGP and FFBP using the field data recorded at two gauging stations on Çoruh River, Turkey. Based on Nash-Sutcliffe and root mean squared error measures, we then compared the efficiency of these techniques and selected the best prediction scenario. Eventually, GRNN and RBF algorithms were utilized to restructure the selected scenario and to compare with corresponding FFBP and LGP. Our results indicated the promising role of LGP for successive-station monthly streamflow prediction providing more accurate results than those of all the ANN algorithms. We found an explicit LGP-based expression evolved by only the basic arithmetic functions as the best prediction model for the river, which uses the records of the both target and upstream stations.

  15. HPC parallel programming model for gyrokinetic MHD simulation

    International Nuclear Information System (INIS)

    Naitou, Hiroshi; Yamada, Yusuke; Tokuda, Shinji; Ishii, Yasutomo; Yagi, Masatoshi

    2011-01-01

    The 3-dimensional gyrokinetic PIC (particle-in-cell) code for MHD simulation, Gpic-MHD, was installed on SR16000 (“Plasma Simulator”), which is a scalar cluster system consisting of 8,192 logical cores. The Gpic-MHD code advances particle and field quantities in time. In order to distribute calculations over large number of logical cores, the total simulation domain in cylindrical geometry was broken up into N DD-r × N DD-z (number of radial decomposition times number of axial decomposition) small domains including approximately the same number of particles. The axial direction was uniformly decomposed, while the radial direction was non-uniformly decomposed. N RP replicas (copies) of each decomposed domain were used (“particle decomposition”). The hybrid parallelization model of multi-threads and multi-processes was employed: threads were parallelized by the auto-parallelization and N DD-r × N DD-z × N RP processes were parallelized by MPI (message-passing interface). The parallelization performance of Gpic-MHD was investigated for the medium size system of N r × N θ × N z = 1025 × 128 × 128 mesh with 4.196 or 8.192 billion particles. The highest speed for the fixed number of logical cores was obtained for two threads, the maximum number of N DD-z , and optimum combination of N DD-r and N RP . The observed optimum speeds demonstrated good scaling up to 8,192 logical cores. (author)

  16. Predictive IP controller for robust position control of linear servo system.

    Science.gov (United States)

    Lu, Shaowu; Zhou, Fengxing; Ma, Yajie; Tang, Xiaoqi

    2016-07-01

    Position control is a typical application of linear servo system. In this paper, to reduce the system overshoot, an integral plus proportional (IP) controller is used in the position control implementation. To further improve the control performance, a gain-tuning IP controller based on a generalized predictive control (GPC) law is proposed. Firstly, to represent the dynamics of the position loop, a second-order linear model is used and its model parameters are estimated on-line by using a recursive least squares method. Secondly, based on the GPC law, an optimal control sequence is obtained by using receding horizon, then directly supplies the IP controller with the corresponding control parameters in the real operations. Finally, simulation and experimental results are presented to show the efficiency of proposed scheme. Copyright © 2016 ISA. Published by Elsevier Ltd. All rights reserved.

  17. Multi-machine transport analysis of hybrid discharges from the ITPA profile database

    International Nuclear Information System (INIS)

    Artaud, J.F.; Bourdelle, C.; Joffrin, E.; Kinsey, J.; Tala, T.J.J.; Fujita, T.; Sakamoto, Y.; Na, Y.S.; Sips, A.C.C.; Na, Y.S.; Parail, V.V.

    2005-01-01

    Current diffusion, heat transport modelling, and linear gyrokinetic stability analysis have been carried out on a set of 7 hybrid discharges from AUG, DIII-D, JET and JT-60U, in order to gain better understanding of the physics underlying this promising candidate scenario for ITER. Within this dataset, the GLF23 model has a higher accuracy than the Weiland model in predicting the temperature profiles in the region 0.3 N on extended duration. (authors)

  18. A Decomposition Algorithm for Mean-Variance Economic Model Predictive Control of Stochastic Linear Systems

    DEFF Research Database (Denmark)

    Sokoler, Leo Emil; Dammann, Bernd; Madsen, Henrik

    2014-01-01

    This paper presents a decomposition algorithm for solving the optimal control problem (OCP) that arises in Mean-Variance Economic Model Predictive Control of stochastic linear systems. The algorithm applies the alternating direction method of multipliers to a reformulation of the OCP...

  19. A fast low-to-high confinement mode bifurcation dynamics in the boundary-plasma gyrokinetic code XGC1

    Science.gov (United States)

    Ku, S.; Chang, C. S.; Hager, R.; Churchill, R. M.; Tynan, G. R.; Cziegler, I.; Greenwald, M.; Hughes, J.; Parker, S. E.; Adams, M. F.; D'Azevedo, E.; Worley, P.

    2018-05-01

    A fast edge turbulence suppression event has been simulated in the electrostatic version of the gyrokinetic particle-in-cell code XGC1 in a realistic diverted tokamak edge geometry under neutral particle recycling. The results show that the sequence of turbulent Reynolds stress followed by neoclassical ion orbit-loss driven together conspire to form the sustaining radial electric field shear and to quench turbulent transport just inside the last closed magnetic flux surface. The main suppression action is located in a thin radial layer around ψN≃0.96 -0.98 , where ψN is the normalized poloidal flux, with the time scale ˜0.1 ms.

  20. Using Hierarchical Linear Modelling to Examine Factors Predicting English Language Students' Reading Achievement

    Science.gov (United States)

    Fung, Karen; ElAtia, Samira

    2015-01-01

    Using Hierarchical Linear Modelling (HLM), this study aimed to identify factors such as ESL/ELL/EAL status that would predict students' reading performance in an English language arts exam taken across Canada. Using data from the 2007 administration of the Pan-Canadian Assessment Program (PCAP) along with the accompanying surveys for students and…

  1. QSAR models for prediction study of HIV protease inhibitors using support vector machines, neural networks and multiple linear regression

    Directory of Open Access Journals (Sweden)

    Rachid Darnag

    2017-02-01

    Full Text Available Support vector machines (SVM represent one of the most promising Machine Learning (ML tools that can be applied to develop a predictive quantitative structure–activity relationship (QSAR models using molecular descriptors. Multiple linear regression (MLR and artificial neural networks (ANNs were also utilized to construct quantitative linear and non linear models to compare with the results obtained by SVM. The prediction results are in good agreement with the experimental value of HIV activity; also, the results reveal the superiority of the SVM over MLR and ANN model. The contribution of each descriptor to the structure–activity relationships was evaluated.

  2. Linear regression

    CERN Document Server

    Olive, David J

    2017-01-01

    This text covers both multiple linear regression and some experimental design models. The text uses the response plot to visualize the model and to detect outliers, does not assume that the error distribution has a known parametric distribution, develops prediction intervals that work when the error distribution is unknown, suggests bootstrap hypothesis tests that may be useful for inference after variable selection, and develops prediction regions and large sample theory for the multivariate linear regression model that has m response variables. A relationship between multivariate prediction regions and confidence regions provides a simple way to bootstrap confidence regions. These confidence regions often provide a practical method for testing hypotheses. There is also a chapter on generalized linear models and generalized additive models. There are many R functions to produce response and residual plots, to simulate prediction intervals and hypothesis tests, to detect outliers, and to choose response trans...

  3. Gyrokinetic simulations with external resonant magnetic perturbations: Island torque and nonambipolar transport with plasma rotation

    Science.gov (United States)

    Waltz, R. E.; Waelbroeck, F. L.

    2012-03-01

    Static external resonant magnetic field perturbations (RMPs) have been added to the gyrokinetic code GYRO [J. Candy and R. E. Waltz, J. Comp. Phys. 186, 545 (2003)]. This allows nonlinear gyrokinetic simulations of the nonambipolar radial current flow jr, and the corresponding j→×B→ plasma torque (density) R[jrBp/c], induced by magnetic islands that break the toroidal symmetry of a tokamak. This extends the previous GYRO formulation for the transport of toroidal angular momentum (TAM) [R. E. Waltz, G. M. Staebler, J. Candy, and F. L. Hinton, Phys. Plasmas 14, 122507 (2007); errata 16, 079902 (2009)]. The focus is on electrostatic full torus radial slice simulations of externally induced q =m/n=6/3 islands with widths 5% of the minor radius or about 20 ion gyroradii. Up to moderately strong E ×B rotation, the island torque scales with the radial electric field at the resonant surface Er, the island width w, and the intensity I of the high-n micro-turbulence, as Erw√I . The radial current inside the island is carried (entirely in the n =3 component) and almost entirely by the ion E ×B flux, since the electron E ×B and magnetic flutter particle fluxes are cancelled. The net island torque is null at zero Er rather than at zero toroidal rotation. This means that while the expected magnetic braking of the toroidal plasma rotation occurs at strong co- and counter-current rotation, at null toroidal rotation, there is a small co-directed magnetic acceleration up to the small diamagnetic (ion pressure gradient driven) co-rotation corresponding to the zero Er and null torque. This could be called the residual stress from an externally induced island. At zero Er, the only effect is the expected partial flattening of the electron temperature gradient within the island. Finite-beta GYRO simulations demonstrate almost complete RMP field screening and n =3 mode unlocking at strong Er.

  4. MULTIPLE LINEAR REGRESSION ANALYSIS FOR PREDICTION OF BOILER LOSSES AND BOILER EFFICIENCY

    OpenAIRE

    Chayalakshmi C.L

    2018-01-01

    MULTIPLE LINEAR REGRESSION ANALYSIS FOR PREDICTION OF BOILER LOSSES AND BOILER EFFICIENCY ABSTRACT Calculation of boiler efficiency is essential if its parameters need to be controlled for either maintaining or enhancing its efficiency. But determination of boiler efficiency using conventional method is time consuming and very expensive. Hence, it is not recommended to find boiler efficiency frequently. The work presented in this paper deals with establishing the statistical mo...

  5. Variables Predicting Foreign Language Reading Comprehension and Vocabulary Acquisition in a Linear Hypermedia Environment

    Science.gov (United States)

    Akbulut, Yavuz

    2007-01-01

    Factors predicting vocabulary learning and reading comprehension of advanced language learners of English in a linear multimedia text were investigated in the current study. Predictor variables of interest were multimedia type, reading proficiency, learning styles, topic interest and background knowledge about the topic. The outcome variables of…

  6. A comparison of random forest regression and multiple linear regression for prediction in neuroscience.

    Science.gov (United States)

    Smith, Paul F; Ganesh, Siva; Liu, Ping

    2013-10-30

    Regression is a common statistical tool for prediction in neuroscience. However, linear regression is by far the most common form of regression used, with regression trees receiving comparatively little attention. In this study, the results of conventional multiple linear regression (MLR) were compared with those of random forest regression (RFR), in the prediction of the concentrations of 9 neurochemicals in the vestibular nucleus complex and cerebellum that are part of the l-arginine biochemical pathway (agmatine, putrescine, spermidine, spermine, l-arginine, l-ornithine, l-citrulline, glutamate and γ-aminobutyric acid (GABA)). The R(2) values for the MLRs were higher than the proportion of variance explained values for the RFRs: 6/9 of them were ≥ 0.70 compared to 4/9 for RFRs. Even the variables that had the lowest R(2) values for the MLRs, e.g. ornithine (0.50) and glutamate (0.61), had much lower proportion of variance explained values for the RFRs (0.27 and 0.49, respectively). The RSE values for the MLRs were lower than those for the RFRs in all but two cases. In general, MLRs seemed to be superior to the RFRs in terms of predictive value and error. In the case of this data set, MLR appeared to be superior to RFR in terms of its explanatory value and error. This result suggests that MLR may have advantages over RFR for prediction in neuroscience with this kind of data set, but that RFR can still have good predictive value in some cases. Copyright © 2013 Elsevier B.V. All rights reserved.

  7. Prediction of linear B-cell epitopes of hepatitis C virus for vaccine development

    Science.gov (United States)

    2015-01-01

    Background High genetic heterogeneity in the hepatitis C virus (HCV) is the major challenge of the development of an effective vaccine. Existing studies for developing HCV vaccines have mainly focused on T-cell immune response. However, identification of linear B-cell epitopes that can stimulate B-cell response is one of the major tasks of peptide-based vaccine development. Owing to the variability in B-cell epitope length, the prediction of B-cell epitopes is much more complex than that of T-cell epitopes. Furthermore, the motifs of linear B-cell epitopes in different pathogens are quite different (e. g. HCV and hepatitis B virus). To cope with this challenge, this work aims to propose an HCV-customized sequence-based prediction method to identify B-cell epitopes of HCV. Results This work establishes an experimentally verified dataset comprising the B-cell response of HCV dataset consisting of 774 linear B-cell epitopes and 774 non B-cell epitopes from the Immune Epitope Database. An interpretable rule mining system of B-cell epitopes (IRMS-BE) is proposed to select informative physicochemical properties (PCPs) and then extracts several if-then rule-based knowledge for identifying B-cell epitopes. A web server Bcell-HCV was implemented using an SVM with the 34 informative PCPs, which achieved a training accuracy of 79.7% and test accuracy of 70.7% better than the SVM-based methods for identifying B-cell epitopes of HCV and the two general-purpose methods. This work performs advanced analysis of the 34 informative properties, and the results indicate that the most effective property is the alpha-helix structure of epitopes, which influences the connection between host cells and the E2 proteins of HCV. Furthermore, 12 interpretable rules are acquired from top-five PCPs and achieve a sensitivity of 75.6% and specificity of 71.3%. Finally, a conserved promising vaccine candidate, PDREMVLYQE, is identified for inclusion in a vaccine against HCV. Conclusions This work

  8. Flexible non-linear predictive models for large-scale wind turbine diagnostics

    DEFF Research Database (Denmark)

    Bach-Andersen, Martin; Rømer-Odgaard, Bo; Winther, Ole

    2017-01-01

    We demonstrate how flexible non-linear models can provide accurate and robust predictions on turbine component temperature sensor data using data-driven principles and only a minimum of system modeling. The merits of different model architectures are evaluated using data from a large set...... of turbines operating under diverse conditions. We then go on to test the predictive models in a diagnostic setting, where the output of the models are used to detect mechanical faults in rotor bearings. Using retrospective data from 22 actual rotor bearing failures, the fault detection performance...... of the models are quantified using a structured framework that provides the metrics required for evaluating the performance in a fleet wide monitoring setup. It is demonstrated that faults are identified with high accuracy up to 45 days before a warning from the hard-threshold warning system....

  9. The use of artificial neural networks and multiple linear regression to predict rate of medical waste generation

    International Nuclear Information System (INIS)

    Jahandideh, Sepideh; Jahandideh, Samad; Asadabadi, Ebrahim Barzegari; Askarian, Mehrdad; Movahedi, Mohammad Mehdi; Hosseini, Somayyeh; Jahandideh, Mina

    2009-01-01

    Prediction of the amount of hospital waste production will be helpful in the storage, transportation and disposal of hospital waste management. Based on this fact, two predictor models including artificial neural networks (ANNs) and multiple linear regression (MLR) were applied to predict the rate of medical waste generation totally and in different types of sharp, infectious and general. In this study, a 5-fold cross-validation procedure on a database containing total of 50 hospitals of Fars province (Iran) were used to verify the performance of the models. Three performance measures including MAR, RMSE and R 2 were used to evaluate performance of models. The MLR as a conventional model obtained poor prediction performance measure values. However, MLR distinguished hospital capacity and bed occupancy as more significant parameters. On the other hand, ANNs as a more powerful model, which has not been introduced in predicting rate of medical waste generation, showed high performance measure values, especially 0.99 value of R 2 confirming the good fit of the data. Such satisfactory results could be attributed to the non-linear nature of ANNs in problem solving which provides the opportunity for relating independent variables to dependent ones non-linearly. In conclusion, the obtained results showed that our ANN-based model approach is very promising and may play a useful role in developing a better cost-effective strategy for waste management in future.

  10. Improved prediction of residue flexibility by embedding optimized amino acid grouping into RSA-based linear models.

    Science.gov (United States)

    Zhang, Hua; Kurgan, Lukasz

    2014-12-01

    Knowledge of protein flexibility is vital for deciphering the corresponding functional mechanisms. This knowledge would help, for instance, in improving computational drug design and refinement in homology-based modeling. We propose a new predictor of the residue flexibility, which is expressed by B-factors, from protein chains that use local (in the chain) predicted (or native) relative solvent accessibility (RSA) and custom-derived amino acid (AA) alphabets. Our predictor is implemented as a two-stage linear regression model that uses RSA-based space in a local sequence window in the first stage and a reduced AA pair-based space in the second stage as the inputs. This method is easy to comprehend explicit linear form in both stages. Particle swarm optimization was used to find an optimal reduced AA alphabet to simplify the input space and improve the prediction performance. The average correlation coefficients between the native and predicted B-factors measured on a large benchmark dataset are improved from 0.65 to 0.67 when using the native RSA values and from 0.55 to 0.57 when using the predicted RSA values. Blind tests that were performed on two independent datasets show consistent improvements in the average correlation coefficients by a modest value of 0.02 for both native and predicted RSA-based predictions.

  11. A simple method for HPLC retention time prediction: linear calibration using two reference substances.

    Science.gov (United States)

    Sun, Lei; Jin, Hong-Yu; Tian, Run-Tao; Wang, Ming-Juan; Liu, Li-Na; Ye, Liu-Ping; Zuo, Tian-Tian; Ma, Shuang-Cheng

    2017-01-01

    Analysis of related substances in pharmaceutical chemicals and multi-components in traditional Chinese medicines needs bulk of reference substances to identify the chromatographic peaks accurately. But the reference substances are costly. Thus, the relative retention (RR) method has been widely adopted in pharmacopoeias and literatures for characterizing HPLC behaviors of those reference substances unavailable. The problem is it is difficult to reproduce the RR on different columns due to the error between measured retention time (t R ) and predicted t R in some cases. Therefore, it is useful to develop an alternative and simple method for prediction of t R accurately. In the present study, based on the thermodynamic theory of HPLC, a method named linear calibration using two reference substances (LCTRS) was proposed. The method includes three steps, procedure of two points prediction, procedure of validation by multiple points regression and sequential matching. The t R of compounds on a HPLC column can be calculated by standard retention time and linear relationship. The method was validated in two medicines on 30 columns. It was demonstrated that, LCTRS method is simple, but more accurate and more robust on different HPLC columns than RR method. Hence quality standards using LCTRS method are easy to reproduce in different laboratories with lower cost of reference substances.

  12. [Prediction model of health workforce and beds in county hospitals of Hunan by multiple linear regression].

    Science.gov (United States)

    Ling, Ru; Liu, Jiawang

    2011-12-01

    To construct prediction model for health workforce and hospital beds in county hospitals of Hunan by multiple linear regression. We surveyed 16 counties in Hunan with stratified random sampling according to uniform questionnaires,and multiple linear regression analysis with 20 quotas selected by literature view was done. Independent variables in the multiple linear regression model on medical personnels in county hospitals included the counties' urban residents' income, crude death rate, medical beds, business occupancy, professional equipment value, the number of devices valued above 10 000 yuan, fixed assets, long-term debt, medical income, medical expenses, outpatient and emergency visits, hospital visits, actual available bed days, and utilization rate of hospital beds. Independent variables in the multiple linear regression model on county hospital beds included the the population of aged 65 and above in the counties, disposable income of urban residents, medical personnel of medical institutions in county area, business occupancy, the total value of professional equipment, fixed assets, long-term debt, medical income, medical expenses, outpatient and emergency visits, hospital visits, actual available bed days, utilization rate of hospital beds, and length of hospitalization. The prediction model shows good explanatory and fitting, and may be used for short- and mid-term forecasting.

  13. Comparison of Linear and Nonlinear Model Predictive Control for Optimization of Spray Dryer Operation

    DEFF Research Database (Denmark)

    Petersen, Lars Norbert; Poulsen, Niels Kjølstad; Niemann, Hans Henrik

    2015-01-01

    In this paper, we compare the performance of an economically optimizing Nonlinear Model Predictive Controller (E-NMPC) to a linear tracking Model Predictive Controller (MPC) for a spray drying plant. We find in this simulation study, that the economic performance of the two controllers are almost...... equal. We evaluate the economic performance with an industrially recorded disturbance scenario, where unmeasured disturbances and model mismatch are present. The state of the spray dryer, used in the E-NMPC and MPC, is estimated using Kalman Filters with noise covariances estimated by a maximum...

  14. Gyrokinetic Electron and Fully Kinetic Ion Particle Simulation of Collisionless Plasma Dynamics

    Energy Technology Data Exchange (ETDEWEB)

    Yu Lin; Xueyi Wang; Liu Chen; Zhihong Lin

    2009-08-11

    Fully kinetic-particle simulations and hybrid simulations have been utilized for decades to investigate various fundamental plasma processes, such as magnetic reconnection, fast compressional waves, and wave-particle interaction. Nevertheless, due to disparate temporal and spatial scales between electrons and ions, existing fully kinetic-particle codes have to employ either unrealistically high electron-to-ion mass ratio, me/mi, or simulation domain limited to a few or a few ten's of the ion Larmor radii, or/and time much less than the global Alfven time scale in order to accommodate available computing resources. On the other hand, in the hybrid simulation, the ions are treated as fully kinetic particles but the electrons are treated as a massless fluid. The electron kinetic effects, e.g., wave-particle resonances and finite electron Larmor radius effects, are completely missing. Important physics, such as the electron transit time damping of fast compressional waves or the triggering mechanism of magnetic reconnection in collisionless plasmas is absent in the hybrid codes. Motivated by these considerations and noting that dynamics of interest to us has frequencies lower than the electron gyrofrequency, we planned to develop an innovative particle simulation model, gyrokinetic (GK) electrons and fully kinetic (FK) ions. In the GK-electron and FK-ion (GKe/FKi) particle simulation model, the rapid electron cyclotron motion is removed, while keeping finite electron Larmor radii, realistic me/mi ratio, wave-particle interactions, and off-diagonal components of electron pressure tensor. The computation power can thus be significantly improved over that of the full-particle codes. As planned in the project DE-FG02-05ER54826, we have finished the development of the new GK-electron and FK-ion scheme, finished its benchmark for a uniform plasma in 1-D, 2-D, and 3-D systems against linear waves obtained from analytical theories, and carried out a further convergence

  15. Gyrokinetic Electron and Fully Kinetic Ion Particle Simulation of Collisionless Plasma Dynamics

    International Nuclear Information System (INIS)

    Lin, Yu; Wang, Xueyi; Chen, Liu; Lin, Zhihong

    2009-01-01

    Fully kinetic-particle simulations and hybrid simulations have been utilized for decades to investigate various fundamental plasma processes, such as magnetic reconnection, fast compressional waves, and wave-particle interaction. Nevertheless, due to disparate temporal and spatial scales between electrons and ions, existing fully kinetic-particle codes have to employ either unrealistically high electron-to-ion mass ratio, me/mi, or simulation domain limited to a few or a few ten's of the ion Larmor radii, or/and time much less than the global Alfven time scale in order to accommodate available computing resources. On the other hand, in the hybrid simulation, the ions are treated as fully kinetic particles but the electrons are treated as a massless fluid. The electron kinetic effects, e.g., wave-particle resonances and finite electron Larmor radius effects, are completely missing. Important physics, such as the electron transit time damping of fast compressional waves or the triggering mechanism of magnetic reconnection in collisionless plasmas is absent in the hybrid codes. Motivated by these considerations and noting that dynamics of interest to us has frequencies lower than the electron gyrofrequency, we planned to develop an innovative particle simulation model, gyrokinetic (GK) electrons and fully kinetic (FK) ions. In the GK-electron and FK-ion (GKe/FKi) particle simulation model, the rapid electron cyclotron motion is removed, while keeping finite electron Larmor radii, realistic me/mi ratio, wave-particle interactions, and off-diagonal components of electron pressure tensor. The computation power can thus be significantly improved over that of the full-particle codes. As planned in the project DE-FG02-05ER54826, we have finished the development of the new GK-electron and FK-ion scheme, finished its benchmark for a uniform plasma in 1-D, 2-D, and 3-D systems against linear waves obtained from analytical theories, and carried out a further convergence test

  16. Towards Automated Binding Affinity Prediction Using an Iterative Linear Interaction Energy Approach

    Directory of Open Access Journals (Sweden)

    C. Ruben Vosmeer

    2014-01-01

    Full Text Available Binding affinity prediction of potential drugs to target and off-target proteins is an essential asset in drug development. These predictions require the calculation of binding free energies. In such calculations, it is a major challenge to properly account for both the dynamic nature of the protein and the possible variety of ligand-binding orientations, while keeping computational costs tractable. Recently, an iterative Linear Interaction Energy (LIE approach was introduced, in which results from multiple simulations of a protein-ligand complex are combined into a single binding free energy using a Boltzmann weighting-based scheme. This method was shown to reach experimental accuracy for flexible proteins while retaining the computational efficiency of the general LIE approach. Here, we show that the iterative LIE approach can be used to predict binding affinities in an automated way. A workflow was designed using preselected protein conformations, automated ligand docking and clustering, and a (semi-automated molecular dynamics simulation setup. We show that using this workflow, binding affinities of aryloxypropanolamines to the malleable Cytochrome P450 2D6 enzyme can be predicted without a priori knowledge of dominant protein-ligand conformations. In addition, we provide an outlook for an approach to assess the quality of the LIE predictions, based on simulation outcomes only.

  17. Integrating piecewise linear representation and ensemble neural network for stock price prediction

    OpenAIRE

    Asaduzzaman, Md.; Shahjahan, Md.; Ahmed, Fatema Johera; Islam, Md. Monirul; Murase, Kazuyuki

    2014-01-01

    Stock Prices are considered to be very dynamic and susceptible to quick changes because of the underlying nature of the financial domain, and in part because of the interchange between known parameters and unknown factors. Of late, several researchers have used Piecewise Linear Representation (PLR) to predict the stock market pricing. However, some improvements are needed to avoid the appropriate threshold of the trading decision, choosing the input index as well as improving the overall perf...

  18. Gyrokinetic simulations of ETG Turbulence*

    Science.gov (United States)

    Nevins, William

    2005-10-01

    Recent gyrokinetic simulations of electron temperature gradient (ETG) turbulence [1,2] produced different results despite similar plasma parameters. Ref.[1] differs from Ref.[2] in that [1] eliminates magnetically trapped particles ( r/R=0 ), while [2] retains magnetically trapped particles ( r/R 0.18 ). Differences between [1] and [2] have been attributed to insufficient phase-space resolution and novel physics associated with toroidicity and/or global simulations[2]. We have reproduced the results reported in [2] using a flux-tube, particle-in-cell (PIC) code, PG3EQ[3], thereby eliminating global effects as the cause of the discrepancy. We observe late-time decay of ETG turbulence and the steady-state heat transport in agreement with [2], and show this results from discrete particle noise. Discrete particle noise is a numerical artifact, so both the PG3EQ simulations reported here and those reported in Ref.[2] have little to say about steady-state ETG turbulence and the associated anomalous electron heat transport. Our attempts to benchmark PIC and continuum[4] codes at the plasma parameters used in Ref.[2] produced very large, intermittent transport. We will present an alternate benchmark point for ETG turbulence, where several codes reproduce the same transport levels. Parameter scans about this new benchmark point will be used to investigate the parameter dependence of ETG transport and to elucidate saturation mechanisms proposed in Refs.[1,2] and elsewhere[5-7].*In collaboration with A. Dimits (LLNL), J. Candy, C. Estrada-Mila (GA), W. Dorland (U of MD), F. Jenko, T. Dannert (Max-Planck Institut), and G. Hammett (PPPL). Work at LLNL performed for US DOE under Contract W7405-ENG-48.[1] F. Jenko and W. Dorland, PRL 89, 225001 (2002).[2] Z. Lin et al, 2004 Sherwood Mtg.; 2004 TTF Mtg.; Fusion Energy 2004 (IAEA, Vienna, 2005); Bull. Am. Phys. Soc. (November, 2004); 2005 TTF Mtg.; 2005 Sherwood Mtg.; Z. Lin, et al, Phys. Plasmas 12, 056125 (2005). [3] A.M. Dimits

  19. Center for Gyrokinetic Particle Simulation of Turbulent Transport in Burning Plasma

    International Nuclear Information System (INIS)

    Decyk, Viktor K.

    2008-01-01

    The UCLA work on this grant was to design and help implement an object-oriented version of the GTC code, which is written in Fortran90. The GTC code is the main global gyrokinetic code used in this project, and over the years multiple, incompatible versions have evolved. The reason for this effort is to allow multiple authors to work together on GTC and to simplify future enhancements to GTC. The effort was designed to proceed incrementally. Initially, an upper layer of classes (derived types and methods) was implemented which called the original GTC code 'under the hood.' The derived types pointed to data in the original GTC code, and the methods called the original GTC subroutines. The original GTC code was modified only very slightly. This allowed one to define (and refine) a set of classes which described the important features of the GTC code in a new, more abstract way, with a minimum of implementation. Furthermore, classes could be added one at a time, and at the end of the each day, the code continued to work correctly. This work was done in close collaboration with Y. Nishimura from UC Irvine and Stefan Ethier from PPPL. Ten classes were ultimately defined and implemented: gyrokinetic and drift kinetic particles, scalar and vector fields, a mesh, jacobian, FLR, equilibrium, interpolation, and particles species descriptors. In the second state of this development, some of the scaffolding was removed. The constructors in the class objects now allocated the data and the array data in the original GTC code was removed. This isolated the components and now allowed multiple instantiations of the objects to be created, in particular, multiple ion species. Again, the work was done incrementally, one class at a time, so that the code was always working properly. This work was done in close collaboration with Y. Nishimura and W. Zhang from UC Irvine and Stefan Ethier from PPPL. The third stage of this work was to integrate the capabilities of the various versions of

  20. A study on two phase flows of linear compressors for the prediction of refrigerant leakage

    International Nuclear Information System (INIS)

    Hwang, Il Sun; Lee, Young Lim; Oh, Won Sik; Park, Kyeong Bae

    2015-01-01

    Usage of linear compressors is on the rise due to their high efficiency. In this paper, leakage of a linear compressor has been studied through numerical analysis and experiments. First, nitrogen leakage for a stagnant piston with fixed cylinder pressure as well as for a moving piston with fixed cylinder pressure was analyzed to verify the validity of the two-phase flow analysis model. Next, refrigerant leakage of a linear compressor in operation was finally predicted through 3-dimensional unsteady, two phase flow CFD (Computational fluid dynamics). According to the research results, the numerical analyses for the fixed cylinder pressure models were in good agreement with the experimental results. The refrigerant leakage of the linear compressor in operation mainly occurred through the oil exit and the leakage became negligible after about 0.4s following operation where the leakage became lower than 2.0x10 -4 kg/s.

  1. Performance Characteristics and Prediction of Bodyweight using Linear Body Measurements in Four Strains of Broiler Chicken

    OpenAIRE

    I. Udeh; J.O. Isikwenu and G. Ukughere

    2011-01-01

    The objectives of this study were to compare the performance characteristics of four strains of broiler chicken from 2 to 8 weeks of age and predict body weight of the broilers using linear body measurements. The four strains of broiler chicken used were Anak, Arbor Acre, Ross and Marshall. The parameters recorded were bodyweight, weight gain, total feed intake, feed conversion ratio, mortality and some linear body measurements (body length, body width, breast width, drumstick length, shank l...

  2. Plateletpheresis efficiency and mathematical correction of software-derived platelet yield prediction: A linear regression and ROC modeling approach.

    Science.gov (United States)

    Jaime-Pérez, José Carlos; Jiménez-Castillo, Raúl Alberto; Vázquez-Hernández, Karina Elizabeth; Salazar-Riojas, Rosario; Méndez-Ramírez, Nereida; Gómez-Almaguer, David

    2017-10-01

    Advances in automated cell separators have improved the efficiency of plateletpheresis and the possibility of obtaining double products (DP). We assessed cell processor accuracy of predicted platelet (PLT) yields with the goal of a better prediction of DP collections. This retrospective proof-of-concept study included 302 plateletpheresis procedures performed on a Trima Accel v6.0 at the apheresis unit of a hematology department. Donor variables, software predicted yield and actual PLT yield were statistically evaluated. Software prediction was optimized by linear regression analysis and its optimal cut-off to obtain a DP assessed by receiver operating characteristic curve (ROC) modeling. Three hundred and two plateletpheresis procedures were performed; in 271 (89.7%) occasions, donors were men and in 31 (10.3%) women. Pre-donation PLT count had the best direct correlation with actual PLT yield (r = 0.486. P Simple correction derived from linear regression analysis accurately corrected this underestimation and ROC analysis identified a precise cut-off to reliably predict a DP. © 2016 Wiley Periodicals, Inc.

  3. Dynamics and control of quadcopter using linear model predictive control approach

    Science.gov (United States)

    Islam, M.; Okasha, M.; Idres, M. M.

    2017-12-01

    This paper investigates the dynamics and control of a quadcopter using the Model Predictive Control (MPC) approach. The dynamic model is of high fidelity and nonlinear, with six degrees of freedom that include disturbances and model uncertainties. The control approach is developed based on MPC to track different reference trajectories ranging from simple ones such as circular to complex helical trajectories. In this control technique, a linearized model is derived and the receding horizon method is applied to generate the optimal control sequence. Although MPC is computer expensive, it is highly effective to deal with the different types of nonlinearities and constraints such as actuators’ saturation and model uncertainties. The MPC parameters (control and prediction horizons) are selected by trial-and-error approach. Several simulation scenarios are performed to examine and evaluate the performance of the proposed control approach using MATLAB and Simulink environment. Simulation results show that this control approach is highly effective to track a given reference trajectory.

  4. Prediction of protein interaction hot spots using rough set-based multiple criteria linear programming.

    Science.gov (United States)

    Chen, Ruoying; Zhang, Zhiwang; Wu, Di; Zhang, Peng; Zhang, Xinyang; Wang, Yong; Shi, Yong

    2011-01-21

    Protein-protein interactions are fundamentally important in many biological processes and it is in pressing need to understand the principles of protein-protein interactions. Mutagenesis studies have found that only a small fraction of surface residues, known as hot spots, are responsible for the physical binding in protein complexes. However, revealing hot spots by mutagenesis experiments are usually time consuming and expensive. In order to complement the experimental efforts, we propose a new computational approach in this paper to predict hot spots. Our method, Rough Set-based Multiple Criteria Linear Programming (RS-MCLP), integrates rough sets theory and multiple criteria linear programming to choose dominant features and computationally predict hot spots. Our approach is benchmarked by a dataset of 904 alanine-mutated residues and the results show that our RS-MCLP method performs better than other methods, e.g., MCLP, Decision Tree, Bayes Net, and the existing HotSprint database. In addition, we reveal several biological insights based on our analysis. We find that four features (the change of accessible surface area, percentage of the change of accessible surface area, size of a residue, and atomic contacts) are critical in predicting hot spots. Furthermore, we find that three residues (Tyr, Trp, and Phe) are abundant in hot spots through analyzing the distribution of amino acids. Copyright © 2010 Elsevier Ltd. All rights reserved.

  5. Coupled ion temperature gradient and trapped electron mode to electron temperature gradient mode gyrokinetic simulations

    International Nuclear Information System (INIS)

    Waltz, R. E.; Candy, J.; Fahey, M.

    2007-01-01

    Electron temperature gradient (ETG) transport is conventionally defined as the electron energy transport at high wave number (high-k) where ions are adiabatic and there can be no ion energy or plasma transport. Previous gyrokinetic simulations have assumed adiabatic ions (ETG-ai) and work on the small electron gyroradius scale. However such ETG-ai simulations with trapped electrons often do not have well behaved nonlinear saturation unless fully kinetic ions (ki) and proper ion scale zonal flow modes are included. Electron energy transport is separated into ETG-ki at high-k and ion temperature gradient-trapped electron mode (ITG/TEM) at low-k. Expensive (more computer-intensive), high-resolution, large-ion-scale flux-tube simulations coupling ITG/TEM and ETG-ki turbulence are presented. These require a high effective Reynolds number R≡[k(max)/k(min)] 2 =μ 2 , where μ=[ρ si /ρ si ] is the ratio of ion to electron gyroradii. Compute times scale faster than μ 3 . By comparing the coupled expensive simulations with (1) much cheaper (less compute-intensive), uncoupled, high-resolution, small, flux-tube ETG-ki and with (2) uncoupled low-resolution, large, flux-tube ITG/TEM simulations, and also by artificially turning ''off'' the low-k or high-k drives, it appears that ITG/TEM and ETG-ki transport are not strongly coupled so long as ETG-ki can access some nonadiabatic ion scale zonal flows and both high-k and low-k are linearly unstable. However expensive coupled simulations are required for physically accurate k-spectra of the transport and turbulence. Simulations with μ≥30 appear to represent the physical range μ>40. ETG-ki transport measured in ion gyro-Bohm units is weakly dependent on μ. For the mid-radius core tokamak plasma parameters studied, ETG-ki is about 10% of the electron energy transport, which in turn is about 30% of the total energy transport (with negligible ExB shear). However at large ExB shear sufficient to quench the low-k ITG

  6. Managing locality in grand challenge applications: a case study of the gyrokinetic toroidal code

    Energy Technology Data Exchange (ETDEWEB)

    Marin, G; Jin, G; Mellor-Crummey, J [Department of Computer Science, Rice University, Houston, TX 77005 (United States)

    2008-07-15

    Achieving high performance with grand challenge applications on today's large-scale parallel systems requires tailoring applications for the characteristics of the modern microprocessor architectures. As part of the US Department of Energy's Scientific Discovery through Advanced Computing (SciDAC) program, we studied and tuned the Gyrokinetic Toroidal Code (GTC), a particle-in-cell code for simulating turbulent transport of particles and energy in burning plasma, developed at Princeton Plasma Physics Laboratory. In this paper, we present a performance study of the application that revealed several opportunities for improving performance by enhancing its data locality. We tuned GTC by performing three kinds of transformations: static data structure reorganization to improve spatial locality, loop nest restructuring for better temporal locality, and dynamic data reordering at run-time to enhance both spatial and temporal reuse. Experimental results show that these changes improve execution time by more than 20% on large parallel systems, including a Cray XT4.

  7. Managing locality in grand challenge applications: a case study of the gyrokinetic toroidal code

    International Nuclear Information System (INIS)

    Marin, G; Jin, G; Mellor-Crummey, J

    2008-01-01

    Achieving high performance with grand challenge applications on today's large-scale parallel systems requires tailoring applications for the characteristics of the modern microprocessor architectures. As part of the US Department of Energy's Scientific Discovery through Advanced Computing (SciDAC) program, we studied and tuned the Gyrokinetic Toroidal Code (GTC), a particle-in-cell code for simulating turbulent transport of particles and energy in burning plasma, developed at Princeton Plasma Physics Laboratory. In this paper, we present a performance study of the application that revealed several opportunities for improving performance by enhancing its data locality. We tuned GTC by performing three kinds of transformations: static data structure reorganization to improve spatial locality, loop nest restructuring for better temporal locality, and dynamic data reordering at run-time to enhance both spatial and temporal reuse. Experimental results show that these changes improve execution time by more than 20% on large parallel systems, including a Cray XT4

  8. Predicting Fuel Ignition Quality Using 1H NMR Spectroscopy and Multiple Linear Regression

    KAUST Repository

    Abdul Jameel, Abdul Gani

    2016-09-14

    An improved model for the prediction of ignition quality of hydrocarbon fuels has been developed using 1H nuclear magnetic resonance (NMR) spectroscopy and multiple linear regression (MLR) modeling. Cetane number (CN) and derived cetane number (DCN) of 71 pure hydrocarbons and 54 hydrocarbon blends were utilized as a data set to study the relationship between ignition quality and molecular structure. CN and DCN are functional equivalents and collectively referred to as D/CN, herein. The effect of molecular weight and weight percent of structural parameters such as paraffinic CH3 groups, paraffinic CH2 groups, paraffinic CH groups, olefinic CH–CH2 groups, naphthenic CH–CH2 groups, and aromatic C–CH groups on D/CN was studied. A particular emphasis on the effect of branching (i.e., methyl substitution) on the D/CN was studied, and a new parameter denoted as the branching index (BI) was introduced to quantify this effect. A new formula was developed to calculate the BI of hydrocarbon fuels using 1H NMR spectroscopy. Multiple linear regression (MLR) modeling was used to develop an empirical relationship between D/CN and the eight structural parameters. This was then used to predict the DCN of many hydrocarbon fuels. The developed model has a high correlation coefficient (R2 = 0.97) and was validated with experimentally measured DCN of twenty-two real fuel mixtures (e.g., gasolines and diesels) and fifty-nine blends of known composition, and the predicted values matched well with the experimental data.

  9. Improving sub-pixel imperviousness change prediction by ensembling heterogeneous non-linear regression models

    Science.gov (United States)

    Drzewiecki, Wojciech

    2016-12-01

    In this work nine non-linear regression models were compared for sub-pixel impervious surface area mapping from Landsat images. The comparison was done in three study areas both for accuracy of imperviousness coverage evaluation in individual points in time and accuracy of imperviousness change assessment. The performance of individual machine learning algorithms (Cubist, Random Forest, stochastic gradient boosting of regression trees, k-nearest neighbors regression, random k-nearest neighbors regression, Multivariate Adaptive Regression Splines, averaged neural networks, and support vector machines with polynomial and radial kernels) was also compared with the performance of heterogeneous model ensembles constructed from the best models trained using particular techniques. The results proved that in case of sub-pixel evaluation the most accurate prediction of change may not necessarily be based on the most accurate individual assessments. When single methods are considered, based on obtained results Cubist algorithm may be advised for Landsat based mapping of imperviousness for single dates. However, Random Forest may be endorsed when the most reliable evaluation of imperviousness change is the primary goal. It gave lower accuracies for individual assessments, but better prediction of change due to more correlated errors of individual predictions. Heterogeneous model ensembles performed for individual time points assessments at least as well as the best individual models. In case of imperviousness change assessment the ensembles always outperformed single model approaches. It means that it is possible to improve the accuracy of sub-pixel imperviousness change assessment using ensembles of heterogeneous non-linear regression models.

  10. A Dantzig-Wolfe decomposition algorithm for linear economic model predictive control of dynamically decoupled subsystems

    DEFF Research Database (Denmark)

    Sokoler, Leo Emil; Standardi, Laura; Edlund, Kristian

    2014-01-01

    This paper presents a warm-started Dantzig–Wolfe decomposition algorithm tailored to economic model predictive control of dynamically decoupled subsystems. We formulate the constrained optimal control problem solved at each sampling instant as a linear program with state space constraints, input...... limits, input rate limits, and soft output limits. The objective function of the linear program is related directly to the cost of operating the subsystems, and the cost of violating the soft output constraints. Simulations for large-scale economic power dispatch problems show that the proposed algorithm...... is significantly faster than both state-of-the-art linear programming solvers, and a structure exploiting implementation of the alternating direction method of multipliers. It is also demonstrated that the control strategy presented in this paper can be tuned using a weighted ℓ1-regularization term...

  11. Robust distributed model predictive control of linear systems with structured time-varying uncertainties

    Science.gov (United States)

    Zhang, Langwen; Xie, Wei; Wang, Jingcheng

    2017-11-01

    In this work, synthesis of robust distributed model predictive control (MPC) is presented for a class of linear systems subject to structured time-varying uncertainties. By decomposing a global system into smaller dimensional subsystems, a set of distributed MPC controllers, instead of a centralised controller, are designed. To ensure the robust stability of the closed-loop system with respect to model uncertainties, distributed state feedback laws are obtained by solving a min-max optimisation problem. The design of robust distributed MPC is then transformed into solving a minimisation optimisation problem with linear matrix inequality constraints. An iterative online algorithm with adjustable maximum iteration is proposed to coordinate the distributed controllers to achieve a global performance. The simulation results show the effectiveness of the proposed robust distributed MPC algorithm.

  12. Predicting non-linear dynamics by stable local learning in a recurrent spiking neural network.

    Science.gov (United States)

    Gilra, Aditya; Gerstner, Wulfram

    2017-11-27

    The brain needs to predict how the body reacts to motor commands, but how a network of spiking neurons can learn non-linear body dynamics using local, online and stable learning rules is unclear. Here, we present a supervised learning scheme for the feedforward and recurrent connections in a network of heterogeneous spiking neurons. The error in the output is fed back through fixed random connections with a negative gain, causing the network to follow the desired dynamics. The rule for Feedback-based Online Local Learning Of Weights (FOLLOW) is local in the sense that weight changes depend on the presynaptic activity and the error signal projected onto the postsynaptic neuron. We provide examples of learning linear, non-linear and chaotic dynamics, as well as the dynamics of a two-link arm. Under reasonable approximations, we show, using the Lyapunov method, that FOLLOW learning is uniformly stable, with the error going to zero asymptotically.

  13. Applying linear discriminant analysis to predict groundwater redox conditions conducive to denitrification

    Science.gov (United States)

    Wilson, S. R.; Close, M. E.; Abraham, P.

    2018-01-01

    Diffuse nitrate losses from agricultural land pollute groundwater resources worldwide, but can be attenuated under reducing subsurface conditions. In New Zealand, the ability to predict where groundwater denitrification occurs is important for understanding the linkage between land use and discharges of nitrate-bearing groundwater to streams. This study assesses the application of linear discriminant analysis (LDA) for predicting groundwater redox status for Southland, a major dairy farming region in New Zealand. Data cases were developed by assigning a redox status to samples derived from a regional groundwater quality database. Pre-existing regional-scale geospatial databases were used as training variables for the discriminant functions. The predictive accuracy of the discriminant functions was slightly improved by optimising the thresholds between sample depth classes. The models predict 23% of the region as being reducing at shallow depths (water table, and low-permeability clastic sediments. The coastal plains are an area of widespread groundwater discharge, and the soil and hydrology characteristics require the land to be artificially drained to render the land suitable for farming. For the improvement of water quality in coastal areas, it is therefore important that land and water management efforts focus on understanding hydrological bypassing that may occur via artificial drainage systems.

  14. Considering linear generator copper losses on model predictive control for a point absorber wave energy converter

    International Nuclear Information System (INIS)

    Montoya Andrade, Dan-El; Villa Jaén, Antonio de la; García Santana, Agustín

    2014-01-01

    Highlights: • We considered the linear generator copper losses in the proposed MPC strategy. • We maximized the power transferred to the generator side power converter. • The proposed MPC increases the useful average power injected into the grid. • The stress level of the PTO system can be reduced by the proposed MPC. - Abstract: The amount of energy that a wave energy converter can extract depends strongly on the control strategy applied to the power take-off system. It is well known that, ideally, the reactive control allows for maximum energy extraction from waves. However, the reactive control is intrinsically noncausal in practice and requires some kind of causal approach to be applied. Moreover, this strategy does not consider physical constraints and this could be a problem because the system could achieve unacceptable dynamic values. These, and other control techniques have focused on the wave energy extraction problem in order to maximize the energy absorbed by the power take-off device without considering the possible losses in intermediate devices. In this sense, a reactive control that considers the linear generator copper losses has been recently proposed to increase the useful power injected into the grid. Among the control techniques that have emerged recently, the model predictive control represents a promising strategy. This approach performs an optimization process on a time prediction horizon incorporating dynamic constraints associated with the physical features of the power take-off system. This paper proposes a model predictive control technique that considers the copper losses in the control optimization process of point absorbers with direct drive linear generators. This proposal makes the most of reactive control as it considers the copper losses, and it makes the most of the model predictive control, as it considers the system constraints. This means that the useful power transferred from the linear generator to the power

  15. Linear Model-Based Predictive Control of the LHC 1.8 K Cryogenic Loop

    CERN Document Server

    Blanco-Viñuela, E; De Prada-Moraga, C

    1999-01-01

    The LHC accelerator will employ 1800 superconducting magnets (for guidance and focusing of the particle beams) in a pressurized superfluid helium bath at 1.9 K. This temperature is a severely constrained control parameter in order to avoid the transition from the superconducting to the normal state. Cryogenic processes are difficult to regulate due to their highly non-linear physical parameters (heat capacity, thermal conductance, etc.) and undesirable peculiarities like non self-regulating process, inverse response and variable dead time. To reduce the requirements on either temperature sensor or cryogenic system performance, various control strategies have been investigated on a reduced-scale LHC prototype built at CERN (String Test). Model Based Predictive Control (MBPC) is a regulation algorithm based on the explicit use of a process model to forecast the plant output over a certain prediction horizon. This predicted controlled variable is used in an on-line optimization procedure that minimizes an approp...

  16. U.S. Army Armament Research, Development and Engineering Center Grain Evaluation Software to Numerically Predict Linear Burn Regression for Solid Propellant Grain Geometries

    Science.gov (United States)

    2017-10-01

    ENGINEERING CENTER GRAIN EVALUATION SOFTWARE TO NUMERICALLY PREDICT LINEAR BURN REGRESSION FOR SOLID PROPELLANT GRAIN GEOMETRIES Brian...distribution is unlimited. AD U.S. ARMY ARMAMENT RESEARCH, DEVELOPMENT AND ENGINEERING CENTER Munitions Engineering Technology Center Picatinny...U.S. ARMY ARMAMENT RESEARCH, DEVELOPMENT AND ENGINEERING CENTER GRAIN EVALUATION SOFTWARE TO NUMERICALLY PREDICT LINEAR BURN REGRESSION FOR SOLID

  17. Predicting respiratory motion signals for image-guided radiotherapy using multi-step linear methods (MULIN)

    International Nuclear Information System (INIS)

    Ernst, Floris; Schweikard, Achim

    2008-01-01

    Forecasting of respiration motion in image-guided radiotherapy requires algorithms that can accurately and efficiently predict target location. Improved methods for respiratory motion forecasting were developed and tested. MULIN, a new family of prediction algorithms based on linear expansions of the prediction error, was developed and tested. Computer-generated data with a prediction horizon of 150 ms was used for testing in simulation experiments. MULIN was compared to Least Mean Squares-based predictors (LMS; normalized LMS, nLMS; wavelet-based multiscale autoregression, wLMS) and a multi-frequency Extended Kalman Filter (EKF) approach. The in vivo performance of the algorithms was tested on data sets of patients who underwent radiotherapy. The new MULIN methods are highly competitive, outperforming the LMS and the EKF prediction algorithms in real-world settings and performing similarly to optimized nLMS and wLMS prediction algorithms. On simulated, periodic data the MULIN algorithms are outperformed only by the EKF approach due to its inherent advantage in predicting periodic signals. In the presence of noise, the MULIN methods significantly outperform all other algorithms. The MULIN family of algorithms is a feasible tool for the prediction of respiratory motion, performing as well as or better than conventional algorithms while requiring significantly lower computational complexity. The MULIN algorithms are of special importance wherever high-speed prediction is required. (orig.)

  18. Predicting respiratory motion signals for image-guided radiotherapy using multi-step linear methods (MULIN)

    Energy Technology Data Exchange (ETDEWEB)

    Ernst, Floris; Schweikard, Achim [University of Luebeck, Institute for Robotics and Cognitive Systems, Luebeck (Germany)

    2008-06-15

    Forecasting of respiration motion in image-guided radiotherapy requires algorithms that can accurately and efficiently predict target location. Improved methods for respiratory motion forecasting were developed and tested. MULIN, a new family of prediction algorithms based on linear expansions of the prediction error, was developed and tested. Computer-generated data with a prediction horizon of 150 ms was used for testing in simulation experiments. MULIN was compared to Least Mean Squares-based predictors (LMS; normalized LMS, nLMS; wavelet-based multiscale autoregression, wLMS) and a multi-frequency Extended Kalman Filter (EKF) approach. The in vivo performance of the algorithms was tested on data sets of patients who underwent radiotherapy. The new MULIN methods are highly competitive, outperforming the LMS and the EKF prediction algorithms in real-world settings and performing similarly to optimized nLMS and wLMS prediction algorithms. On simulated, periodic data the MULIN algorithms are outperformed only by the EKF approach due to its inherent advantage in predicting periodic signals. In the presence of noise, the MULIN methods significantly outperform all other algorithms. The MULIN family of algorithms is a feasible tool for the prediction of respiratory motion, performing as well as or better than conventional algorithms while requiring significantly lower computational complexity. The MULIN algorithms are of special importance wherever high-speed prediction is required. (orig.)

  19. Gyrokinetic simulation of particle and heat transport in the presence of Wide orbits and strong profile variations in the Edge plasma

    International Nuclear Information System (INIS)

    Heikkinen, J.A.; Henriksson, S.; Janhunen, S.; Kiviniemi, T.P.; Ogando, F.

    2006-01-01

    A full f nonlinear 5D gyrokinetic electrostatic particle-in-cell code ELMFIRE using an implicit direct solution method for ion polarization drift and electron parallel velocity response to electric field and its validation are described. The developed code is applied for transport analysis in a tokamak plasma at steep pressure gradient. The role of turbulence and neoclassical equilibrium in determining the flux surface averaged radial electric field component are investigated, as well as the role of the latter in affecting the saturation level of the turbulence. (copyright 2006 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim) (orig.)

  20. A correlation electron cyclotron emission diagnostic and the importance of multifield fluctuation measurements for testing nonlinear gyrokinetic turbulence simulations.

    Science.gov (United States)

    White, A E; Schmitz, L; Peebles, W A; Carter, T A; Rhodes, T L; Doyle, E J; Gourdain, P A; Hillesheim, J C; Wang, G; Holland, C; Tynan, G R; Austin, M E; McKee, G R; Shafer, M W; Burrell, K H; Candy, J; DeBoo, J C; Prater, R; Staebler, G M; Waltz, R E; Makowski, M A

    2008-10-01

    A correlation electron cyclotron emission (CECE) diagnostic has been used to measure local, turbulent fluctuations of the electron temperature in the core of DIII-D plasmas. This paper describes the hardware and testing of the CECE diagnostic and highlights the importance of measurements of multifield fluctuation profiles for the testing and validation of nonlinear gyrokinetic codes. The process of testing and validating such codes is critical for extrapolation to next-step fusion devices. For the first time, the radial profiles of electron temperature and density fluctuations are compared to nonlinear gyrokinetic simulations. The CECE diagnostic at DIII-D uses correlation radiometry to measure the rms amplitude and spectrum of the electron temperature fluctuations. Gaussian optics are used to produce a poloidal spot size with w(o) approximately 1.75 cm in the plasma. The intermediate frequency filters and the natural linewidth of the EC emission determine the radial resolution of the CECE diagnostic, which can be less than 1 cm. Wavenumbers resolved by the CECE diagnostic are k(theta) < or = 1.8 cm(-1) and k(r) < or = 4 cm(-1), relevant for studies of long-wavelength turbulence associated with the trapped electron mode and the ion temperature gradient mode. In neutral beam heated L-mode plasmas, core electron temperature fluctuations in the region 0.5 < r/a < 0.9, increase with radius from approximately 0.5% to approximately 2%, similar to density fluctuations that are measured simultaneously with beam emission spectroscopy. After incorporating "synthetic diagnostics" to effectively filter the code output, the simulations reproduce the characteristics of the turbulence and transport at one radial location r/a = 0.5, but not at a second location, r/a = 0.75. These results illustrate that measurements of the profiles of multiple fluctuating fields can provide a significant constraint on the turbulence models employed by the code.

  1. Non-linear multivariable predictive control of an alcoholic fermentation process using functional link networks

    Directory of Open Access Journals (Sweden)

    Luiz Augusto da Cruz Meleiro

    2005-06-01

    Full Text Available In this work a MIMO non-linear predictive controller was developed for an extractive alcoholic fermentation process. The internal model of the controller was represented by two MISO Functional Link Networks (FLNs, identified using simulated data generated from a deterministic mathematical model whose kinetic parameters were determined experimentally. The FLN structure presents as advantages fast training and guaranteed convergence, since the estimation of the weights is a linear optimization problem. Besides, the elimination of non-significant weights generates parsimonious models, which allows for fast execution in an MPC-based algorithm. The proposed algorithm showed good potential in identification and control of non-linear processes.Neste trabalho um controlador preditivo não linear multivariável foi desenvolvido para um processo de fermentação alcoólica extrativa. O modelo interno do controlador foi representado por duas redes do tipo Functional Link (FLN, identificadas usando dados de simulação gerados a partir de um modelo validado experimentalmente. A estrutura FLN apresenta como vantagem o treinamento rápido e convergência garantida, já que a estimação dos seus pesos é um problema de otimização linear. Além disso, a eliminação de pesos não significativos gera modelos parsimoniosos, o que permite a rápida execução em algoritmos de controle preditivo baseado em modelo. Os resultados mostram que o algoritmo proposto tem grande potencial para identificação e controle de processos não lineares.

  2. Substituting random forest for multiple linear regression improves binding affinity prediction of scoring functions: Cyscore as a case study.

    Science.gov (United States)

    Li, Hongjian; Leung, Kwong-Sak; Wong, Man-Hon; Ballester, Pedro J

    2014-08-27

    State-of-the-art protein-ligand docking methods are generally limited by the traditionally low accuracy of their scoring functions, which are used to predict binding affinity and thus vital for discriminating between active and inactive compounds. Despite intensive research over the years, classical scoring functions have reached a plateau in their predictive performance. These assume a predetermined additive functional form for some sophisticated numerical features, and use standard multivariate linear regression (MLR) on experimental data to derive the coefficients. In this study we show that such a simple functional form is detrimental for the prediction performance of a scoring function, and replacing linear regression by machine learning techniques like random forest (RF) can improve prediction performance. We investigate the conditions of applying RF under various contexts and find that given sufficient training samples RF manages to comprehensively capture the non-linearity between structural features and measured binding affinities. Incorporating more structural features and training with more samples can both boost RF performance. In addition, we analyze the importance of structural features to binding affinity prediction using the RF variable importance tool. Lastly, we use Cyscore, a top performing empirical scoring function, as a baseline for comparison study. Machine-learning scoring functions are fundamentally different from classical scoring functions because the former circumvents the fixed functional form relating structural features with binding affinities. RF, but not MLR, can effectively exploit more structural features and more training samples, leading to higher prediction performance. The future availability of more X-ray crystal structures will further widen the performance gap between RF-based and MLR-based scoring functions. This further stresses the importance of substituting RF for MLR in scoring function development.

  3. Robust Model Predictive Control Using Linear Matrix Inequalities for the Treatment of Asymmetric Output Constraints

    Directory of Open Access Journals (Sweden)

    Mariana Santos Matos Cavalca

    2012-01-01

    Full Text Available One of the main advantages of predictive control approaches is the capability of dealing explicitly with constraints on the manipulated and output variables. However, if the predictive control formulation does not consider model uncertainties, then the constraint satisfaction may be compromised. A solution for this inconvenience is to use robust model predictive control (RMPC strategies based on linear matrix inequalities (LMIs. However, LMI-based RMPC formulations typically consider only symmetric constraints. This paper proposes a method based on pseudoreferences to treat asymmetric output constraints in integrating SISO systems. Such technique guarantees robust constraint satisfaction and convergence of the state to the desired equilibrium point. A case study using numerical simulation indicates that satisfactory results can be achieved.

  4. TBM performance prediction in Yucca Mountain welded tuff from linear cutter tests

    International Nuclear Information System (INIS)

    Gertsch, R.; Ozdemir, L.; Gertsch, L.

    1992-01-01

    This paper discusses performance prediction which were developed for tunnel boring machines operating in welded tuff for the construction of the experimental study facility and the potential nuclear waste repository at Yucca Mountain. The predictions were based on test data obtained from an extensive series of linear cutting tests performed on samples of Topopah String welded tuff from the Yucca Mountain Project site. Using the cutter force, spacing, and penetration data from the experimental program, the thrust, torque, power, and rate of penetration were estimated for a 25 ft diameter tunnel boring machine (TBM) operating in welded tuff. The result show that the Topopah Spring welded tuff (TSw2) can be excavated at relatively high rates of advance with state-of-the-art TBMs. The result also show, however, that the TBM torque and power requirements will be higher than estimated based on rock physical properties and past tunneling experience in rock formations of similar strength

  5. Complex terrain wind resource estimation with the wind-atlas method: Prediction errors using linearized and nonlinear CFD micro-scale models

    DEFF Research Database (Denmark)

    Troen, Ib; Bechmann, Andreas; Kelly, Mark C.

    2014-01-01

    Using the Wind Atlas methodology to predict the average wind speed at one location from measured climatological wind frequency distributions at another nearby location we analyse the relative prediction errors using a linearized flow model (IBZ) and a more physically correct fully non-linear 3D...... flow model (CFD) for a number of sites in very complex terrain (large terrain slopes). We first briefly describe the Wind Atlas methodology as implemented in WAsP and the specifics of the “classical” model setup and the new setup allowing the use of the CFD computation engine. We discuss some known...

  6. Validation of Lifetime Prediction of IGBT Modules Based on Linear Damage Accumulation by Means of Superimposed Power Cycling Tests

    DEFF Research Database (Denmark)

    Choi, Ui-Min; Ma, Ke; Blaabjerg, Frede

    2018-01-01

    In this paper, the lifetime prediction of power device modules based on the linear damage accumulation is studied in conjunction with simple mission profiles of converters. Superimposed power cycling conditions, which are called simple mission profiles in this paper, are made based on a lifetime ...... prediction of IGBT modules under power converter applications.......In this paper, the lifetime prediction of power device modules based on the linear damage accumulation is studied in conjunction with simple mission profiles of converters. Superimposed power cycling conditions, which are called simple mission profiles in this paper, are made based on a lifetime...... model in respect to junction temperature swing duration. This model has been built based on 39 power cycling test results of 600-V 30-A three-phase-molded IGBT modules. Six tests are performed under three superimposed power cycling conditions using an advanced power cycling test setup. The experimental...

  7. Explicit/multi-parametric model predictive control (MPC) of linear discrete-time systems by dynamic and multi-parametric programming

    KAUST Repository

    Kouramas, K.I.; Faí sca, N.P.; Panos, C.; Pistikopoulos, E.N.

    2011-01-01

    This work presents a new algorithm for solving the explicit/multi- parametric model predictive control (or mp-MPC) problem for linear, time-invariant discrete-time systems, based on dynamic programming and multi-parametric programming techniques

  8. Current error vector based prediction control of the section winding permanent magnet linear synchronous motor

    Energy Technology Data Exchange (ETDEWEB)

    Hong Junjie, E-mail: hongjjie@mail.sysu.edu.cn [School of Engineering, Sun Yat-Sen University, Guangzhou 510006 (China); Li Liyi, E-mail: liliyi@hit.edu.cn [Dept. Electrical Engineering, Harbin Institute of Technology, Harbin 150000 (China); Zong Zhijian; Liu Zhongtu [School of Engineering, Sun Yat-Sen University, Guangzhou 510006 (China)

    2011-10-15

    Highlights: {yields} The structure of the permanent magnet linear synchronous motor (SW-PMLSM) is new. {yields} A new current control method CEVPC is employed in this motor. {yields} The sectional power supply method is different to the others and effective. {yields} The performance gets worse with voltage and current limitations. - Abstract: To include features such as greater thrust density, higher efficiency without reducing the thrust stability, this paper proposes a section winding permanent magnet linear synchronous motor (SW-PMLSM), whose iron core is continuous, whereas winding is divided. The discrete system model of the motor is derived. With the definition of the current error vector and selection of the value function, the theory of the current error vector based prediction control (CEVPC) for the motor currents is explained clearly. According to the winding section feature, the motion region of the mover is divided into five zones, in which the implementation of the current predictive control method is proposed. Finally, the experimental platform is constructed and experiments are carried out. The results show: the current control effect has good dynamic response, and the thrust on the mover remains constant basically.

  9. Dynamics of unsymmetric piecewise-linear/non-linear systems using finite elements in time

    Science.gov (United States)

    Wang, Yu

    1995-08-01

    The dynamic response and stability of a single-degree-of-freedom system with unsymmetric piecewise-linear/non-linear stiffness are analyzed using the finite element method in the time domain. Based on a Hamilton's weak principle, this method provides a simple and efficient approach for predicting all possible fundamental and sub-periodic responses. The stability of the steady state response is determined by using Floquet's theory without any special effort for calculating transition matrices. This method is applied to a number of examples, demonstrating its effectiveness even for a strongly non-linear problem involving both clearance and continuous stiffness non-linearities. Close agreement is found between available published findings and the predictions of the finite element in time approach, which appears to be an efficient and reliable alternative technique for non-linear dynamic response and stability analysis of periodic systems.

  10. On the Dynamics of Edge-core Coupling

    Energy Technology Data Exchange (ETDEWEB)

    Hahm,T.S.; Diamond, P.H.; Lin, Z.; Rewoldt, G.; Gurcan, O.; Ethier, S.

    2005-08-26

    One of the nagging, unresolved questions in fusion theory is concerned with the extent of the edge. Gyrokinetic particle simulations of toroidal ion temperature gradient (ITG) turbulence spreading using the Gyrokinetic Toroidal Code (GTC) [Z. Lin et al., Science 281, 1835 (1998)] and its related dynamical model have been extended to a system with radially varying ion temperature gradient, in order to study the inward spreading of edge turbulence toward the core plasma. Due to such spreading, the turbulence intensity in the core region is significantly enhanced over the value obtained from simulations of the core region only, and the precise boundary of the edge region is blurred. Even when the core gradient is within the Dimits shift regime (i.e., dominated by self-generated zonal flows which reduce the transport to a negligible value), a significant level of turbulence can penetrate to the core due to spreading from the edge. The scaling of the turbulent front propagation speed is closer to the prediction from a nonlinear diffusion model than from one based on linear toroidal coupling.

  11. EVALUATING PREDICTIVE ERRORS OF A COMPLEX ENVIRONMENTAL MODEL USING A GENERAL LINEAR MODEL AND LEAST SQUARE MEANS

    Science.gov (United States)

    A General Linear Model (GLM) was used to evaluate the deviation of predicted values from expected values for a complex environmental model. For this demonstration, we used the default level interface of the Regional Mercury Cycling Model (R-MCM) to simulate epilimnetic total mer...

  12. Applicability of linear and non-linear potential flow models on a Wavestar float

    DEFF Research Database (Denmark)

    Bozonnet, Pauline; Dupin, Victor; Tona, Paolino

    2017-01-01

    as a model based on non-linear potential flow theory and weakscatterer hypothesis are successively considered. Simple tests, such as dip tests, decay tests and captive tests enable to highlight the improvements obtained with the introduction of nonlinearities. Float motion under wave actions and without...... control action, limited to small amplitude motion with a single float, is well predicted by the numerical models, including the linear one. Still, float velocity is better predicted by accounting for non-linear hydrostatic and Froude-Krylov forces.......Numerical models based on potential flow theory, including different types of nonlinearities are compared and validated against experimental data for the Wavestar wave energy converter technology. Exact resolution of the rotational motion, non-linear hydrostatic and Froude-Krylov forces as well...

  13. Predicting hyperketonemia by logistic and linear regression using test-day milk and performance variables in early-lactation Holstein and Jersey cows.

    Science.gov (United States)

    Chandler, T L; Pralle, R S; Dórea, J R R; Poock, S E; Oetzel, G R; Fourdraine, R H; White, H M

    2018-03-01

    Although cowside testing strategies for diagnosing hyperketonemia (HYK) are available, many are labor intensive and costly, and some lack sufficient accuracy. Predicting milk ketone bodies by Fourier transform infrared spectrometry during routine milk sampling may offer a more practical monitoring strategy. The objectives of this study were to (1) develop linear and logistic regression models using all available test-day milk and performance variables for predicting HYK and (2) compare prediction methods (Fourier transform infrared milk ketone bodies, linear regression models, and logistic regression models) to determine which is the most predictive of HYK. Given the data available, a secondary objective was to evaluate differences in test-day milk and performance variables (continuous measurements) between Holsteins and Jerseys and between cows with or without HYK within breed. Blood samples were collected on the same day as milk sampling from 658 Holstein and 468 Jersey cows between 5 and 20 d in milk (DIM). Diagnosis of HYK was at a serum β-hydroxybutyrate (BHB) concentration ≥1.2 mmol/L. Concentrations of milk BHB and acetone were predicted by Fourier transform infrared spectrometry (Foss Analytical, Hillerød, Denmark). Thresholds of milk BHB and acetone were tested for diagnostic accuracy, and logistic models were built from continuous variables to predict HYK in primiparous and multiparous cows within breed. Linear models were constructed from continuous variables for primiparous and multiparous cows within breed that were 5 to 11 DIM or 12 to 20 DIM. Milk ketone body thresholds diagnosed HYK with 64.0 to 92.9% accuracy in Holsteins and 59.1 to 86.6% accuracy in Jerseys. Logistic models predicted HYK with 82.6 to 97.3% accuracy. Internally cross-validated multiple linear regression models diagnosed HYK of Holstein cows with 97.8% accuracy for primiparous and 83.3% accuracy for multiparous cows. Accuracy of Jersey models was 81.3% in primiparous and 83

  14. Hourly predictive Levenberg-Marquardt ANN and multi linear regression models for predicting of dew point temperature

    Science.gov (United States)

    Zounemat-Kermani, Mohammad

    2012-08-01

    In this study, the ability of two models of multi linear regression (MLR) and Levenberg-Marquardt (LM) feed-forward neural network was examined to estimate the hourly dew point temperature. Dew point temperature is the temperature at which water vapor in the air condenses into liquid. This temperature can be useful in estimating meteorological variables such as fog, rain, snow, dew, and evapotranspiration and in investigating agronomical issues as stomatal closure in plants. The availability of hourly records of climatic data (air temperature, relative humidity and pressure) which could be used to predict dew point temperature initiated the practice of modeling. Additionally, the wind vector (wind speed magnitude and direction) and conceptual input of weather condition were employed as other input variables. The three quantitative standard statistical performance evaluation measures, i.e. the root mean squared error, mean absolute error, and absolute logarithmic Nash-Sutcliffe efficiency coefficient ( {| {{{Log}}({{NS}})} |} ) were employed to evaluate the performances of the developed models. The results showed that applying wind vector and weather condition as input vectors along with meteorological variables could slightly increase the ANN and MLR predictive accuracy. The results also revealed that LM-NN was superior to MLR model and the best performance was obtained by considering all potential input variables in terms of different evaluation criteria.

  15. Nonlinear saturation of the slab ITG instability and zonal flow generation with fully kinetic ions

    Science.gov (United States)

    Miecnikowski, Matthew T.; Sturdevant, Benjamin J.; Chen, Yang; Parker, Scott E.

    2018-05-01

    Fully kinetic turbulence models are of interest for their potential to validate or replace gyrokinetic models in plasma regimes where the gyrokinetic expansion parameters are marginal. Here, we demonstrate fully kinetic ion capability by simulating the growth and nonlinear saturation of the ion-temperature-gradient instability in shearless slab geometry assuming adiabatic electrons and including zonal flow dynamics. The ion trajectories are integrated using the Lorentz force, and the cyclotron motion is fully resolved. Linear growth and nonlinear saturation characteristics show excellent agreement with analogous gyrokinetic simulations across a wide range of parameters. The fully kinetic simulation accurately reproduces the nonlinearly generated zonal flow. This work demonstrates nonlinear capability, resolution of weak gradient drive, and zonal flow physics, which are critical aspects of modeling plasma turbulence with full ion dynamics.

  16. Gyrokinetic water-bag modeling of a plasma column: Magnetic moment distribution and finite Larmor radius effects

    Science.gov (United States)

    Klein, R.; Gravier, E.; Morel, P.; Besse, N.; Bertrand, P.

    2009-08-01

    Describing turbulent transport in fusion plasmas is a major concern in magnetic confinement fusion. It is now widely known that kinetic and fluid descriptions can lead to significantly different properties. Although more accurate, the kinetic calculation of turbulent transport is much more demanding of computer resources than fluid simulations. An alternative approach is based on a water-bag representation of the distribution function that is not an approximation but rather a special class of initial conditions, allowing one to reduce the full kinetic Vlasov equation into a set of hydrodynamics equations while keeping its kinetic character [P. Morel, E. Gravier, N. Besse et al., Phys. Plasmas 14, 112109 (2007)]. In this paper, the water-bag concept is used in a gyrokinetic context to study finite Larmor radius effects with the possibility of using the full Larmor radius distribution instead of an averaged Larmor radius. The resulting model is used to study the ion temperature gradient (ITG) instability.

  17. Genomic predictions across Nordic Holstein and Nordic Red using the genomic best linear unbiased prediction model with different genomic relationship matrices.

    Science.gov (United States)

    Zhou, L; Lund, M S; Wang, Y; Su, G

    2014-08-01

    This study investigated genomic predictions across Nordic Holstein and Nordic Red using various genomic relationship matrices. Different sources of information, such as consistencies of linkage disequilibrium (LD) phase and marker effects, were used to construct the genomic relationship matrices (G-matrices) across these two breeds. Single-trait genomic best linear unbiased prediction (GBLUP) model and two-trait GBLUP model were used for single-breed and two-breed genomic predictions. The data included 5215 Nordic Holstein bulls and 4361 Nordic Red bulls, which was composed of three populations: Danish Red, Swedish Red and Finnish Ayrshire. The bulls were genotyped with 50 000 SNP chip. Using the two-breed predictions with a joint Nordic Holstein and Nordic Red reference population, accuracies increased slightly for all traits in Nordic Red, but only for some traits in Nordic Holstein. Among the three subpopulations of Nordic Red, accuracies increased more for Danish Red than for Swedish Red and Finnish Ayrshire. This is because closer genetic relationships exist between Danish Red and Nordic Holstein. Among Danish Red, individuals with higher genomic relationship coefficients with Nordic Holstein showed more increased accuracies in the two-breed predictions. Weighting the two-breed G-matrices by LD phase consistencies, marker effects or both did not further improve accuracies of the two-breed predictions. © 2014 Blackwell Verlag GmbH.

  18. Accurate electrostatic and van der Waals pull-in prediction for fully clamped nano/micro-beams using linear universal graphs of pull-in instability

    Science.gov (United States)

    Tahani, Masoud; Askari, Amir R.

    2014-09-01

    In spite of the fact that pull-in instability of electrically actuated nano/micro-beams has been investigated by many researchers to date, no explicit formula has been presented yet which can predict pull-in voltage based on a geometrically non-linear and distributed parameter model. The objective of present paper is to introduce a simple and accurate formula to predict this value for a fully clamped electrostatically actuated nano/micro-beam. To this end, a non-linear Euler-Bernoulli beam model is employed, which accounts for the axial residual stress, geometric non-linearity of mid-plane stretching, distributed electrostatic force and the van der Waals (vdW) attraction. The non-linear boundary value governing equation of equilibrium is non-dimensionalized and solved iteratively through single-term Galerkin based reduced order model (ROM). The solutions are validated thorough direct comparison with experimental and other existing results reported in previous studies. Pull-in instability under electrical and vdW loads are also investigated using universal graphs. Based on the results of these graphs, non-dimensional pull-in and vdW parameters, which are defined in the text, vary linearly versus the other dimensionless parameters of the problem. Using this fact, some linear equations are presented to predict pull-in voltage, the maximum allowable length, the so-called detachment length, and the minimum allowable gap for a nano/micro-system. These linear equations are also reduced to a couple of universal pull-in formulas for systems with small initial gap. The accuracy of the universal pull-in formulas are also validated by comparing its results with available experimental and some previous geometric linear and closed-form findings published in the literature.

  19. TRM performance prediction in Yucca Mountain welded tuff from linear cutter tests

    International Nuclear Information System (INIS)

    Gertsch, R.; Ozdemir, L.; Gertsch, L.

    1992-01-01

    Performance predictions were developed for tunnel boring machines operating in welded tuff for the construction of the experimental study facility and the potential nuclear waste repository at Yucca Mountain. The predictions were based on test data obtained from an extensive series of linear cutting tests performed on samples of Topopah Spring welded tuff from the Yucca Mountain Project site. Using the cutter force, spacing, and penetration data from the experimental program, the thrust, torque, power, and rate of penetration were estimated for a 25 ft diameter tunnel boring machine (TBM) operating in welded tuff. Guidelines were developed for the optimal design of the TBM cutterhead to achieve high production rates at the lowest possible excavation costs. The results show that the Topopah Spring welded tuff (TSw2) can be excavated at relatively high rates of advance with state-of-the-art TBMs. The results also show, however, that the TBM torque and power requirements will be higher than estimated based on rock physical properties and past tunneling experience in rock formations of similar strength

  20. On the predictability of extreme events in records with linear and nonlinear long-range memory: Efficiency and noise robustness

    Science.gov (United States)

    Bogachev, Mikhail I.; Bunde, Armin

    2011-06-01

    We study the predictability of extreme events in records with linear and nonlinear long-range memory in the presence of additive white noise using two different approaches: (i) the precursory pattern recognition technique (PRT) that exploits solely the information about short-term precursors, and (ii) the return interval approach (RIA) that exploits long-range memory incorporated in the elapsed time after the last extreme event. We find that the PRT always performs better when only linear memory is present. In the presence of nonlinear memory, both methods demonstrate comparable efficiency in the absence of white noise. When additional white noise is present in the record (which is the case in most observational records), the efficiency of the PRT decreases monotonously with increasing noise level. In contrast, the RIA shows an abrupt transition between a phase of low level noise where the prediction is as good as in the absence of noise, and a phase of high level noise where the prediction becomes poor. In the phase of low and intermediate noise the RIA predicts considerably better than the PRT, which explains our recent findings in physiological and financial records.

  1. Gyrokinetic Studies on Turbulence-Driven and Neoclassical Nondiffusive Toroidal-Momentum Transport and the Effect of Residual Fluctuations in Strong ExB Shear

    International Nuclear Information System (INIS)

    Wang, W. X.; Hahm, T. S.; Ethier, S.; Rewoldt, G.; Lee, W. W.; Tang, W. M.; Kaye, S. M.; Diamond, P. H.

    2009-01-01

    A significant inward flux of toroidal momentum is found in global gyrokinetic simulations of ion temperature gradient turbulence, leading to core plasma rotation spin-up. The underlying mechanism is identified to be the generation of residual stress due to the k parallel symmetry breaking induced by global quasistationary zonal flow shear. Simulations also show a significant off-diagonal element associated with the ion temperature gradient in the neoclassical momentum flux, while the overall neoclassical flux is small. In addition, the residual turbulence found in the presence of strong ExB flow shear may account for neoclassical-level ion heat and anomalous momentum transport widely observed in experiments

  2. Integration of Attributes from Non-Linear Characterization of Cardiovascular Time-Series for Prediction of Defibrillation Outcomes.

    Directory of Open Access Journals (Sweden)

    Sharad Shandilya

    Full Text Available The timing of defibrillation is mostly at arbitrary intervals during cardio-pulmonary resuscitation (CPR, rather than during intervals when the out-of-hospital cardiac arrest (OOH-CA patient is physiologically primed for successful countershock. Interruptions to CPR may negatively impact defibrillation success. Multiple defibrillations can be associated with decreased post-resuscitation myocardial function. We hypothesize that a more complete picture of the cardiovascular system can be gained through non-linear dynamics and integration of multiple physiologic measures from biomedical signals.Retrospective analysis of 153 anonymized OOH-CA patients who received at least one defibrillation for ventricular fibrillation (VF was undertaken. A machine learning model, termed Multiple Domain Integrative (MDI model, was developed to predict defibrillation success. We explore the rationale for non-linear dynamics and statistically validate heuristics involved in feature extraction for model development. Performance of MDI is then compared to the amplitude spectrum area (AMSA technique.358 defibrillations were evaluated (218 unsuccessful and 140 successful. Non-linear properties (Lyapunov exponent > 0 of the ECG signals indicate a chaotic nature and validate the use of novel non-linear dynamic methods for feature extraction. Classification using MDI yielded ROC-AUC of 83.2% and accuracy of 78.8%, for the model built with ECG data only. Utilizing 10-fold cross-validation, at 80% specificity level, MDI (74% sensitivity outperformed AMSA (53.6% sensitivity. At 90% specificity level, MDI had 68.4% sensitivity while AMSA had 43.3% sensitivity. Integrating available end-tidal carbon dioxide features into MDI, for the available 48 defibrillations, boosted ROC-AUC to 93.8% and accuracy to 83.3% at 80% sensitivity.At clinically relevant sensitivity thresholds, the MDI provides improved performance as compared to AMSA, yielding fewer unsuccessful defibrillations

  3. Continuum kinetic methods for analyzing wave physics and distribution function dynamics in the turbulence dissipation challenge

    Science.gov (United States)

    Juno, J.; Hakim, A.; TenBarge, J.; Dorland, W.

    2015-12-01

    We present for the first time results for the turbulence dissipation challenge, with specific focus on the linear wave portion of the challenge, using a variety of continuum kinetic models: hybrid Vlasov-Maxwell, gyrokinetic, and full Vlasov-Maxwell. As one of the goals of the wave problem as it is outlined is to identify how well various models capture linear physics, we compare our results to linear Vlasov and gyrokinetic theory. Preliminary gyrokinetic results match linear theory extremely well due to the geometry of the problem, which eliminates the dominant nonlinearity. With the non-reduced models, we explore how the subdominant nonlinearities manifest and affect the evolution of the turbulence and the energy budget. We also take advantage of employing continuum methods to study the dynamics of the distribution function, with particular emphasis on the full Vlasov results where a basic collision operator has been implemented. As the community prepares for the next stage of the turbulence dissipation challenge, where we hope to do large 3D simulations to inform the next generation of observational missions such as THOR (Turbulence Heating ObserveR), we argue for the consideration of hybrid Vlasov and full Vlasov as candidate models for these critical simulations. With the use of modern numerical algorithms, we demonstrate the competitiveness of our code with traditional particle-in-cell algorithms, with a clear plan for continued improvements and optimizations to further strengthen the code's viability as an option for the next stage of the challenge.

  4. Prediction of spontaneous ureteral stone passage: Automated 3D-measurements perform equal to radiologists, and linear measurements equal to volumetric.

    Science.gov (United States)

    Jendeberg, Johan; Geijer, Håkan; Alshamari, Muhammed; Lidén, Mats

    2018-01-24

    To compare the ability of different size estimates to predict spontaneous passage of ureteral stones using a 3D-segmentation and to investigate the impact of manual measurement variability on the prediction of stone passage. We retrospectively included 391 consecutive patients with ureteral stones on non-contrast-enhanced CT (NECT). Three-dimensional segmentation size estimates were compared to the mean of three radiologists' measurements. Receiver-operating characteristic (ROC) analysis was performed for the prediction of spontaneous passage for each estimate. The difference in predicted passage probability between the manual estimates in upper and lower stones was compared. The area under the ROC curve (AUC) for the measurements ranged from 0.88 to 0.90. Between the automated 3D algorithm and the manual measurements the 95% limits of agreement were 0.2 ± 1.4 mm for the width. The manual bone window measurements resulted in a > 20 percentage point (ppt) difference between the readers in the predicted passage probability in 44% of the upper and 6% of the lower ureteral stones. All automated 3D algorithm size estimates independently predicted the spontaneous stone passage with similar high accuracy as the mean of three readers' manual linear measurements. Manual size estimation of upper stones showed large inter-reader variations for spontaneous passage prediction. • An automated 3D technique predicts spontaneous stone passage with high accuracy. • Linear, areal and volumetric measurements performed similarly in predicting stone passage. • Reader variability has a large impact on the predicted prognosis for stone passage.

  5. Quasi-linear score for capturing heterogeneous structure in biomarkers.

    Science.gov (United States)

    Omae, Katsuhiro; Komori, Osamu; Eguchi, Shinto

    2017-06-19

    Linear scores are widely used to predict dichotomous outcomes in biomedical studies because of their learnability and understandability. Such approaches, however, cannot be used to elucidate biodiversity when there is heterogeneous structure in target population. Our study was focused on describing intrinsic heterogeneity in predictions. Because heterogeneity can be captured by a clustering method, integrating different information from different clusters should yield better predictions. Accordingly, we developed a quasi-linear score, which effectively combines the linear scores of clustered markers. We extended the linear score to the quasi-linear score by a generalized average form, the Kolmogorov-Nagumo average. We observed that two shrinkage methods worked well: ridge shrinkage for estimating the quasi-linear score, and lasso shrinkage for selecting markers within each cluster. Simulation studies and applications to real data show that the proposed method has good predictive performance compared with existing methods. Heterogeneous structure is captured by a clustering method. Quasi-linear scores combine such heterogeneity and have a better predictive ability compared with linear scores.

  6. Real-time detection of musical onsets with linear prediction and sinusoidal modeling

    Science.gov (United States)

    Glover, John; Lazzarini, Victor; Timoney, Joseph

    2011-12-01

    Real-time musical note onset detection plays a vital role in many audio analysis processes, such as score following, beat detection and various sound synthesis by analysis methods. This article provides a review of some of the most commonly used techniques for real-time onset detection. We suggest ways to improve these techniques by incorporating linear prediction as well as presenting a novel algorithm for real-time onset detection using sinusoidal modelling. We provide comprehensive results for both the detection accuracy and the computational performance of all of the described techniques, evaluated using Modal, our new open source library for musical onset detection, which comes with a free database of samples with hand-labelled note onsets.

  7. Continuum Gyrokinetic Simulations of Turbulence in a Helical Model SOL with NSTX-type parameters

    Science.gov (United States)

    Hammett, G. W.; Shi, E. L.; Hakim, A.; Stoltzfus-Dueck, T.

    2017-10-01

    We have developed the Gkeyll code to carry out 3D2V full- F gyrokinetic simulations of electrostatic plasma turbulence in open-field-line geometries, using special versions of discontinuous-Galerkin algorithms to help with the computational challenges of the edge region. (Higher-order algorithms can also be helpful for exascale computing as they reduce the ratio of communications to computations.) Our first simulations with straight field lines were done for LAPD-type cases. Here we extend this to a helical model of an SOL plasma and show results for NSTX-type parameters. These simulations include the basic elements of a scrape-off layer: bad-curvature/interchange drive of instabilities, narrow sources to model plasma leaking from the core, and parallel losses with model sheath boundary conditions (our model allows currents to flow in and out of the walls). The formation of blobs is observed. By reducing the strength of the poloidal magnetic field, the heat flux at the divertor plate is observed to broaden. Supported by the Max-Planck/Princeton Center for Plasma Physics, the SciDAC Center for the Study of Plasma Microturbulence, and DOE Contract DE-AC02-09CH11466.

  8. Neural Networks for Non-linear Control

    DEFF Research Database (Denmark)

    Sørensen, O.

    1994-01-01

    This paper describes how a neural network, structured as a Multi Layer Perceptron, is trained to predict, simulate and control a non-linear process.......This paper describes how a neural network, structured as a Multi Layer Perceptron, is trained to predict, simulate and control a non-linear process....

  9. Confirmation of linear system theory prediction: Changes in Herrnstein's k as a function of changes in reinforcer magnitude.

    Science.gov (United States)

    McDowell, J J; Wood, H M

    1984-03-01

    Eight human subjects pressed a lever on a range of variable-interval schedules for 0.25 cent to 35.0 cent per reinforcement. Herrnstein's hyperbola described seven of the eight subjects' response-rate data well. For all subjects, the y-asymptote of the hyperbola increased with increasing reinforcer magnitude and its reciprocal was a linear function of the reciprocal of reinforcer magnitude. These results confirm predictions made by linear system theory; they contradict formal properties of Herrnstein's account and of six other mathematical accounts of single-alternative responding.

  10. Generating linear regression model to predict motor functions by use of laser range finder during TUG.

    Science.gov (United States)

    Adachi, Daiki; Nishiguchi, Shu; Fukutani, Naoto; Hotta, Takayuki; Tashiro, Yuto; Morino, Saori; Shirooka, Hidehiko; Nozaki, Yuma; Hirata, Hinako; Yamaguchi, Moe; Yorozu, Ayanori; Takahashi, Masaki; Aoyama, Tomoki

    2017-05-01

    The purpose of this study was to investigate which spatial and temporal parameters of the Timed Up and Go (TUG) test are associated with motor function in elderly individuals. This study included 99 community-dwelling women aged 72.9 ± 6.3 years. Step length, step width, single support time, variability of the aforementioned parameters, gait velocity, cadence, reaction time from starting signal to first step, and minimum distance between the foot and a marker placed to 3 in front of the chair were measured using our analysis system. The 10-m walk test, five times sit-to-stand (FTSTS) test, and one-leg standing (OLS) test were used to assess motor function. Stepwise multivariate linear regression analysis was used to determine which TUG test parameters were associated with each motor function test. Finally, we calculated a predictive model for each motor function test using each regression coefficient. In stepwise linear regression analysis, step length and cadence were significantly associated with the 10-m walk test, FTSTS and OLS test. Reaction time was associated with the FTSTS test, and step width was associated with the OLS test. Each predictive model showed a strong correlation with the 10-m walk test and OLS test (P motor function test. Moreover, the TUG test time regarded as the lower extremity function and mobility has strong predictive ability in each motor function test. Copyright © 2017 The Japanese Orthopaedic Association. Published by Elsevier B.V. All rights reserved.

  11. Non-linear Model Predictive Control for cooling strings of superconducting magnets using superfluid helium

    CERN Document Server

    AUTHOR|(SzGeCERN)673023; Blanco Viñuela, Enrique

    In each of eight arcs of the 27 km circumference Large Hadron Collider (LHC), 2.5 km long strings of super-conducting magnets are cooled with superfluid Helium II at 1.9 K. The temperature stabilisation is a challenging control problem due to complex non-linear dynamics of the magnets temperature and presence of multiple operational constraints. Strong nonlinearities and variable dead-times of the dynamics originate at strongly heat-flux dependent effective heat conductivity of superfluid that varies three orders of magnitude over the range of possible operational conditions. In order to improve the temperature stabilisation, a proof of concept on-line economic output-feedback Non-linear Model Predictive Controller (NMPC) is presented in this thesis. The controller is based on a novel complex first-principles distributed parameters numerical model of the temperature dynamics over a 214 m long sub-sector of the LHC that is characterized by very low computational cost of simulation needed in real-time optimizat...

  12. Neural network-based nonlinear model predictive control vs. linear quadratic gaussian control

    Science.gov (United States)

    Cho, C.; Vance, R.; Mardi, N.; Qian, Z.; Prisbrey, K.

    1997-01-01

    One problem with the application of neural networks to the multivariable control of mineral and extractive processes is determining whether and how to use them. The objective of this investigation was to compare neural network control to more conventional strategies and to determine if there are any advantages in using neural network control in terms of set-point tracking, rise time, settling time, disturbance rejection and other criteria. The procedure involved developing neural network controllers using both historical plant data and simulation models. Various control patterns were tried, including both inverse and direct neural network plant models. These were compared to state space controllers that are, by nature, linear. For grinding and leaching circuits, a nonlinear neural network-based model predictive control strategy was superior to a state space-based linear quadratic gaussian controller. The investigation pointed out the importance of incorporating state space into neural networks by making them recurrent, i.e., feeding certain output state variables into input nodes in the neural network. It was concluded that neural network controllers can have better disturbance rejection, set-point tracking, rise time, settling time and lower set-point overshoot, and it was also concluded that neural network controllers can be more reliable and easy to implement in complex, multivariable plants.

  13. Suppression of turbulent transport in NSTX internal transport barriers

    Science.gov (United States)

    Yuh, Howard

    2008-11-01

    Electron transport will be important for ITER where fusion alphas and high-energy beam ions will primarily heat electrons. In the NSTX, internal transport barriers (ITBs) are observed in reversed (negative) shear discharges where diffusivities for electron and ion thermal channels and momentum are reduced. While neutral beam heating can produce ITBs in both electron and ion channels, High Harmonic Fast Wave (HHFW) heating can produce electron thermal ITBs under reversed magnetic shear conditions without momentum input. Interestingly, the location of the electron ITB does not necessarily match that of the ion ITB: the electron ITB correlates well with the minimum in the magnetic shear determined by Motional Stark Effect (MSE) [1] constrained equilibria, whereas the ion ITB better correlates with the maximum ExB shearing rate. Measured electron temperature gradients can exceed critical linear thresholds for ETG instability calculated by linear gyrokinetic codes in the ITB confinement region. The high-k microwave scattering diagnostic [2] shows reduced local density fluctuations at wavenumbers characteristic of electron turbulence for discharges with strongly negative magnetic shear versus weakly negative or positive magnetic shear. Fluctuation reductions are found to be spatially and temporally correlated with the local magnetic shear. These results are consistent with non-linear gyrokinetic simulations predictions showing the reduction of electron transport in negative magnetic shear conditions despite being linearly unstable [3]. Electron transport improvement via negative magnetic shear rather than ExB shear highlights the importance of current profile control in ITER and future devices. [1] F.M. Levinton, H. Yuh et al., PoP 14, 056119 [2] D.R. Smith, E. Mazzucato et al., RSI 75, 3840 [3] Jenko, F. and Dorland, W., PRL 89 225001

  14. Automatic Offline Formulation of Robust Model Predictive Control Based on Linear Matrix Inequalities Method

    Directory of Open Access Journals (Sweden)

    Longge Zhang

    2013-01-01

    Full Text Available Two automatic robust model predictive control strategies are presented for uncertain polytopic linear plants with input and output constraints. A sequence of nested geometric proportion asymptotically stable ellipsoids and controllers is constructed offline first. Then the feedback controllers are automatically selected with the receding horizon online in the first strategy. Finally, a modified automatic offline robust MPC approach is constructed to improve the closed system's performance. The new proposed strategies not only reduce the conservatism but also decrease the online computation. Numerical examples are given to illustrate their effectiveness.

  15. Linear Multivariable Regression Models for Prediction of Eddy Dissipation Rate from Available Meteorological Data

    Science.gov (United States)

    MCKissick, Burnell T. (Technical Monitor); Plassman, Gerald E.; Mall, Gerald H.; Quagliano, John R.

    2005-01-01

    Linear multivariable regression models for predicting day and night Eddy Dissipation Rate (EDR) from available meteorological data sources are defined and validated. Model definition is based on a combination of 1997-2000 Dallas/Fort Worth (DFW) data sources, EDR from Aircraft Vortex Spacing System (AVOSS) deployment data, and regression variables primarily from corresponding Automated Surface Observation System (ASOS) data. Model validation is accomplished through EDR predictions on a similar combination of 1994-1995 Memphis (MEM) AVOSS and ASOS data. Model forms include an intercept plus a single term of fixed optimal power for each of these regression variables; 30-minute forward averaged mean and variance of near-surface wind speed and temperature, variance of wind direction, and a discrete cloud cover metric. Distinct day and night models, regressing on EDR and the natural log of EDR respectively, yield best performance and avoid model discontinuity over day/night data boundaries.

  16. Chaos and loss of predictability in the periodically kicked linear oscillator

    International Nuclear Information System (INIS)

    Luna-Acosta, G.A.; Cantoral, E.

    1989-01-01

    Chernikov et.al. [2] have discovered new features in the dynamics of a periodically kicked LHO x'' + ω 0 2 x = ( K/ k 0 T 2 ) sin (k 0 x) x Σ n δ (t / T - n). They report that its phase space motion under exact resonance (p ω 0 = (2 π / T) q; p, q integers), and with initial conditions on the separatrix of the average Hamiltonian , accelerates unboundedly along a fractal stochastic web with q-fold symmetry. Here we investigate with numerical experiments the effects of small deviations from exact resonance on the diffusion and symmetry patterns. We show graphically that the stochastic webs are (topologically) unstable and thus the unbounded motion becomes considerably truncated. Moreover, we analyze numerically and analytically a simpler (integrable) version. We give its exact closed-form solution in complex numbers, realize that it accelerates unboundedly only when ω 0 = (2 π/T) q (q = ± 1,2,...), and show that for small uncertainties in these frequencies, total predictability is lost as time evolves. That is, trajectories of a set of systems, initially described by close neighboring points in phase space strongly diverge in a non-linear way. The great loss of predictability in the integrable model is due to the combination of translational and rotational symmetries, inherent in these systems. (Author)

  17. Chaos and loss of predictability in the periodically kicked linear oscillator

    Energy Technology Data Exchange (ETDEWEB)

    Luna-Acosta, G A [Universidad Autonoma de Puebla (Mexico). Inst. de Ciencias; Cantoral, E [Universidad Autonoma de Puebla (Mexico). Escuela de Fisica

    1989-01-01

    Chernikov et.al. [2] have discovered new features in the dynamics of a periodically kicked LHO x'' + [omega] [sub 0] [sup 2] x = ( K/ k[sub 0] T [sup 2]) sin (k[sub 0] x) x [Sigma][sub n] [delta] (t / T - n). They report that its phase space motion under exact resonance (p [omega] [sub 0] = (2 [pi] / T) q; p, q integers), and with initial conditions on the separatrix of the average Hamiltonian , accelerates unboundedly along a fractal stochastic web with q-fold symmetry. Here we investigate with numerical experiments the effects of small deviations from exact resonance on the diffusion and symmetry patterns. We show graphically that the stochastic webs are (topologically) unstable and thus the unbounded motion becomes considerably truncated. Moreover, we analyze numerically and analytically a simpler (integrable) version. We give its exact closed-form solution in complex numbers, realize that it accelerates unboundedly only when [omega][sub 0] = (2 [pi]/T) q (q = [+-] 1,2,...), and show that for small uncertainties in these frequencies, total predictability is lost as time evolves. That is, trajectories of a set of systems, initially described by close neighboring points in phase space strongly diverge in a non-linear way. The great loss of predictability in the integrable model is due to the combination of translational and rotational symmetries, inherent in these systems. (Author).

  18. Flow discharge prediction in compound channels using linear genetic programming

    Science.gov (United States)

    Azamathulla, H. Md.; Zahiri, A.

    2012-08-01

    SummaryFlow discharge determination in rivers is one of the key elements in mathematical modelling in the design of river engineering projects. Because of the inundation of floodplains and sudden changes in river geometry, flow resistance equations are not applicable for compound channels. Therefore, many approaches have been developed for modification of flow discharge computations. Most of these methods have satisfactory results only in laboratory flumes. Due to the ability to model complex phenomena, the artificial intelligence methods have recently been employed for wide applications in various fields of water engineering. Linear genetic programming (LGP), a branch of artificial intelligence methods, is able to optimise the model structure and its components and to derive an explicit equation based on the variables of the phenomena. In this paper, a precise dimensionless equation has been derived for prediction of flood discharge using LGP. The proposed model was developed using published data compiled for stage-discharge data sets for 394 laboratories, and field of 30 compound channels. The results indicate that the LGP model has a better performance than the existing models.

  19. Predictive inference for best linear combination of biomarkers subject to limits of detection.

    Science.gov (United States)

    Coolen-Maturi, Tahani

    2017-08-15

    Measuring the accuracy of diagnostic tests is crucial in many application areas including medicine, machine learning and credit scoring. The receiver operating characteristic (ROC) curve is a useful tool to assess the ability of a diagnostic test to discriminate between two classes or groups. In practice, multiple diagnostic tests or biomarkers are combined to improve diagnostic accuracy. Often, biomarker measurements are undetectable either below or above the so-called limits of detection (LoD). In this paper, nonparametric predictive inference (NPI) for best linear combination of two or more biomarkers subject to limits of detection is presented. NPI is a frequentist statistical method that is explicitly aimed at using few modelling assumptions, enabled through the use of lower and upper probabilities to quantify uncertainty. The NPI lower and upper bounds for the ROC curve subject to limits of detection are derived, where the objective function to maximize is the area under the ROC curve. In addition, the paper discusses the effect of restriction on the linear combination's coefficients on the analysis. Examples are provided to illustrate the proposed method. Copyright © 2017 John Wiley & Sons, Ltd. Copyright © 2017 John Wiley & Sons, Ltd.

  20. Predicting microRNA-disease associations using label propagation based on linear neighborhood similarity.

    Science.gov (United States)

    Li, Guanghui; Luo, Jiawei; Xiao, Qiu; Liang, Cheng; Ding, Pingjian

    2018-05-12

    Interactions between microRNAs (miRNAs) and diseases can yield important information for uncovering novel prognostic markers. Since experimental determination of disease-miRNA associations is time-consuming and costly, attention has been given to designing efficient and robust computational techniques for identifying undiscovered interactions. In this study, we present a label propagation model with linear neighborhood similarity, called LPLNS, to predict unobserved miRNA-disease associations. Additionally, a preprocessing step is performed to derive new interaction likelihood profiles that will contribute to the prediction since new miRNAs and diseases lack known associations. Our results demonstrate that the LPLNS model based on the known disease-miRNA associations could achieve impressive performance with an AUC of 0.9034. Furthermore, we observed that the LPLNS model based on new interaction likelihood profiles could improve the performance to an AUC of 0.9127. This was better than other comparable methods. In addition, case studies also demonstrated our method's outstanding performance for inferring undiscovered interactions between miRNAs and diseases, especially for novel diseases. Copyright © 2018. Published by Elsevier Inc.

  1. Stabilization of electron-scale turbulence by electron density gradient in national spherical torus experiment

    Energy Technology Data Exchange (ETDEWEB)

    Ruiz Ruiz, J.; White, A. E. [MIT-Plasma Science and Fusion Center, Cambridge, Massachusetts 02139 (United States); Ren, Y.; Guttenfelder, W.; Kaye, S. M.; Leblanc, B. P.; Mazzucato, E. [Princeton Plasma Physics Laboratory, Princeton, New Jersey 08543 (United States); Lee, K. C. [National Fusion Research Institute, Daejeon (Korea, Republic of); Domier, C. W. [University of California at Davis, Davis, California 95616 (United States); Smith, D. R. [University of Wisconsin-Madison, Madison, Wisconsin 53706 (United States); Yuh, H. [Nova Photonics, Inc., Princeton, New Jersey 08540 (United States)

    2015-12-15

    Theory and experiments have shown that electron temperature gradient (ETG) turbulence on the electron gyro-scale, k{sub ⊥}ρ{sub e} ≲ 1, can be responsible for anomalous electron thermal transport in NSTX. Electron scale (high-k) turbulence is diagnosed in NSTX with a high-k microwave scattering system [D. R. Smith et al., Rev. Sci. Instrum. 79, 123501 (2008)]. Here we report on stabilization effects of the electron density gradient on electron-scale density fluctuations in a set of neutral beam injection heated H-mode plasmas. We found that the absence of high-k density fluctuations from measurements is correlated with large equilibrium density gradient, which is shown to be consistent with linear stabilization of ETG modes due to the density gradient using the analytical ETG linear threshold in F. Jenko et al. [Phys. Plasmas 8, 4096 (2001)] and linear gyrokinetic simulations with GS2 [M. Kotschenreuther et al., Comput. Phys. Commun. 88, 128 (1995)]. We also found that the observed power of electron-scale turbulence (when it exists) is anti-correlated with the equilibrium density gradient, suggesting density gradient as a nonlinear stabilizing mechanism. Higher density gradients give rise to lower values of the plasma frame frequency, calculated based on the Doppler shift of the measured density fluctuations. Linear gyrokinetic simulations show that higher values of the electron density gradient reduce the value of the real frequency, in agreement with experimental observation. Nonlinear electron-scale gyrokinetic simulations show that high electron density gradient reduces electron heat flux and stiffness, and increases the ETG nonlinear threshold, consistent with experimental observations.

  2. Verification of GENE and GYRO with L-mode and I-mode plasmas in Alcator C-Mod

    Science.gov (United States)

    Mikkelsen, D. R.; Howard, N. T.; White, A. E.; Creely, A. J.

    2018-04-01

    Verification comparisons are carried out for L-mode and I-mode plasma conditions in Alcator C-Mod. We compare linear and nonlinear ion-scale calculations by the gyrokinetic codes GENE and GYRO to each other and to the experimental power balance analysis. The two gyrokinetic codes' linear growth rates and real frequencies are in good agreement throughout all the ion temperature gradient mode branches and most of the trapped electron mode branches of the kyρs spectra at r/a = 0.65, 0.7, and 0.8. The shapes of the toroidal mode spectra of heat fluxes in nonlinear simulations are very similar for kyρs ≤ 0.5, but in most cases GENE has a relatively higher heat flux than GYRO at higher mode numbers. The ratio of ion to electron heat flux is similar in the two codes' simulations, but the heat fluxes themselves do not agree in almost all cases. In the I-mode regime, GENE's heat fluxes are ˜3 times those from GYRO, and they are ˜60%-100% higher than GYRO in the L-mode conditions. The GYRO under-prediction of Qe is much reduced in GENE's L-mode simulations, and it is eliminated in the I-mode simulations. This largely improved agreement with the experimental electron heat flux is offset, however, by the large overshoot of GENE's ion heat fluxes, which are 2-3 times the experimental level, and its electron heat flux overshoot at r/a = 0.80 in the I-mode. Rotation effects can explain part of the difference between the two codes' predictions, but very significant differences remain in simulations without any rotation effects.

  3. Linear models with R

    CERN Document Server

    Faraway, Julian J

    2014-01-01

    A Hands-On Way to Learning Data AnalysisPart of the core of statistics, linear models are used to make predictions and explain the relationship between the response and the predictors. Understanding linear models is crucial to a broader competence in the practice of statistics. Linear Models with R, Second Edition explains how to use linear models in physical science, engineering, social science, and business applications. The book incorporates several improvements that reflect how the world of R has greatly expanded since the publication of the first edition.New to the Second EditionReorganiz

  4. Enhancement of Visual Field Predictions with Pointwise Exponential Regression (PER) and Pointwise Linear Regression (PLR).

    Science.gov (United States)

    Morales, Esteban; de Leon, John Mark S; Abdollahi, Niloufar; Yu, Fei; Nouri-Mahdavi, Kouros; Caprioli, Joseph

    2016-03-01

    The study was conducted to evaluate threshold smoothing algorithms to enhance prediction of the rates of visual field (VF) worsening in glaucoma. We studied 798 patients with primary open-angle glaucoma and 6 or more years of follow-up who underwent 8 or more VF examinations. Thresholds at each VF location for the first 4 years or first half of the follow-up time (whichever was greater) were smoothed with clusters defined by the nearest neighbor (NN), Garway-Heath, Glaucoma Hemifield Test (GHT), and weighting by the correlation of rates at all other VF locations. Thresholds were regressed with a pointwise exponential regression (PER) model and a pointwise linear regression (PLR) model. Smaller root mean square error (RMSE) values of the differences between the observed and the predicted thresholds at last two follow-ups indicated better model predictions. The mean (SD) follow-up times for the smoothing and prediction phase were 5.3 (1.5) and 10.5 (3.9) years. The mean RMSE values for the PER and PLR models were unsmoothed data, 6.09 and 6.55; NN, 3.40 and 3.42; Garway-Heath, 3.47 and 3.48; GHT, 3.57 and 3.74; and correlation of rates, 3.59 and 3.64. Smoothed VF data predicted better than unsmoothed data. Nearest neighbor provided the best predictions; PER also predicted consistently more accurately than PLR. Smoothing algorithms should be used when forecasting VF results with PER or PLR. The application of smoothing algorithms on VF data can improve forecasting in VF points to assist in treatment decisions.

  5. Interaction between the neoclassical equilibrium and microturbulence in gyrokinetic simulations

    Energy Technology Data Exchange (ETDEWEB)

    Oberparleiter, Michael

    2015-07-10

    For the application of the nuclear fusion of hydrogen as a heat source for electricity generation understanding of the magnetic fuel confinement is crucial. Most of the cross-field transport in modern-day tokamaks is carried by turbulence driven by steep pressure gradients. Background neoclassical transport, however, provides a steady level of cross-field flux even in cases when turbulence becomes weak or suppressed. The goal of this work is to quantify how neoclassical (NC) effects and turbulence can influence each other. For this purpose the nonlinear gyrokinetic turbulence code GENE is employed. Firstly, its ability to self-consistently calculate the NC radial electric field is successfully benchmarked against the radial force balance equation and NC transport in the plasma region close to the center of a tokamak is studied. In the next step a model system where a long-wavelength external potential is imposed on ion temperature gradient-driven (ITG) turbulence is investigated. It is found that the self-generated shear flow pattern of the turbulence adapts to the imposed pattern and a small external shear is sufficient to notably reduce turbulent transport. Motivated by this global ITG simulations with fixed pressure gradient profiles are performed with and without inclusion of NC effects. Their comparison reveals that the NC field enhances turbulent transport by 20-30 % for a ratio of ion gyroradius and device radius larger than 1/300. An explanation is that the NC field aligns a region of low shear with the maximum of the gradient profile where the turbulent drive is strongest. Further investigation reveals that NC effects also change the dependence of the system on collisionality or safety factor. Finally, in physically more comprehensive simulations with fixed power input and a self-consistently evolving temperature profile, the additional NC transport channel is found to reduce the frequency and amplitude of intermittent turbulent transport bursts.

  6. Explorative methods in linear models

    DEFF Research Database (Denmark)

    Høskuldsson, Agnar

    2004-01-01

    The author has developed the H-method of mathematical modeling that builds up the model by parts, where each part is optimized with respect to prediction. Besides providing with better predictions than traditional methods, these methods provide with graphic procedures for analyzing different feat...... features in data. These graphic methods extend the well-known methods and results of Principal Component Analysis to any linear model. Here the graphic procedures are applied to linear regression and Ridge Regression....

  7. A comparison between linear and non-linear analysis of flexible pavements

    Energy Technology Data Exchange (ETDEWEB)

    Soleymani, H.R.; Berthelot, C.F.; Bergan, A.T. [Saskatchewan Univ., Saskatoon, SK (Canada). Dept. of Mechanical Engineering

    1995-12-31

    Computer pavement analysis programs, which are based on mathematical simulation models, were compared. The programs included in the study were: ELSYM5, an Elastic Linear (EL) pavement analysis program, MICH-PAVE, a Finite Element Non-Linear (FENL) and Finite Element Linear (FEL) pavement analysis program. To perform the analysis different tire pressures, pavement material properties and asphalt layer thicknesses were selected. Evaluation criteria used in the analysis were tensile strain in bottom of the asphalt layer, vertical compressive strain at the top of the subgrade and surface displacement. Results showed that FENL methods predicted more strain and surface deflection than the FEL and EL analysis methods. Analyzing pavements with FEL does not offer many advantages over the EL method. Differences in predicted strains between the three methods of analysis in some cases was found to be close to 100% It was suggested that these programs require more calibration and validation both theoretically and empirically to accurately correlate with field observations. 19 refs., 4 tabs., 9 figs.

  8. Gyrokinetic Calculations of Microinstabilities and Transport During RF H-Modes on Alcator C-Mod

    International Nuclear Information System (INIS)

    Redi, M.H.; Fiore, C.; Bonoli, P.; Bourdelle, C.; Budny, R.; Dorland, W.D.; Ernst, D.; Hammett, G.; Mikkelsen, D.; Rice, J.; Wukitch, S.

    2002-01-01

    Physics understanding for the experimental improvement of particle and energy confinement is being advanced through massively parallel calculations of microturbulence for simulated plasma conditions. The ultimate goal, an experimentally validated, global, non-local, fully nonlinear calculation of plasma microturbulence is still not within reach, but extraordinary progress has been achieved in understanding microturbulence, driving forces and the plasma response in recent years. In this paper we discuss gyrokinetic simulations of plasma turbulence being carried out to examine a reproducible, H-mode, RF heated experiment on the Alcator CMOD tokamak3, which exhibits an internal transport barrier (ITB). This off axis RF case represents the early phase of a very interesting dual frequency RF experiment, which shows density control with central RF heating later in the discharge. The ITB exhibits steep, spontaneous density peaking: a reduction in particle transport occurring without a central particle source. Since the central temperature is maintained while the central density is increasing, this also suggests a thermal transport barrier exists. TRANSP analysis shows that ceff drops inside the ITB. Sawtooth heat pulse analysis also shows a localized thermal transport barrier. For this ICRF EDA H-mode, the minority resonance is at r/a * 0.5 on the high field side. There is a normal shear profile, with q monotonic

  9. Area under the curve predictions of dalbavancin, a new lipoglycopeptide agent, using the end of intravenous infusion concentration data point by regression analyses such as linear, log-linear and power models.

    Science.gov (United States)

    Bhamidipati, Ravi Kanth; Syed, Muzeeb; Mullangi, Ramesh; Srinivas, Nuggehally

    2018-02-01

    1. Dalbavancin, a lipoglycopeptide, is approved for treating gram-positive bacterial infections. Area under plasma concentration versus time curve (AUC inf ) of dalbavancin is a key parameter and AUC inf /MIC ratio is a critical pharmacodynamic marker. 2. Using end of intravenous infusion concentration (i.e. C max ) C max versus AUC inf relationship for dalbavancin was established by regression analyses (i.e. linear, log-log, log-linear and power models) using 21 pairs of subject data. 3. The predictions of the AUC inf were performed using published C max data by application of regression equations. The quotient of observed/predicted values rendered fold difference. The mean absolute error (MAE)/root mean square error (RMSE) and correlation coefficient (r) were used in the assessment. 4. MAE and RMSE values for the various models were comparable. The C max versus AUC inf exhibited excellent correlation (r > 0.9488). The internal data evaluation showed narrow confinement (0.84-1.14-fold difference) with a RMSE models predicted AUC inf with a RMSE of 3.02-27.46% with fold difference largely contained within 0.64-1.48. 5. Regardless of the regression models, a single time point strategy of using C max (i.e. end of 30-min infusion) is amenable as a prospective tool for predicting AUC inf of dalbavancin in patients.

  10. Comparison of Damage Models for Predicting the Non-Linear Response of Laminates Under Matrix Dominated Loading Conditions

    Science.gov (United States)

    Schuecker, Clara; Davila, Carlos G.; Rose, Cheryl A.

    2010-01-01

    Five models for matrix damage in fiber reinforced laminates are evaluated for matrix-dominated loading conditions under plane stress and are compared both qualitatively and quantitatively. The emphasis of this study is on a comparison of the response of embedded plies subjected to a homogeneous stress state. Three of the models are specifically designed for modeling the non-linear response due to distributed matrix cracking under homogeneous loading, and also account for non-linear (shear) behavior prior to the onset of cracking. The remaining two models are localized damage models intended for predicting local failure at stress concentrations. The modeling approaches of distributed vs. localized cracking as well as the different formulations of damage initiation and damage progression are compared and discussed.

  11. BFLCRM: A BAYESIAN FUNCTIONAL LINEAR COX REGRESSION MODEL FOR PREDICTING TIME TO CONVERSION TO ALZHEIMER'S DISEASE.

    Science.gov (United States)

    Lee, Eunjee; Zhu, Hongtu; Kong, Dehan; Wang, Yalin; Giovanello, Kelly Sullivan; Ibrahim, Joseph G

    2015-12-01

    The aim of this paper is to develop a Bayesian functional linear Cox regression model (BFLCRM) with both functional and scalar covariates. This new development is motivated by establishing the likelihood of conversion to Alzheimer's disease (AD) in 346 patients with mild cognitive impairment (MCI) enrolled in the Alzheimer's Disease Neuroimaging Initiative 1 (ADNI-1) and the early markers of conversion. These 346 MCI patients were followed over 48 months, with 161 MCI participants progressing to AD at 48 months. The functional linear Cox regression model was used to establish that functional covariates including hippocampus surface morphology and scalar covariates including brain MRI volumes, cognitive performance (ADAS-Cog), and APOE status can accurately predict time to onset of AD. Posterior computation proceeds via an efficient Markov chain Monte Carlo algorithm. A simulation study is performed to evaluate the finite sample performance of BFLCRM.

  12. Prediction of SO2 pollution incidents near a power station using partially linear models and an historical matrix of predictor-response vectors

    International Nuclear Information System (INIS)

    Prada-Sanchez, J.M.; Febrero-Bande, M.; Gonzalez-Manteiga, W.; Costos-Yanez, T.; Bermudez-Cela, J.L.; Lucas-Dominguez, T.

    2000-01-01

    Atmospheric SO 2 concentrations at sampling stations near the fossil fuel fired power station at As Pontes (La Coruna, Spain) were predicted using a model for the corresponding time series consisting of a self-explicative term and a linear combination of exogenous variables. In a supplementary simulation study, models of this kind behaved better than the corresponding pure self-explicative or pure linear regression models. (Author)

  13. The estimation and prediction of the inventories for the liquid and gaseous radwaste systems using the linear regression analysis

    International Nuclear Information System (INIS)

    Kim, J. Y.; Shin, C. H.; Kim, J. K.; Lee, J. K.; Park, Y. J.

    2003-01-01

    The variation transitions of the inventories for the liquid radwaste system and the radioactive gas have being released in containment, and their predictive values according to the operation histories of Yonggwang(YGN) 3 and 4 were analyzed by linear regression analysis methodology. The results show that the variation transitions of the inventories for those systems are linearly increasing according to the operation histories but the inventories released to the environment are considerably lower than the recommended values based on the FSAR suggestions. It is considered that some conservation were presented in the estimation methodology in preparing stage of FSAR

  14. Ensemble Linear Neighborhood Propagation for Predicting Subchloroplast Localization of Multi-Location Proteins.

    Science.gov (United States)

    Wan, Shibiao; Mak, Man-Wai; Kung, Sun-Yuan

    2016-12-02

    In the postgenomic era, the number of unreviewed protein sequences is remarkably larger and grows tremendously faster than that of reviewed ones. However, existing methods for protein subchloroplast localization often ignore the information from these unlabeled proteins. This paper proposes a multi-label predictor based on ensemble linear neighborhood propagation (LNP), namely, LNP-Chlo, which leverages hybrid sequence-based feature information from both labeled and unlabeled proteins for predicting localization of both single- and multi-label chloroplast proteins. Experimental results on a stringent benchmark dataset and a novel independent dataset suggest that LNP-Chlo performs at least 6% (absolute) better than state-of-the-art predictors. This paper also demonstrates that ensemble LNP significantly outperforms LNP based on individual features. For readers' convenience, the online Web server LNP-Chlo is freely available at http://bioinfo.eie.polyu.edu.hk/LNPChloServer/ .

  15. Three-dimensional gyrokinetic particle-in-cell simulation of plasmas on a massively parallel computer: Final report on LDRD Core Competency Project, FY 1991--FY 1993

    International Nuclear Information System (INIS)

    Byers, J.A.; Williams, T.J.; Cohen, B.I.; Dimits, A.M.

    1994-01-01

    One of the programs of the Magnetic fusion Energy (MFE) Theory and computations Program is studying the anomalous transport of thermal energy across the field lines in the core of a tokamak. We use the method of gyrokinetic particle-in-cell simulation in this study. For this LDRD project we employed massively parallel processing, new algorithms, and new algorithms, and new formal techniques to improve this research. Specifically, we sought to take steps toward: researching experimentally-relevant parameters in our simulations, learning parallel computing to have as a resource for our group, and achieving a 100 x speedup over our starting-point Cray2 simulation code's performance

  16. Straight line fitting and predictions: On a marginal likelihood approach to linear regression and errors-in-variables models

    Science.gov (United States)

    Christiansen, Bo

    2015-04-01

    Linear regression methods are without doubt the most used approaches to describe and predict data in the physical sciences. They are often good first order approximations and they are in general easier to apply and interpret than more advanced methods. However, even the properties of univariate regression can lead to debate over the appropriateness of various models as witnessed by the recent discussion about climate reconstruction methods. Before linear regression is applied important choices have to be made regarding the origins of the noise terms and regarding which of the two variables under consideration that should be treated as the independent variable. These decisions are often not easy to make but they may have a considerable impact on the results. We seek to give a unified probabilistic - Bayesian with flat priors - treatment of univariate linear regression and prediction by taking, as starting point, the general errors-in-variables model (Christiansen, J. Clim., 27, 2014-2031, 2014). Other versions of linear regression can be obtained as limits of this model. We derive the likelihood of the model parameters and predictands of the general errors-in-variables model by marginalizing over the nuisance parameters. The resulting likelihood is relatively simple and easy to analyze and calculate. The well known unidentifiability of the errors-in-variables model is manifested as the absence of a well-defined maximum in the likelihood. However, this does not mean that probabilistic inference can not be made; the marginal likelihoods of model parameters and the predictands have, in general, well-defined maxima. We also include a probabilistic version of classical calibration and show how it is related to the errors-in-variables model. The results are illustrated by an example from the coupling between the lower stratosphere and the troposphere in the Northern Hemisphere winter.

  17. Mamdani-Fuzzy Modeling Approach for Quality Prediction of Non-Linear Laser Lathing Process

    Science.gov (United States)

    Sivaraos; Khalim, A. Z.; Salleh, M. S.; Sivakumar, D.; Kadirgama, K.

    2018-03-01

    Lathing is a process to fashioning stock materials into desired cylindrical shapes which usually performed by traditional lathe machine. But, the recent rapid advancements in engineering materials and precision demand gives a great challenge to the traditional method. The main drawback of conventional lathe is its mechanical contact which brings to the undesirable tool wear, heat affected zone, finishing, and dimensional accuracy especially taper quality in machining of stock with high length to diameter ratio. Therefore, a novel approach has been devised to investigate in transforming a 2D flatbed CO2 laser cutting machine into 3D laser lathing capability as an alternative solution. Three significant design parameters were selected for this experiment, namely cutting speed, spinning speed, and depth of cut. Total of 24 experiments were performed with eight (8) sequential runs where they were then replicated three (3) times. The experimental results were then used to establish Mamdani - Fuzzy predictive model where it yields the accuracy of more than 95%. Thus, the proposed Mamdani - Fuzzy modelling approach is found very much suitable and practical for quality prediction of non-linear laser lathing process for cylindrical stocks of 10mm diameter.

  18. Frequency prediction by linear stability analysis around mean flow

    Science.gov (United States)

    Bengana, Yacine; Tuckerman, Laurette

    2017-11-01

    The frequency of certain limit cycles resulting from a Hopf bifurcation, such as the von Karman vortex street, can be predicted by linear stability analysis around their mean flows. Barkley (2006) has shown this to yield an eigenvalue whose real part is zero and whose imaginary part matches the nonlinear frequency. This property was named RZIF by Turton et al. (2015); moreover they found that the traveling waves (TW) of thermosolutal convection have the RZIF property. They explained this as a consequence of the fact that the temporal Fourier spectrum is dominated by the mean flow and first harmonic. We could therefore consider that only the first mode is important in the saturation of the mean flow as presented in the Self-Consistent Model (SCM) of Mantic-Lugo et al. (2014). We have implemented a full Newton's method to solve the SCM for thermosolutal convection. We show that while the RZIF property is satisfied far from the threshold, the SCM model reproduces the exact frequency only very close to the threshold. Thus, the nonlinear interaction of only the first mode with itself is insufficiently accurate to estimate the mean flow. Our next step will be to take into account higher harmonics and to apply this analysis to the standing waves, for which RZIF does not hold.

  19. Performance Prediction Modelling for Flexible Pavement on Low Volume Roads Using Multiple Linear Regression Analysis

    Directory of Open Access Journals (Sweden)

    C. Makendran

    2015-01-01

    Full Text Available Prediction models for low volume village roads in India are developed to evaluate the progression of different types of distress such as roughness, cracking, and potholes. Even though the Government of India is investing huge quantum of money on road construction every year, poor control over the quality of road construction and its subsequent maintenance is leading to the faster road deterioration. In this regard, it is essential that scientific maintenance procedures are to be evolved on the basis of performance of low volume flexible pavements. Considering the above, an attempt has been made in this research endeavor to develop prediction models to understand the progression of roughness, cracking, and potholes in flexible pavements exposed to least or nil routine maintenance. Distress data were collected from the low volume rural roads covering about 173 stretches spread across Tamil Nadu state in India. Based on the above collected data, distress prediction models have been developed using multiple linear regression analysis. Further, the models have been validated using independent field data. It can be concluded that the models developed in this study can serve as useful tools for the practicing engineers maintaining flexible pavements on low volume roads.

  20. Development of Bundle Position-Wise Linear Model for Predicting the Pressure Tube Diametral Creep in CANDU Reactors

    International Nuclear Information System (INIS)

    Lee, Jae Yong; Na, Man Gyun

    2011-01-01

    Diametral creep of the pressure tube (PT) is one of the principal aging mechanisms governing the heat transfer and hydraulic degradation of a heat transport system. PT diametral creep leads to diametral expansion that affects the thermal hydraulic characteristics of the coolant channels and the critical heat flux. Therefore, it is essential to predict the PT diametral creep in CANDU reactors, which is caused mainly by fast neutron irradiation, reactor coolant temperature and so forth. The currently used PT diametral creep prediction model considers the complex interactions between the effects of temperature and fast neutron flux on the deformation of PT zirconium alloys. The model assumes that long-term steady-state deformation consists of separable, additive components from thermal creep, irradiation creep and irradiation growth. This is a mechanistic model based on measured data. However, this model has high prediction uncertainty. Recently, a statistical error modeling method was developed using plant inspection data from the Bruce B CANDU reactor. The aim of this study was to develop a bundle position-wise linear model (BPLM) to predict PT diametral creep employing previously measured PT diameters and HTS operating conditions. There are twelve bundles in a fuel channel and for each bundle, a linear model was developed by using the dependent variables, such as the fast neutron fluxes and the bundle temperatures. The training data set was selected using the subtractive clustering method. The data of 39 channels that consist of 80 percent of a total of 49 measured channels from Units 2, 3 and 4 were used to develop the BPLM models. The remaining 10 channels' data were used to test the developed BPLM models. The BPLM was optimized by the maximum likelihood estimation method. The developed BPLM to predict PT diametral creep was verified using the operating data gathered from the Units 2,3 and 4 in Korea. Two error components for the BPLM, which are the epistemic

  1. Performance prediction of mechanical excavators from linear cutter tests on Yucca Mountain welded tuffs

    International Nuclear Information System (INIS)

    Gertsch, R.; Ozdemir, L.

    1992-09-01

    The performances of mechanical excavators are predicted for excavations in welded tuff. Emphasis is given to tunnel boring machine evaluations based on linear cutting machine test data obtained on samples of Topopah Spring welded tuff. The tests involve measurement of forces as cutters are applied to the rock surface at certain spacing and penetrations. Two disc and two point-attack cutters representing currently available technology are thus evaluated. The performance predictions based on these direct experimental measurements are believed to be more accurate than any previous values for mechanical excavation of welded tuff. The calculations of performance are predicated on minimizing the amount of energy required to excavate the welded tuff. Specific energy decreases with increasing spacing and penetration, and reaches its lowest at the widest spacing and deepest penetration used in this test program. Using the force, spacing, and penetration data from this experimental program, the thrust, torque, power, and rate of penetration are calculated for several types of mechanical excavators. The results of this study show that the candidate excavators will require higher torque and power than heretofore estimated

  2. Linear and non-linear autoregressive models for short-term wind speed forecasting

    International Nuclear Information System (INIS)

    Lydia, M.; Suresh Kumar, S.; Immanuel Selvakumar, A.; Edwin Prem Kumar, G.

    2016-01-01

    Highlights: • Models for wind speed prediction at 10-min intervals up to 1 h built on time-series wind speed data. • Four different multivariate models for wind speed built based on exogenous variables. • Non-linear models built using three data mining algorithms outperform the linear models. • Autoregressive models based on wind direction perform better than other models. - Abstract: Wind speed forecasting aids in estimating the energy produced from wind farms. The soaring energy demands of the world and minimal availability of conventional energy sources have significantly increased the role of non-conventional sources of energy like solar, wind, etc. Development of models for wind speed forecasting with higher reliability and greater accuracy is the need of the hour. In this paper, models for predicting wind speed at 10-min intervals up to 1 h have been built based on linear and non-linear autoregressive moving average models with and without external variables. The autoregressive moving average models based on wind direction and annual trends have been built using data obtained from Sotavento Galicia Plc. and autoregressive moving average models based on wind direction, wind shear and temperature have been built on data obtained from Centre for Wind Energy Technology, Chennai, India. While the parameters of the linear models are obtained using the Gauss–Newton algorithm, the non-linear autoregressive models are developed using three different data mining algorithms. The accuracy of the models has been measured using three performance metrics namely, the Mean Absolute Error, Root Mean Squared Error and Mean Absolute Percentage Error.

  3. COMPARISON OF GKS CALCULATED CRITICAL ION TEMPERATURE GRADIENTS AND ITG GROWTH RATES TO DIII-D MEASURED GRADIENTS AND DIFFUSIVITIES

    International Nuclear Information System (INIS)

    BAKER, DR; STAEBLER, GM; PETTY, CC; GREENFIELD, CM; LUCE, TC

    2003-01-01

    OAK-B135 The gyrokinetic equations predict that various drift type waves or modes can be unstable in a tokamak. For some of these modes, such as the ion temperature gradient (ITG) mode and the electron temperature gradient mode, there exists a critical gradient, above which the mode is unstable. Since the existence of unstable modes can cause increased transport, plasmas which are centrally heated tend to increase in temperature gradient until the modes become unstable. Under some conditions the increased transport can fix the gradient at the critical value. here they present a comparison between the measured ion temperature gradients and the critical gradient as calculated by a gyrokinetic linear stability (GKS) code. They also present the maximum linear growth rate as calculated by this code for comparison to experimentally derived transport coefficients. The results show that for low confinement mode (L-mode) discharges, the measured ion temperature gradient is significantly greater than the GKS calculated critical gradient over a large region of the plasma. This is the same region of the plasma where the ion thermal diffusivity is large. For high confinement mode (H-mode) discharges the ion temperature gradient is closer to the critical gradient, but often still greater than the critical gradient over some region. For the best H-mode discharges, the ion temperature is less than or equal to the critical gradient over the whole plasma. In general they find that the position in the plasma where the ion thermal diffusivity starts to increase rapidly is where the maximum linear growth rate is greater than the E x B shearing rate

  4. Prediction of SO{sub 2} pollution incidents near a power station using partially linear models and an historical matrix of predictor-response vectors

    Energy Technology Data Exchange (ETDEWEB)

    Prada-Sanchez, J.M.; Febrero-Bande, M.; Gonzalez-Manteiga, W. [Universidad de Santiago de Compostela, Dept. de Estadistica e Investigacion Operativa, Santiago de Compostela (Spain); Costos-Yanez, T. [Universidad de Vigo, Dept. de Estadistica e Investigacion Operativa, Orense (Spain); Bermudez-Cela, J.L.; Lucas-Dominguez, T. [Laboratorio, Central Termica de As Pontes, La Coruna (Spain)

    2000-07-01

    Atmospheric SO{sub 2} concentrations at sampling stations near the fossil fuel fired power station at As Pontes (La Coruna, Spain) were predicted using a model for the corresponding time series consisting of a self-explicative term and a linear combination of exogenous variables. In a supplementary simulation study, models of this kind behaved better than the corresponding pure self-explicative or pure linear regression models. (Author)

  5. TEM heat transport and fluctuations in the HSX stellarator: experiments and comparison with gyrokinetic simulation

    Science.gov (United States)

    Smoniewski, J.; Faber, B. J.; Sánchez, E.; Calvo, I.; Pueschel, M. J.; Likin, K. M.; Deng, C. B.; Talmadge, J. N.

    2017-10-01

    The Helically Symmetric eXperiment (HSX) has demonstrated reduced neoclassical transport in the plasma core with quasi-symmetry [Lore Thesis 2010], while outside this region the electron thermal diffusivity is well above the neoclassical level, likely due to the Trapped Electron Mode (TEM) [Weir PoP 2015, Faber PoP 2015]. We compare gyrokinetic simulations of the TEM to experimental heat flux and density fluctuation measurements for two configurations: Quasi-Helical Symmetry (QHS) and broken symmetry (Mirror). Both experiment and simulation show that the heat flux for Mirror is larger than for QHS by about a factor of two. Initial interferometer measurements provide evidence that density-gradient-driven TEMs are driving turbulence. Calculations of the collisionless damping of zonal flows provide another perspective into the difference between geometries. Similar to other stellarators [Monreal PPCF 2016], the zonal flow residual goes to zero at long wavelengths in both configurations. Additionally, the very short time decay of the zonal flow due to neoclassical polarization is constant between configurations. However, the collisionless damping time is longer and the zonal flow oscillation frequency is smaller in QHS than Mirror, consistent with reduced radial particle drifts. Work supported by the US DOE under Grant DE-FG02-93ER54222.

  6. Predicting the multi-domain progression of Parkinson's disease: a Bayesian multivariate generalized linear mixed-effect model.

    Science.gov (United States)

    Wang, Ming; Li, Zheng; Lee, Eun Young; Lewis, Mechelle M; Zhang, Lijun; Sterling, Nicholas W; Wagner, Daymond; Eslinger, Paul; Du, Guangwei; Huang, Xuemei

    2017-09-25

    It is challenging for current statistical models to predict clinical progression of Parkinson's disease (PD) because of the involvement of multi-domains and longitudinal data. Past univariate longitudinal or multivariate analyses from cross-sectional trials have limited power to predict individual outcomes or a single moment. The multivariate generalized linear mixed-effect model (GLMM) under the Bayesian framework was proposed to study multi-domain longitudinal outcomes obtained at baseline, 18-, and 36-month. The outcomes included motor, non-motor, and postural instability scores from the MDS-UPDRS, and demographic and standardized clinical data were utilized as covariates. The dynamic prediction was performed for both internal and external subjects using the samples from the posterior distributions of the parameter estimates and random effects, and also the predictive accuracy was evaluated based on the root of mean square error (RMSE), absolute bias (AB) and the area under the receiver operating characteristic (ROC) curve. First, our prediction model identified clinical data that were differentially associated with motor, non-motor, and postural stability scores. Second, the predictive accuracy of our model for the training data was assessed, and improved prediction was gained in particularly for non-motor (RMSE and AB: 2.89 and 2.20) compared to univariate analysis (RMSE and AB: 3.04 and 2.35). Third, the individual-level predictions of longitudinal trajectories for the testing data were performed, with ~80% observed values falling within the 95% credible intervals. Multivariate general mixed models hold promise to predict clinical progression of individual outcomes in PD. The data was obtained from Dr. Xuemei Huang's NIH grant R01 NS060722 , part of NINDS PD Biomarker Program (PDBP). All data was entered within 24 h of collection to the Data Management Repository (DMR), which is publically available ( https://pdbp.ninds.nih.gov/data-management ).

  7. A State-Space Approach to Optimal Level-Crossing Prediction for Linear Gaussian Processes

    Science.gov (United States)

    Martin, Rodney Alexander

    2009-01-01

    In many complex engineered systems, the ability to give an alarm prior to impending critical events is of great importance. These critical events may have varying degrees of severity, and in fact they may occur during normal system operation. In this article, we investigate approximations to theoretically optimal methods of designing alarm systems for the prediction of level-crossings by a zero-mean stationary linear dynamic system driven by Gaussian noise. An optimal alarm system is designed to elicit the fewest false alarms for a fixed detection probability. This work introduces the use of Kalman filtering in tandem with the optimal level-crossing problem. It is shown that there is a negligible loss in overall accuracy when using approximations to the theoretically optimal predictor, at the advantage of greatly reduced computational complexity. I

  8. Dual-Source Linear Energy Prediction (LINE-P) Model in the Context of WSNs.

    Science.gov (United States)

    Ahmed, Faisal; Tamberg, Gert; Le Moullec, Yannick; Annus, Paul

    2017-07-20

    Energy harvesting technologies such as miniature power solar panels and micro wind turbines are increasingly used to help power wireless sensor network nodes. However, a major drawback of energy harvesting is its varying and intermittent characteristic, which can negatively affect the quality of service. This calls for careful design and operation of the nodes, possibly by means of, e.g., dynamic duty cycling and/or dynamic frequency and voltage scaling. In this context, various energy prediction models have been proposed in the literature; however, they are typically compute-intensive or only suitable for a single type of energy source. In this paper, we propose Linear Energy Prediction "LINE-P", a lightweight, yet relatively accurate model based on approximation and sampling theory; LINE-P is suitable for dual-source energy harvesting. Simulations and comparisons against existing similar models have been conducted with low and medium resolutions (i.e., 60 and 22 min intervals/24 h) for the solar energy source (low variations) and with high resolutions (15 min intervals/24 h) for the wind energy source. The results show that the accuracy of the solar-based and wind-based predictions is up to approximately 98% and 96%, respectively, while requiring a lower complexity and memory than the other models. For the cases where LINE-P's accuracy is lower than that of other approaches, it still has the advantage of lower computing requirements, making it more suitable for embedded implementation, e.g., in wireless sensor network coordinator nodes or gateways.

  9. Linear Unlearning for Cross-Validation

    DEFF Research Database (Denmark)

    Hansen, Lars Kai; Larsen, Jan

    1996-01-01

    The leave-one-out cross-validation scheme for generalization assessment of neural network models is computationally expensive due to replicated training sessions. In this paper we suggest linear unlearning of examples as an approach to approximative cross-validation. Further, we discuss...... time series prediction benchmark demonstrate the potential of the linear unlearning technique...

  10. A novel simple QSAR model for the prediction of anti-HIV activity using multiple linear regression analysis.

    Science.gov (United States)

    Afantitis, Antreas; Melagraki, Georgia; Sarimveis, Haralambos; Koutentis, Panayiotis A; Markopoulos, John; Igglessi-Markopoulou, Olga

    2006-08-01

    A quantitative-structure activity relationship was obtained by applying Multiple Linear Regression Analysis to a series of 80 1-[2-hydroxyethoxy-methyl]-6-(phenylthio) thymine (HEPT) derivatives with significant anti-HIV activity. For the selection of the best among 37 different descriptors, the Elimination Selection Stepwise Regression Method (ES-SWR) was utilized. The resulting QSAR model (R (2) (CV) = 0.8160; S (PRESS) = 0.5680) proved to be very accurate both in training and predictive stages.

  11. Order-constrained linear optimization.

    Science.gov (United States)

    Tidwell, Joe W; Dougherty, Michael R; Chrabaszcz, Jeffrey S; Thomas, Rick P

    2017-11-01

    Despite the fact that data and theories in the social, behavioural, and health sciences are often represented on an ordinal scale, there has been relatively little emphasis on modelling ordinal properties. The most common analytic framework used in psychological science is the general linear model, whose variants include ANOVA, MANOVA, and ordinary linear regression. While these methods are designed to provide the best fit to the metric properties of the data, they are not designed to maximally model ordinal properties. In this paper, we develop an order-constrained linear least-squares (OCLO) optimization algorithm that maximizes the linear least-squares fit to the data conditional on maximizing the ordinal fit based on Kendall's τ. The algorithm builds on the maximum rank correlation estimator (Han, 1987, Journal of Econometrics, 35, 303) and the general monotone model (Dougherty & Thomas, 2012, Psychological Review, 119, 321). Analyses of simulated data indicate that when modelling data that adhere to the assumptions of ordinary least squares, OCLO shows minimal bias, little increase in variance, and almost no loss in out-of-sample predictive accuracy. In contrast, under conditions in which data include a small number of extreme scores (fat-tailed distributions), OCLO shows less bias and variance, and substantially better out-of-sample predictive accuracy, even when the outliers are removed. We show that the advantages of OCLO over ordinary least squares in predicting new observations hold across a variety of scenarios in which researchers must decide to retain or eliminate extreme scores when fitting data. © 2017 The British Psychological Society.

  12. Chaos in balance: non-linear measures of postural control predict individual variations in visual illusions of motion.

    Directory of Open Access Journals (Sweden)

    Deborah Apthorp

    Full Text Available Visually-induced illusions of self-motion (vection can be compelling for some people, but they are subject to large individual variations in strength. Do these variations depend, at least in part, on the extent to which people rely on vision to maintain their postural stability? We investigated by comparing physical posture measures to subjective vection ratings. Using a Bertec balance plate in a brightly-lit room, we measured 13 participants' excursions of the centre of foot pressure (CoP over a 60-second period with eyes open and with eyes closed during quiet stance. Subsequently, we collected vection strength ratings for large optic flow displays while seated, using both verbal ratings and online throttle measures. We also collected measures of postural sway (changes in anterior-posterior CoP in response to the same visual motion stimuli while standing on the plate. The magnitude of standing sway in response to expanding optic flow (in comparison to blank fixation periods was predictive of both verbal and throttle measures for seated vection. In addition, the ratio between eyes-open and eyes-closed CoP excursions during quiet stance (using the area of postural sway significantly predicted seated vection for both measures. Interestingly, these relationships were weaker for contracting optic flow displays, though these produced both stronger vection and more sway. Next we used a non-linear analysis (recurrence quantification analysis, RQA of the fluctuations in anterior-posterior position during quiet stance (both with eyes closed and eyes open; this was a much stronger predictor of seated vection for both expanding and contracting stimuli. Given the complex multisensory integration involved in postural control, our study adds to the growing evidence that non-linear measures drawn from complexity theory may provide a more informative measure of postural sway than the conventional linear measures.

  13. Gyrokinetic simulation study of magnetic island effects on neoclassical physics and micro-instabilities in a realistic KSTAR plasma

    Science.gov (United States)

    Kwon, Jae-Min; Ku, S.; Choi, M. J.; Chang, C. S.; Hager, R.; Yoon, E. S.; Lee, H. H.; Kim, H. S.

    2018-05-01

    We perform gyrokinetic simulations to study the effects of a stationary magnetic island on neoclassical flow and micro-instability in a realistic KSTAR plasma condition. Through the simulations, we aim to analyze a recent KSTAR experiment, which was to measure the details of poloidal flow and fluctuation around a stationary (2, 1) magnetic island [M. J. Choi et al., Nucl. Fusion 57, 126058 (2017)]. From the simulations, it is found that the magnetic island can significantly enhance the equilibrium E × B flow. The corresponding flow shearing is strong enough to suppress a substantial portion of ambient micro-instabilities, particularly ∇Te -driven trapped electron modes. This implies that the enhanced E × B flow can sustain a quasi-internal transport barrier for Te in an inner region neighboring the magnetic island. The enhanced E × B flow has a (2, 1) mode structure with a finite phase shift from the mode structure of the magnetic island. It is shown that the flow shear and the fluctuation suppression patterns implied from the simulations are consistent with the observations on the KSTAR experiment.

  14. Patient-specific non-linear finite element modelling for predicting soft organ deformation in real-time: application to non-rigid neuroimage registration.

    Science.gov (United States)

    Wittek, Adam; Joldes, Grand; Couton, Mathieu; Warfield, Simon K; Miller, Karol

    2010-12-01

    Long computation times of non-linear (i.e. accounting for geometric and material non-linearity) biomechanical models have been regarded as one of the key factors preventing application of such models in predicting organ deformation for image-guided surgery. This contribution presents real-time patient-specific computation of the deformation field within the brain for six cases of brain shift induced by craniotomy (i.e. surgical opening of the skull) using specialised non-linear finite element procedures implemented on a graphics processing unit (GPU). In contrast to commercial finite element codes that rely on an updated Lagrangian formulation and implicit integration in time domain for steady state solutions, our procedures utilise the total Lagrangian formulation with explicit time stepping and dynamic relaxation. We used patient-specific finite element meshes consisting of hexahedral and non-locking tetrahedral elements, together with realistic material properties for the brain tissue and appropriate contact conditions at the boundaries. The loading was defined by prescribing deformations on the brain surface under the craniotomy. Application of the computed deformation fields to register (i.e. align) the preoperative and intraoperative images indicated that the models very accurately predict the intraoperative deformations within the brain. For each case, computing the brain deformation field took less than 4 s using an NVIDIA Tesla C870 GPU, which is two orders of magnitude reduction in computation time in comparison to our previous study in which the brain deformation was predicted using a commercial finite element solver executed on a personal computer. Copyright © 2010 Elsevier Ltd. All rights reserved.

  15. The development of a practical and uncomplicated predictive equation to determine liver volume from simple linear ultrasound measurements of the liver

    International Nuclear Information System (INIS)

    Childs, Jessie T.; Thoirs, Kerry A.; Esterman, Adrian J.

    2016-01-01

    This study sought to develop a practical and uncomplicated predictive equation that could accurately calculate liver volumes, using multiple simple linear ultrasound measurements combined with measurements of body size. Penalized (lasso) regression was used to develop a new model and compare it to the ultrasonic linear measurements currently used clinically. A Bland–Altman analysis showed that the large limits of agreement of the new model render it too inaccurate to be of clinical use for estimating liver volume per se, but it holds value in tracking disease progress or response to treatment over time in individuals, and is certainly substantially better as an indicator of overall liver size than the ultrasonic linear measurements currently being used clinically. - Highlights: • A new model to calculate liver volumes from simple linear ultrasound measurements. • This model was compared to the linear measurements currently used clinically. • The new model holds value in tracking disease progress or response to treatment. • This model is better as an indicator of overall liver size.

  16. Verifying the performance of artificial neural network and multiple linear regression in predicting the mean seasonal municipal solid waste generation rate: A case study of Fars province, Iran.

    Science.gov (United States)

    Azadi, Sama; Karimi-Jashni, Ayoub

    2016-02-01

    Predicting the mass of solid waste generation plays an important role in integrated solid waste management plans. In this study, the performance of two predictive models, Artificial Neural Network (ANN) and Multiple Linear Regression (MLR) was verified to predict mean Seasonal Municipal Solid Waste Generation (SMSWG) rate. The accuracy of the proposed models is illustrated through a case study of 20 cities located in Fars Province, Iran. Four performance measures, MAE, MAPE, RMSE and R were used to evaluate the performance of these models. The MLR, as a conventional model, showed poor prediction performance. On the other hand, the results indicated that the ANN model, as a non-linear model, has a higher predictive accuracy when it comes to prediction of the mean SMSWG rate. As a result, in order to develop a more cost-effective strategy for waste management in the future, the ANN model could be used to predict the mean SMSWG rate. Copyright © 2015 Elsevier Ltd. All rights reserved.

  17. The Spike-and-Slab Lasso Generalized Linear Models for Prediction and Associated Genes Detection.

    Science.gov (United States)

    Tang, Zaixiang; Shen, Yueping; Zhang, Xinyan; Yi, Nengjun

    2017-01-01

    Large-scale "omics" data have been increasingly used as an important resource for prognostic prediction of diseases and detection of associated genes. However, there are considerable challenges in analyzing high-dimensional molecular data, including the large number of potential molecular predictors, limited number of samples, and small effect of each predictor. We propose new Bayesian hierarchical generalized linear models, called spike-and-slab lasso GLMs, for prognostic prediction and detection of associated genes using large-scale molecular data. The proposed model employs a spike-and-slab mixture double-exponential prior for coefficients that can induce weak shrinkage on large coefficients, and strong shrinkage on irrelevant coefficients. We have developed a fast and stable algorithm to fit large-scale hierarchal GLMs by incorporating expectation-maximization (EM) steps into the fast cyclic coordinate descent algorithm. The proposed approach integrates nice features of two popular methods, i.e., penalized lasso and Bayesian spike-and-slab variable selection. The performance of the proposed method is assessed via extensive simulation studies. The results show that the proposed approach can provide not only more accurate estimates of the parameters, but also better prediction. We demonstrate the proposed procedure on two cancer data sets: a well-known breast cancer data set consisting of 295 tumors, and expression data of 4919 genes; and the ovarian cancer data set from TCGA with 362 tumors, and expression data of 5336 genes. Our analyses show that the proposed procedure can generate powerful models for predicting outcomes and detecting associated genes. The methods have been implemented in a freely available R package BhGLM (http://www.ssg.uab.edu/bhglm/). Copyright © 2017 by the Genetics Society of America.

  18. Forecasting the EMU inflation rate: Linear econometric vs. non-linear computational models using genetic neural fuzzy systems

    DEFF Research Database (Denmark)

    Kooths, Stefan; Mitze, Timo Friedel; Ringhut, Eric

    2004-01-01

    This paper compares the predictive power of linear econometric and non-linear computational models for forecasting the inflation rate in the European Monetary Union (EMU). Various models of both types are developed using different monetary and real activity indicators. They are compared according...

  19. Metode Linear Predictive Coding (LPC Pada klasifikasi Hidden Markov Model (HMM Untuk Kata Arabic pada penutur Indonesia

    Directory of Open Access Journals (Sweden)

    Ririn Kusumawati

    2016-05-01

    In the classification, using Hidden Markov Model, voice signal is analyzed and searched the maximum possible value that can be recognized. The modeling results obtained parameters are used to compare with the sound of Arabic speakers. From the test results' Classification, Hidden Markov Models with Linear Predictive Coding extraction average accuracy of 78.6% for test data sampling frequency of 8,000 Hz, 80.2% for test data sampling frequency of 22050 Hz, 79% for frequencies sampling test data at 44100 Hz.

  20. Bayesian techniques for fatigue life prediction and for inference in linear time dependent PDEs

    KAUST Repository

    Scavino, Marco

    2016-01-08

    In this talk we introduce first the main characteristics of a systematic statistical approach to model calibration, model selection and model ranking when stress-life data are drawn from a collection of records of fatigue experiments. Focusing on Bayesian prediction assessment, we consider fatigue-limit models and random fatigue-limit models under different a priori assumptions. In the second part of the talk, we present a hierarchical Bayesian technique for the inference of the coefficients of time dependent linear PDEs, under the assumption that noisy measurements are available in both the interior of a domain of interest and from boundary conditions. We present a computational technique based on the marginalization of the contribution of the boundary parameters and apply it to inverse heat conduction problems.

  1. Multiple Linear Regression and Artificial Neural Network to Predict Blood Glucose in Overweight Patients.

    Science.gov (United States)

    Wang, J; Wang, F; Liu, Y; Xu, J; Lin, H; Jia, B; Zuo, W; Jiang, Y; Hu, L; Lin, F

    2016-01-01

    Overweight individuals are at higher risk for developing type II diabetes than the general population. We conducted this study to analyze the correlation between blood glucose and biochemical parameters, and developed a blood glucose prediction model tailored to overweight patients. A total of 346 overweight Chinese people patients ages 18-81 years were involved in this study. Their levels of fasting glucose (fs-GLU), blood lipids, and hepatic and renal functions were measured and analyzed by multiple linear regression (MLR). Based the MLR results, we developed a back propagation artificial neural network (BP-ANN) model by selecting tansig as the transfer function of the hidden layers nodes, and purelin for the output layer nodes, with training goal of 0.5×10(-5). There was significant correlation between fs-GLU with age, BMI, and blood biochemical indexes (P<0.05). The results of MLR analysis indicated that age, fasting alanine transaminase (fs-ALT), blood urea nitrogen (fs-BUN), total protein (fs-TP), uric acid (fs-BUN), and BMI are 6 independent variables related to fs-GLU. Based on these parameters, the BP-ANN model was performed well and reached high prediction accuracy when training 1 000 epoch (R=0.9987). The level of fs-GLU was predictable using the proposed BP-ANN model based on 6 related parameters (age, fs-ALT, fs-BUN, fs-TP, fs-UA and BMI) in overweight patients. © Georg Thieme Verlag KG Stuttgart · New York.

  2. The log-linear return approximation, bubbles, and predictability

    DEFF Research Database (Denmark)

    Engsted, Tom; Pedersen, Thomas Quistgaard; Tanggaard, Carsten

    We study in detail the log-linear return approximation introduced by Campbell and Shiller (1988a). First, we derive an upper bound for the mean approximation error, given stationarity of the log dividendprice ratio. Next, we simulate various rational bubbles which have explosive conditional expec...

  3. A hybrid genetic algorithm and linear regression for prediction of NOx emission in power generation plant

    International Nuclear Information System (INIS)

    Bunyamin, Muhammad Afif; Yap, Keem Siah; Aziz, Nur Liyana Afiqah Abdul; Tiong, Sheih Kiong; Wong, Shen Yuong; Kamal, Md Fauzan

    2013-01-01

    This paper presents a new approach of gas emission estimation in power generation plant using a hybrid Genetic Algorithm (GA) and Linear Regression (LR) (denoted as GA-LR). The LR is one of the approaches that model the relationship between an output dependant variable, y, with one or more explanatory variables or inputs which denoted as x. It is able to estimate unknown model parameters from inputs data. On the other hand, GA is used to search for the optimal solution until specific criteria is met causing termination. These results include providing good solutions as compared to one optimal solution for complex problems. Thus, GA is widely used as feature selection. By combining the LR and GA (GA-LR), this new technique is able to select the most important input features as well as giving more accurate prediction by minimizing the prediction errors. This new technique is able to produce more consistent of gas emission estimation, which may help in reducing population to the environment. In this paper, the study's interest is focused on nitrous oxides (NOx) prediction. The results of the experiment are encouraging.

  4. Non-linear dynamical signal characterization for prediction of defibrillation success through machine learning

    Directory of Open Access Journals (Sweden)

    Shandilya Sharad

    2012-10-01

    .6% and 60.9%, respectively. Conclusion We report the development and first-use of a nontraditional non-linear method of analyzing the VF ECG signal, yielding high predictive accuracies of defibrillation success. Furthermore, incorporation of features from the PetCO2 signal noticeably increased model robustness. These predictive capabilities should further improve with the availability of a larger database.

  5. A new hybrid-Lagrangian numerical scheme for gyrokinetic simulation of tokamak edge plasma

    Energy Technology Data Exchange (ETDEWEB)

    Ku, S., E-mail: sku@pppl.gov [Princeton Plasma Physics Laboratory, Princeton University, Princeton, NJ 08543 (United States); Hager, R.; Chang, C.S. [Princeton Plasma Physics Laboratory, Princeton University, Princeton, NJ 08543 (United States); Kwon, J.M. [National Fusion Research Institute (Korea, Republic of); Parker, S.E. [University of Colorado Boulder (United States)

    2016-06-15

    In order to enable kinetic simulation of non-thermal edge plasmas at a reduced computational cost, a new hybrid-Lagrangian δf scheme has been developed that utilizes the phase space grid in addition to the usual marker particles, taking advantage of the computational strengths from both sides. The new scheme splits the particle distribution function of a kinetic equation into two parts. Marker particles contain the fast space-time varying, δf, part of the distribution function and the coarse-grained phase-space grid contains the slow space-time varying part. The coarse-grained phase-space grid reduces the memory-requirement and the computing cost, while the marker particles provide scalable computing ability for the fine-grained physics. Weights of the marker particles are determined by a direct weight evolution equation instead of the differential form weight evolution equations that the conventional delta-f schemes use. The particle weight can be slowly transferred to the phase space grid, thereby reducing the growth of the particle weights. The non-Lagrangian part of the kinetic equation – e.g., collision operation, ionization, charge exchange, heat-source, radiative cooling, and others – can be operated directly on the phase space grid. Deviation of the particle distribution function on the velocity grid from a Maxwellian distribution function – driven by ionization, charge exchange and wall loss – is allowed to be arbitrarily large. The numerical scheme is implemented in the gyrokinetic particle code XGC1, which specializes in simulating the tokamak edge plasma that crosses the magnetic separatrix and is in contact with the material wall.

  6. SciDAC Center for Gyrokinetic Particle Simulation of Turbulent Transport in Burning Plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Lin, Zhihong [Univ. of California, Irvine, CA (United States)

    2013-12-18

    During the first year of the SciDAC gyrokinetic particle simulation (GPS) project, the GPS team (Zhihong Lin, Liu Chen, Yasutaro Nishimura, and Igor Holod) at the University of California, Irvine (UCI) studied the tokamak electron transport driven by electron temperature gradient (ETG) turbulence, and by trapped electron mode (TEM) turbulence and ion temperature gradient (ITG) turbulence with kinetic electron effects, extended our studies of ITG turbulence spreading to core-edge coupling. We have developed and optimized an elliptic solver using finite element method (FEM), which enables the implementation of advanced kinetic electron models (split-weight scheme and hybrid model) in the SciDAC GPS production code GTC. The GTC code has been ported and optimized on both scalar and vector parallel computer architectures, and is being transformed into objected-oriented style to facilitate collaborative code development. During this period, the UCI team members presented 11 invited talks at major national and international conferences, published 22 papers in peer-reviewed journals and 10 papers in conference proceedings. The UCI hosted the annual SciDAC Workshop on Plasma Turbulence sponsored by the GPS Center, 2005-2007. The workshop was attended by about fifties US and foreign researchers and financially sponsored several gradual students from MIT, Princeton University, Germany, Switzerland, and Finland. A new SciDAC postdoc, Igor Holod, has arrived at UCI to initiate global particle simulation of magnetohydrodynamics turbulence driven by energetic particle modes. The PI, Z. Lin, has been promoted to the Associate Professor with tenure at UCI.

  7. The Log-Linear Return Approximation, Bubbles, and Predictability

    DEFF Research Database (Denmark)

    Engsted, Tom; Pedersen, Thomas Quistgaard; Tanggaard, Carsten

    2012-01-01

    We study in detail the log-linear return approximation introduced by Campbell and Shiller (1988a). First, we derive an upper bound for the mean approximation error, given stationarity of the log dividend-price ratio. Next, we simulate various rational bubbles which have explosive conditional expe...

  8. Local Physics Basis of Confinement Degradation in JET ELMy H-Mode Plasmas and Implications for Tokamak Reactors

    International Nuclear Information System (INIS)

    Budny, R.V.; Alper, B.; Borba, D.; Cordey, J.G.; Ernst, D.R.; Gowers, C.

    2001-01-01

    First results of gyrokinetic analysis of JET [Joint European Torus] ELMy [Edge Localized Modes] H-mode [high-confinement modes] plasmas are presented. ELMy H-mode plasmas form the basis of conservative performance predictions for tokamak reactors of the size of ITER [International Thermonuclear Experimental Reactor]. Relatively high performance for long duration has been achieved and the scaling appears to be favorable. It will be necessary to sustain low Z(subscript eff) and high density for high fusion yield. This paper studies the degradation in confinement and increase in the anomalous heat transport observed in two JET plasmas: one with an intense gas puff and the other with a spontaneous transition between Type I to III ELMs at the heating power threshold. Linear gyrokinetic analysis gives the growth rate, gamma(subscript lin) of the fastest growing modes. The flow-shearing rate omega(subscript ExB) and gamma(subscript lin) are large near the top of the pedestal. Their ratio decreases approximately when the confinement degrades and the transport increases. This suggests that tokamak reactors may require intense toroidal or poloidal torque input to maintain sufficiently high |gamma(subscript ExB)|/gamma(subscript lin) near the top of the pedestal for high confinement

  9. Fractional calculus phenomenology in two-dimensional plasma models

    Science.gov (United States)

    Gustafson, Kyle; Del Castillo Negrete, Diego; Dorland, Bill

    2006-10-01

    Transport processes in confined plasmas for fusion experiments, such as ITER, are not well-understood at the basic level of fully nonlinear, three-dimensional kinetic physics. Turbulent transport is invoked to describe the observed levels in tokamaks, which are orders of magnitude greater than the theoretical predictions. Recent results show the ability of a non-diffusive transport model to describe numerical observations of turbulent transport. For example, resistive MHD modeling of tracer particle transport in pressure-gradient driven turbulence for a three-dimensional plasma reveals that the superdiffusive (2̂˜t^α where α> 1) radial transport in this system is described quantitatively by a fractional diffusion equation Fractional calculus is a generalization involving integro-differential operators, which naturally describe non-local behaviors. Our previous work showed the quantitative agreement of special fractional diffusion equation solutions with numerical tracer particle flows in time-dependent linearized dynamics of the Hasegawa-Mima equation (for poloidal transport in a two-dimensional cold-ion plasma). In pursuit of a fractional diffusion model for transport in a gyrokinetic plasma, we now present numerical results from tracer particle transport in the nonlinear Hasegawa-Mima equation and a planar gyrokinetic model. Finite Larmor radius effects will be discussed. D. del Castillo Negrete, et al, Phys. Rev. Lett. 94, 065003 (2005).

  10. Deformation Prediction Using Linear Polynomial Functions ...

    African Journals Online (AJOL)

    By Deformation, we mean change of shape of any structure from its original shape and by monitoring over time using Geodetic means, the change in shape, size and the overall structural dynamics behaviors of structure can be detected. Prediction is therefor based on the epochs measurement obtained during monitoring, ...

  11. The toroidicity-induced Alfven eigenmode structure in DIII-D: Implications of soft x-ray and beam-ion loss data

    International Nuclear Information System (INIS)

    Carolipio, E. M.; Heidbrink, W. W.; Cheng, C. Z.; Chu, M. S.; Fu, G. Y.; Jaun, A.; Spong, D. A.; Turnbull, A. D.; White, R. B.

    2001-01-01

    The internal structure of the toroidicity-induced Alfven eigenmode (TAE) is studied by comparing soft x-ray profile and beam ion loss data taken during TAE activity in the DIII-D tokamak [W. W. Heidbrink , Nucl. Fusion 37, 1411 (1997)] with predictions from theories based on ideal magnetohydrodynamic (MHD), gyrofluid, and gyrokinetic models. The soft x-ray measurements indicate a centrally peaked eigenfunction, a feature which is closest to the gyrokinetic model's prediction. The beam ion losses are simulated using a guiding center code. In the simulations, the TAE eigenfunction calculated using the ideal MHD model acts as a perturbation to the equilibrium field. The predicted beam ion losses are an order of magnitude less than the observed ∼6%--8% losses at the peak experimental amplitude of {delta}B r /B 0 ≅2--5 x 10 -4

  12. FPGA/NIOS Implementation of an Adaptive FIR Filter Using Linear Prediction to Reduce Narrow-Band RFI for Radio Detection of Cosmic Rays

    NARCIS (Netherlands)

    Szadkowski, Zbigniew; Fraenkel, E. D.; van den Berg, Ad M.

    2013-01-01

    We present the FPGA/NIOS implementation of an adaptive finite impulse response (FIR) filter based on linear prediction to suppress radio frequency interference (RFI). This technique will be used for experiments that observe coherent radio emission from extensive air showers induced by

  13. Kinetic features of interchange turbulence

    International Nuclear Information System (INIS)

    Sarazin, Y; Grandgirard, V; Fleurence, E; Garbet, X; Ghendrih, Ph; Bertrand, P; Depret, G

    2005-01-01

    Non-linear gyrokinetic simulations of the interchange instability are discussed. The semi-Lagrangian numerical scheme allows one to address two critical points achieved with simulations lasting several confinement times: an accurate statistical analysis of the fluctuations and the back reaction of the turbulence on equilibrium profiles. Zonal flows are found to quench a 2D + 1D interchange turbulence when one of the species has a vanishing response to zonal modes. Conversely, when streamers dominate, the equilibrium profiles are found to be stiff. In the non-linear regime and steady-state turbulence, the distribution function exhibits a significant departure from a Maxwellian distribution. This property is characterized by an expansion on generalized Laguerre functions with a slow decay of the series of moments. This justifies the use of gyrokinetic simulations since a standard fluid approach, based on a limited number of moments, would certainly require a complex closure so as to take into account the impact of these non-vanishing high order moments

  14. Non-linear model predictive supervisory controller for building, air handling unit with recuperator and refrigeration system with heat waste recovery

    DEFF Research Database (Denmark)

    Minko, Tomasz; Wisniewski, Rafal; Bendtsen, Jan Dimon

    2016-01-01

    . The retrieved heat excess can be stored in the water tank. For this purpose the charging and the discharging water loops has been designed. We present the non-linear model of the above described system and a non-linear model predictive supervisory controller that according to the received price signal......, occupancy information and ambient temperature minimizes the operation cost of the whole system and distributes set points to local controllers of supermarkets subsystems. We find that when reliable information about the high price period is available, it is profitable to use the refrigeration system...... to generate heat during the low price period, store it and use it to substitute the conventional heater during the high price period....

  15. Comparison between linear quadratic and early time dose models

    International Nuclear Information System (INIS)

    Chougule, A.A.; Supe, S.J.

    1993-01-01

    During the 70s, much interest was focused on fractionation in radiotherapy with the aim of improving tumor control rate without producing unacceptable normal tissue damage. To compare the radiobiological effectiveness of various fractionation schedules, empirical formulae such as Nominal Standard Dose, Time Dose Factor, Cumulative Radiation Effect and Tumour Significant Dose, were introduced and were used despite many shortcomings. It has been claimed that a recent linear quadratic model is able to predict the radiobiological responses of tumours as well as normal tissues more accurately. We compared Time Dose Factor and Tumour Significant Dose models with the linear quadratic model for tumour regression in patients with carcinomas of the cervix. It was observed that the prediction of tumour regression estimated by the Tumour Significant Dose and Time Dose factor concepts varied by 1.6% from that of the linear quadratic model prediction. In view of the lack of knowledge of the precise values of the parameters of the linear quadratic model, it should be applied with caution. One can continue to use the Time Dose Factor concept which has been in use for more than a decade as its results are within ±2% as compared to that predicted by the linear quadratic model. (author). 11 refs., 3 figs., 4 tabs

  16. Linear Interaction Energy Based Prediction of Cytochrome P450 1A2 Binding Affinities with Reliability Estimation.

    Directory of Open Access Journals (Sweden)

    Luigi Capoferri

    Full Text Available Prediction of human Cytochrome P450 (CYP binding affinities of small ligands, i.e., substrates and inhibitors, represents an important task for predicting drug-drug interactions. A quantitative assessment of the ligand binding affinity towards different CYPs can provide an estimate of inhibitory activity or an indication of isoforms prone to interact with the substrate of inhibitors. However, the accuracy of global quantitative models for CYP substrate binding or inhibition based on traditional molecular descriptors can be limited, because of the lack of information on the structure and flexibility of the catalytic site of CYPs. Here we describe the application of a method that combines protein-ligand docking, Molecular Dynamics (MD simulations and Linear Interaction Energy (LIE theory, to allow for quantitative CYP affinity prediction. Using this combined approach, a LIE model for human CYP 1A2 was developed and evaluated, based on a structurally diverse dataset for which the estimated experimental uncertainty was 3.3 kJ mol-1. For the computed CYP 1A2 binding affinities, the model showed a root mean square error (RMSE of 4.1 kJ mol-1 and a standard error in prediction (SDEP in cross-validation of 4.3 kJ mol-1. A novel approach that includes information on both structural ligand description and protein-ligand interaction was developed for estimating the reliability of predictions, and was able to identify compounds from an external test set with a SDEP for the predicted affinities of 4.6 kJ mol-1 (corresponding to 0.8 pKi units.

  17. Learning a Nonnegative Sparse Graph for Linear Regression.

    Science.gov (United States)

    Fang, Xiaozhao; Xu, Yong; Li, Xuelong; Lai, Zhihui; Wong, Wai Keung

    2015-09-01

    Previous graph-based semisupervised learning (G-SSL) methods have the following drawbacks: 1) they usually predefine the graph structure and then use it to perform label prediction, which cannot guarantee an overall optimum and 2) they only focus on the label prediction or the graph structure construction but are not competent in handling new samples. To this end, a novel nonnegative sparse graph (NNSG) learning method was first proposed. Then, both the label prediction and projection learning were integrated into linear regression. Finally, the linear regression and graph structure learning were unified within the same framework to overcome these two drawbacks. Therefore, a novel method, named learning a NNSG for linear regression was presented, in which the linear regression and graph learning were simultaneously performed to guarantee an overall optimum. In the learning process, the label information can be accurately propagated via the graph structure so that the linear regression can learn a discriminative projection to better fit sample labels and accurately classify new samples. An effective algorithm was designed to solve the corresponding optimization problem with fast convergence. Furthermore, NNSG provides a unified perceptiveness for a number of graph-based learning methods and linear regression methods. The experimental results showed that NNSG can obtain very high classification accuracy and greatly outperforms conventional G-SSL methods, especially some conventional graph construction methods.

  18. Confirmation of linear system theory prediction: Rate of change of Herrnstein's κ as a function of response-force requirement

    Science.gov (United States)

    McDowell, J. J; Wood, Helena M.

    1985-01-01

    Four human subjects worked on all combinations of five variable-interval schedules and five reinforcer magnitudes (¢/reinforcer) in each of two phases of the experiment. In one phase the force requirement on the operandum was low (1 or 11 N) and in the other it was high (25 or 146 N). Estimates of Herrnstein's κ were obtained at each reinforcer magnitude. The results were: (1) response rate was more sensitive to changes in reinforcement rate at the high than at the low force requirement, (2) κ increased from the beginning to the end of the magnitude range for all subjects at both force requirements, (3) the reciprocal of κ was a linear function of the reciprocal of reinforcer magnitude for seven of the eight data sets, and (4) the rate of change of κ was greater at the high than at the low force requirement by an order of magnitude or more. The second and third findings confirm predictions made by linear system theory, and replicate the results of an earlier experiment (McDowell & Wood, 1984). The fourth finding confirms a further prediction of the theory and supports the theory's interpretation of conflicting data on the constancy of Herrnstein's κ. PMID:16812408

  19. Confirmation of linear system theory prediction: Rate of change of Herrnstein's kappa as a function of response-force requirement.

    Science.gov (United States)

    McDowell, J J; Wood, H M

    1985-01-01

    Four human subjects worked on all combinations of five variable-interval schedules and five reinforcer magnitudes ( cent/reinforcer) in each of two phases of the experiment. In one phase the force requirement on the operandum was low (1 or 11 N) and in the other it was high (25 or 146 N). Estimates of Herrnstein's kappa were obtained at each reinforcer magnitude. The results were: (1) response rate was more sensitive to changes in reinforcement rate at the high than at the low force requirement, (2) kappa increased from the beginning to the end of the magnitude range for all subjects at both force requirements, (3) the reciprocal of kappa was a linear function of the reciprocal of reinforcer magnitude for seven of the eight data sets, and (4) the rate of change of kappa was greater at the high than at the low force requirement by an order of magnitude or more. The second and third findings confirm predictions made by linear system theory, and replicate the results of an earlier experiment (McDowell & Wood, 1984). The fourth finding confirms a further prediction of the theory and supports the theory's interpretation of conflicting data on the constancy of Herrnstein's kappa.

  20. Estimating epidemic arrival times using linear spreading theory

    Science.gov (United States)

    Chen, Lawrence M.; Holzer, Matt; Shapiro, Anne

    2018-01-01

    We study the dynamics of a spatially structured model of worldwide epidemics and formulate predictions for arrival times of the disease at any city in the network. The model is composed of a system of ordinary differential equations describing a meta-population susceptible-infected-recovered compartmental model defined on a network where each node represents a city and the edges represent the flight paths connecting cities. Making use of the linear determinacy of the system, we consider spreading speeds and arrival times in the system linearized about the unstable disease free state and compare these to arrival times in the nonlinear system. Two predictions are presented. The first is based upon expansion of the heat kernel for the linearized system. The second assumes that the dominant transmission pathway between any two cities can be approximated by a one dimensional lattice or a homogeneous tree and gives a uniform prediction for arrival times independent of the specific network features. We test these predictions on a real network describing worldwide airline traffic.

  1. COMSAT: Residue contact prediction of transmembrane proteins based on support vector machines and mixed integer linear programming.

    Science.gov (United States)

    Zhang, Huiling; Huang, Qingsheng; Bei, Zhendong; Wei, Yanjie; Floudas, Christodoulos A

    2016-03-01

    In this article, we present COMSAT, a hybrid framework for residue contact prediction of transmembrane (TM) proteins, integrating a support vector machine (SVM) method and a mixed integer linear programming (MILP) method. COMSAT consists of two modules: COMSAT_SVM which is trained mainly on position-specific scoring matrix features, and COMSAT_MILP which is an ab initio method based on optimization models. Contacts predicted by the SVM model are ranked by SVM confidence scores, and a threshold is trained to improve the reliability of the predicted contacts. For TM proteins with no contacts above the threshold, COMSAT_MILP is used. The proposed hybrid contact prediction scheme was tested on two independent TM protein sets based on the contact definition of 14 Å between Cα-Cα atoms. First, using a rigorous leave-one-protein-out cross validation on the training set of 90 TM proteins, an accuracy of 66.8%, a coverage of 12.3%, a specificity of 99.3% and a Matthews' correlation coefficient (MCC) of 0.184 were obtained for residue pairs that are at least six amino acids apart. Second, when tested on a test set of 87 TM proteins, the proposed method showed a prediction accuracy of 64.5%, a coverage of 5.3%, a specificity of 99.4% and a MCC of 0.106. COMSAT shows satisfactory results when compared with 12 other state-of-the-art predictors, and is more robust in terms of prediction accuracy as the length and complexity of TM protein increase. COMSAT is freely accessible at http://hpcc.siat.ac.cn/COMSAT/. © 2016 Wiley Periodicals, Inc.

  2. Electron collisions in the trapped gyro-Landau fluid transport model

    International Nuclear Information System (INIS)

    Staebler, G. M.; Kinsey, J. E.

    2010-01-01

    Accurately modeling electron collisions in the trapped gyro-Landau fluid (TGLF) equations has been a major challenge. Insights gained from numerically solving the gyrokinetic equation have lead to a significant improvement of the low order TGLF model. The theoretical motivation and verification of this model with the velocity-space gyrokinetic code GYRO[J. Candy and R. E. Waltz, J. Comput. Phys. 186, 545 (2003)] will be presented. The improvement in the fidelity of TGLF to GYRO is shown to also lead to better prediction of experimental temperature profiles by TGLF for a dedicated collision frequency scan.

  3. Comparison of multiple linear regression, partial least squares and artificial neural networks for prediction of gas chromatographic relative retention times of trimethylsilylated anabolic androgenic steroids.

    Science.gov (United States)

    Fragkaki, A G; Farmaki, E; Thomaidis, N; Tsantili-Kakoulidou, A; Angelis, Y S; Koupparis, M; Georgakopoulos, C

    2012-09-21

    The comparison among different modelling techniques, such as multiple linear regression, partial least squares and artificial neural networks, has been performed in order to construct and evaluate models for prediction of gas chromatographic relative retention times of trimethylsilylated anabolic androgenic steroids. The performance of the quantitative structure-retention relationship study, using the multiple linear regression and partial least squares techniques, has been previously conducted. In the present study, artificial neural networks models were constructed and used for the prediction of relative retention times of anabolic androgenic steroids, while their efficiency is compared with that of the models derived from the multiple linear regression and partial least squares techniques. For overall ranking of the models, a novel procedure [Trends Anal. Chem. 29 (2010) 101-109] based on sum of ranking differences was applied, which permits the best model to be selected. The suggested models are considered useful for the estimation of relative retention times of designer steroids for which no analytical data are available. Copyright © 2012 Elsevier B.V. All rights reserved.

  4. Afrika Statistika ISSN 2316-090X Further properties of linear ...

    African Journals Online (AJOL)

    properties of linear prediction sufficiency and the BLUPs in the linear model with new observations. ...... a wide range of applications, for example, plant variety trials, animal breeding, selection ..... Linear Algebra Appl., 430, 2622–2641. DOI.

  5. Structure-Dependent Water-Induced Linear Reduction Model for Predicting Gas Diffusivity and Tortuosity in Repacked and Intact Soil

    DEFF Research Database (Denmark)

    Møldrup, Per; Chamindu, T. K. K. Deepagoda; Hamamoto, S.

    2013-01-01

    The soil-gas diffusion is a primary driver of transport, reactions, emissions, and uptake of vadose zone gases, including oxygen, greenhouse gases, fumigants, and spilled volatile organics. The soil-gas diffusion coefficient, Dp, depends not only on soil moisture content, texture, and compaction...... but also on the local-scale variability of these. Different predictive models have been developed to estimate Dp in intact and repacked soil, but clear guidelines for model choice at a given soil state are lacking. In this study, the water-induced linear reduction (WLR) model for repacked soil is made...... air) in repacked soils containing between 0 and 54% clay. With Cm = 2.1, the SWLR model on average gave excellent predictions for 290 intact soils, performing well across soil depths, textures, and compactions (dry bulk densities). The SWLR model generally outperformed similar, simple Dp/Do models...

  6. Waves and instabilities in plasmas

    International Nuclear Information System (INIS)

    Chen, L.

    1987-01-01

    The contents of this book are: Plasma as a Dielectric Medium; Nyquist Technique; Absolute and Convective Instabilities; Landau Damping and Phase Mixing; Particle Trapping and Breakdown of Linear Theory; Solution of Viasov Equation via Guilding-Center Transformation; Kinetic Theory of Magnetohydrodynamic Waves; Geometric Optics; Wave-Kinetic Equation; Cutoff and Resonance; Resonant Absorption; Mode Conversion; Gyrokinetic Equation; Drift Waves; Quasi-Linear Theory; Ponderomotive Force; Parametric Instabilities; Problem Sets for Homework, Midterm and Final Examinations

  7. The non-linear power spectrum of the Lyman alpha forest

    International Nuclear Information System (INIS)

    Arinyo-i-Prats, Andreu; Miralda-Escudé, Jordi; Viel, Matteo; Cen, Renyue

    2015-01-01

    The Lyman alpha forest power spectrum has been measured on large scales by the BOSS survey in SDSS-III at z∼ 2.3, has been shown to agree well with linear theory predictions, and has provided the first measurement of Baryon Acoustic Oscillations at this redshift. However, the power at small scales, affected by non-linearities, has not been well examined so far. We present results from a variety of hydrodynamic simulations to predict the redshift space non-linear power spectrum of the Lyα transmission for several models, testing the dependence on resolution and box size. A new fitting formula is introduced to facilitate the comparison of our simulation results with observations and other simulations. The non-linear power spectrum has a generic shape determined by a transition scale from linear to non-linear anisotropy, and a Jeans scale below which the power drops rapidly. In addition, we predict the two linear bias factors of the Lyα forest and provide a better physical interpretation of their values and redshift evolution. The dependence of these bias factors and the non-linear power on the amplitude and slope of the primordial fluctuations power spectrum, the temperature-density relation of the intergalactic medium, and the mean Lyα transmission, as well as the redshift evolution, is investigated and discussed in detail. A preliminary comparison to the observations shows that the predicted redshift distortion parameter is in good agreement with the recent determination of Blomqvist et al., but the density bias factor is lower than observed. We make all our results publicly available in the form of tables of the non-linear power spectrum that is directly obtained from all our simulations, and parameters of our fitting formula

  8. Predictions of toroidal rotation and torque sources arising in non-axisymmetric perturbed magnetic fields in tokamaks

    Science.gov (United States)

    Honda, M.; Satake, S.; Suzuki, Y.; Shinohara, K.; Yoshida, M.; Narita, E.; Nakata, M.; Aiba, N.; Shiraishi, J.; Hayashi, N.; Matsunaga, G.; Matsuyama, A.; Ide, S.

    2017-11-01

    Capabilities of the integrated framework consisting of TOPICS, OFMC, VMEC and FORTEC-3D, have been extended to calculate toroidal rotation in fully non-axisymmetric perturbed magnetic fields for demonstrating operation scenarios in actual tokamak geometry and conditions. The toroidally localized perturbed fields due to the test blanket modules and the tangential neutral beam ports in ITER augment the neoclassical toroidal viscosity (NTV) substantially, while do not significantly influence losses of beam ions and alpha particles in an ITER L-mode discharge. The NTV takes up a large portion of total torque in ITER and fairly decelerates toroidal rotation, but the change in toroidal rotation may have limited effectiveness against turbulent heat transport. The error field correction coils installed in JT-60SA can externally apply the perturbed fields, which may alter the NTV and the resultant toroidal rotation profiles. However, the non-resonant n=18 components of the magnetic fields arising from the toroidal field ripple mainly contribute to the NTV, regardless of the presence of the applied field by the coil current of 10 kA , where n is the toroidal mode number. The theoretical model of the intrinsic torque due to the fluctuation-induced residual stress is calibrated by the JT-60U data. For five JT-60U discharges, the sign of the calibration factor conformed to the gyrokinetic linear stability analysis and a range of the amplitude thereof was revealed. This semi-empirical approach opens up access to an attempt on predicting toroidal rotation in H-mode plasmas.

  9. A linear programming computational framework integrates phosphor-proteomics and prior knowledge to predict drug efficacy.

    Science.gov (United States)

    Ji, Zhiwei; Wang, Bing; Yan, Ke; Dong, Ligang; Meng, Guanmin; Shi, Lei

    2017-12-21

    In recent years, the integration of 'omics' technologies, high performance computation, and mathematical modeling of biological processes marks that the systems biology has started to fundamentally impact the way of approaching drug discovery. The LINCS public data warehouse provides detailed information about cell responses with various genetic and environmental stressors. It can be greatly helpful in developing new drugs and therapeutics, as well as improving the situations of lacking effective drugs, drug resistance and relapse in cancer therapies, etc. In this study, we developed a Ternary status based Integer Linear Programming (TILP) method to infer cell-specific signaling pathway network and predict compounds' treatment efficacy. The novelty of our study is that phosphor-proteomic data and prior knowledge are combined for modeling and optimizing the signaling network. To test the power of our approach, a generic pathway network was constructed for a human breast cancer cell line MCF7; and the TILP model was used to infer MCF7-specific pathways with a set of phosphor-proteomic data collected from ten representative small molecule chemical compounds (most of them were studied in breast cancer treatment). Cross-validation indicated that the MCF7-specific pathway network inferred by TILP were reliable predicting a compound's efficacy. Finally, we applied TILP to re-optimize the inferred cell-specific pathways and predict the outcomes of five small compounds (carmustine, doxorubicin, GW-8510, daunorubicin, and verapamil), which were rarely used in clinic for breast cancer. In the simulation, the proposed approach facilitates us to identify a compound's treatment efficacy qualitatively and quantitatively, and the cross validation analysis indicated good accuracy in predicting effects of five compounds. In summary, the TILP model is useful for discovering new drugs for clinic use, and also elucidating the potential mechanisms of a compound to targets.

  10. Temperature and sowing date affect the linear increase of sunflower harvest index

    International Nuclear Information System (INIS)

    Bange, M.P.; Hammer, G.L.; Rickert, K.G.

    1998-01-01

    The linearity of daily linear harvest index (HI) increase can provide a simple means to predict grain growth and yield in field crops. However, the stability of the rate of increase across genotypes and environments is uncertain. Data from three field experiments were collated to investigate the phase of linear HI increase of sunflower (Helianthus annuus L.) across environments by changing genotypes, sowing time, N level, and solar irradiation level. Linear increase in HI was similar among different genotypes, N levels, and radiation treatments (mean 0.0125 d-1), but significant differences occurred between sowings. The linear increase in HI was not stable at very low temperatures (down to 9 degrees C) during grain filling, due to possible limitations to biomass accumulation and translocation (mean 0.0091 d-1). Using the linear increase in HI to predict grain yield requires predictions of the duration from an thesis to the onset of linear HI increase (lag phase) and the cessation of linear HI increase. These studies showed that the lag phase differed, and the linear HI increase ceased when 91% of the anthesis to physiological maturity period had been completed

  11. Design and evaluation of antimalarial peptides derived from prediction of short linear motifs in proteins related to erythrocyte invasion.

    Directory of Open Access Journals (Sweden)

    Alessandra Bianchin

    Full Text Available The purpose of this study was to investigate the blood stage of the malaria causing parasite, Plasmodium falciparum, to predict potential protein interactions between the parasite merozoite and the host erythrocyte and design peptides that could interrupt these predicted interactions. We screened the P. falciparum and human proteomes for computationally predicted short linear motifs (SLiMs in cytoplasmic portions of transmembrane proteins that could play roles in the invasion of the erythrocyte by the merozoite, an essential step in malarial pathogenesis. We tested thirteen peptides predicted to contain SLiMs, twelve of them palmitoylated to enhance membrane targeting, and found three that blocked parasite growth in culture by inhibiting the initiation of new infections in erythrocytes. Scrambled peptides for two of the most promising peptides suggested that their activity may be reflective of amino acid properties, in particular, positive charge. However, one peptide showed effects which were stronger than those of scrambled peptides. This was derived from human red blood cell glycophorin-B. We concluded that proteome-wide computational screening of the intracellular regions of both host and pathogen adhesion proteins provides potential lead peptides for the development of anti-malarial compounds.

  12. Analysis of infant cry through weighted linear prediction cepstral coefficients and Probabilistic Neural Network.

    Science.gov (United States)

    Hariharan, M; Chee, Lim Sin; Yaacob, Sazali

    2012-06-01

    Acoustic analysis of infant cry signals has been proven to be an excellent tool in the area of automatic detection of pathological status of an infant. This paper investigates the application of parameter weighting for linear prediction cepstral coefficients (LPCCs) to provide the robust representation of infant cry signals. Three classes of infant cry signals were considered such as normal cry signals, cry signals from deaf babies and babies with asphyxia. A Probabilistic Neural Network (PNN) is suggested to classify the infant cry signals into normal and pathological cries. PNN is trained with different spread factor or smoothing parameter to obtain better classification accuracy. The experimental results demonstrate that the suggested features and classification algorithms give very promising classification accuracy of above 98% and it expounds that the suggested method can be used to help medical professionals for diagnosing pathological status of an infant from cry signals.

  13. pKa prediction for acidic phosphorus-containing compounds using multiple linear regression with computational descriptors.

    Science.gov (United States)

    Yu, Donghai; Du, Ruobing; Xiao, Ji-Chang

    2016-07-05

    Ninety-six acidic phosphorus-containing molecules with pKa 1.88 to 6.26 were collected and divided into training and test sets by random sampling. Structural parameters were obtained by density functional theory calculation of the molecules. The relationship between the experimental pKa values and structural parameters was obtained by multiple linear regression fitting for the training set, and tested with the test set; the R(2) values were 0.974 and 0.966 for the training and test sets, respectively. This regression equation, which quantitatively describes the influence of structural parameters on pKa , and can be used to predict pKa values of similar structures, is significant for the design of new acidic phosphorus-containing extractants. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

  14. Integrating genomics and proteomics data to predict drug effects using binary linear programming.

    Science.gov (United States)

    Ji, Zhiwei; Su, Jing; Liu, Chenglin; Wang, Hongyan; Huang, Deshuang; Zhou, Xiaobo

    2014-01-01

    The Library of Integrated Network-Based Cellular Signatures (LINCS) project aims to create a network-based understanding of biology by cataloging changes in gene expression and signal transduction that occur when cells are exposed to a variety of perturbations. It is helpful for understanding cell pathways and facilitating drug discovery. Here, we developed a novel approach to infer cell-specific pathways and identify a compound's effects using gene expression and phosphoproteomics data under treatments with different compounds. Gene expression data were employed to infer potential targets of compounds and create a generic pathway map. Binary linear programming (BLP) was then developed to optimize the generic pathway topology based on the mid-stage signaling response of phosphorylation. To demonstrate effectiveness of this approach, we built a generic pathway map for the MCF7 breast cancer cell line and inferred the cell-specific pathways by BLP. The first group of 11 compounds was utilized to optimize the generic pathways, and then 4 compounds were used to identify effects based on the inferred cell-specific pathways. Cross-validation indicated that the cell-specific pathways reliably predicted a compound's effects. Finally, we applied BLP to re-optimize the cell-specific pathways to predict the effects of 4 compounds (trichostatin A, MS-275, staurosporine, and digoxigenin) according to compound-induced topological alterations. Trichostatin A and MS-275 (both HDAC inhibitors) inhibited the downstream pathway of HDAC1 and caused cell growth arrest via activation of p53 and p21; the effects of digoxigenin were totally opposite. Staurosporine blocked the cell cycle via p53 and p21, but also promoted cell growth via activated HDAC1 and its downstream pathway. Our approach was also applied to the PC3 prostate cancer cell line, and the cross-validation analysis showed very good accuracy in predicting effects of 4 compounds. In summary, our computational model can be

  15. Linear regressive model structures for estimation and prediction of compartmental diffusive systems

    NARCIS (Netherlands)

    Vries, D; Keesman, K.J.; Zwart, Heiko J.

    In input-output relations of (compartmental) diffusive systems, physical parameters appear non-linearly, resulting in the use of (constrained) non-linear parameter estimation techniques with its short-comings regarding global optimality and computational effort. Given a LTI system in state space

  16. Linear regressive model structures for estimation and prediction of compartmental diffusive systems

    NARCIS (Netherlands)

    Vries, D.; Keesman, K.J.; Zwart, H.

    2006-01-01

    Abstract In input-output relations of (compartmental) diffusive systems, physical parameters appear non-linearly, resulting in the use of (constrained) non-linear parameter estimation techniques with its short-comings regarding global optimality and computational effort. Given a LTI system in state

  17. A Reduced Dantzig-Wolfe Decomposition for a Suboptimal Linear MPC

    DEFF Research Database (Denmark)

    Standardi, Laura; Poulsen, Niels Kjølstad; Jørgensen, John Bagterp

    2014-01-01

    Linear Model Predictive Control (MPC) is an efficient control technique that repeatedly solves online constrained linear programs. In this work we propose an economic linear MPC strategy for operation of energy systems consisting of multiple and independent power units. These systems cooperate...

  18. Predicting stem borer density in maize using RapidEye data and generalized linear models

    Science.gov (United States)

    Abdel-Rahman, Elfatih M.; Landmann, Tobias; Kyalo, Richard; Ong'amo, George; Mwalusepo, Sizah; Sulieman, Saad; Ru, Bruno Le

    2017-05-01

    Average maize yield in eastern Africa is 2.03 t ha-1 as compared to global average of 6.06 t ha-1 due to biotic and abiotic constraints. Amongst the biotic production constraints in Africa, stem borers are the most injurious. In eastern Africa, maize yield losses due to stem borers are currently estimated between 12% and 21% of the total production. The objective of the present study was to explore the possibility of RapidEye spectral data to assess stem borer larva densities in maize fields in two study sites in Kenya. RapidEye images were acquired for the Bomet (western Kenya) test site on the 9th of December 2014 and on 27th of January 2015, and for Machakos (eastern Kenya) a RapidEye image was acquired on the 3rd of January 2015. Five RapidEye spectral bands as well as 30 spectral vegetation indices (SVIs) were utilized to predict per field maize stem borer larva densities using generalized linear models (GLMs), assuming Poisson ('Po') and negative binomial ('NB') distributions. Root mean square error (RMSE) and ratio prediction to deviation (RPD) statistics were used to assess the models performance using a leave-one-out cross-validation approach. The Zero-inflated NB ('ZINB') models outperformed the 'NB' models and stem borer larva densities could only be predicted during the mid growing season in December and early January in both study sites, respectively (RMSE = 0.69-1.06 and RPD = 8.25-19.57). Overall, all models performed similar when all the 30 SVIs (non-nested) and only the significant (nested) SVIs were used. The models developed could improve decision making regarding controlling maize stem borers within integrated pest management (IPM) interventions.

  19. Wheel slip control with torque blending using linear and nonlinear model predictive control

    Science.gov (United States)

    Basrah, M. Sofian; Siampis, Efstathios; Velenis, Efstathios; Cao, Dongpu; Longo, Stefano

    2017-11-01

    Modern hybrid electric vehicles employ electric braking to recuperate energy during deceleration. However, currently anti-lock braking system (ABS) functionality is delivered solely by friction brakes. Hence regenerative braking is typically deactivated at a low deceleration threshold in case high slip develops at the wheels and ABS activation is required. If blending of friction and electric braking can be achieved during ABS events, there would be no need to impose conservative thresholds for deactivation of regenerative braking and the recuperation capacity of the vehicle would increase significantly. In addition, electric actuators are typically significantly faster responding and would deliver better control of wheel slip than friction brakes. In this work we present a control strategy for ABS on a fully electric vehicle with each wheel independently driven by an electric machine and friction brake independently applied at each wheel. In particular we develop linear and nonlinear model predictive control strategies for optimal performance and enforcement of critical control and state constraints. The capability for real-time implementation of these controllers is assessed and their performance is validated in high fidelity simulation.

  20. Visuo-manual tracking: does intermittent control with aperiodic sampling explain linear power and non-linear remnant without sensorimotor noise?

    Science.gov (United States)

    Gollee, Henrik; Gawthrop, Peter J; Lakie, Martin; Loram, Ian D

    2017-11-01

    A human controlling an external system is described most easily and conventionally as linearly and continuously translating sensory input to motor output, with the inevitable output remnant, non-linearly related to the input, attributed to sensorimotor noise. Recent experiments show sustained manual tracking involves repeated refractoriness (insensitivity to sensory information for a certain duration), with the temporary 200-500 ms periods of irresponsiveness to sensory input making the control process intrinsically non-linear. This evidence calls for re-examination of the extent to which random sensorimotor noise is required to explain the non-linear remnant. This investigation of manual tracking shows how the full motor output (linear component and remnant) can be explained mechanistically by aperiodic sampling triggered by prediction error thresholds. Whereas broadband physiological noise is general to all processes, aperiodic sampling is associated with sensorimotor decision making within specific frontal, striatal and parietal networks; we conclude that manual tracking utilises such slow serial decision making pathways up to several times per second. The human operator is described adequately by linear translation of sensory input to motor output. Motor output also always includes a non-linear remnant resulting from random sensorimotor noise from multiple sources, and non-linear input transformations, for example thresholds or refractory periods. Recent evidence showed that manual tracking incurs substantial, serial, refractoriness (insensitivity to sensory information of 350 and 550 ms for 1st and 2nd order systems respectively). Our two questions are: (i) What are the comparative merits of explaining the non-linear remnant using noise or non-linear transformations? (ii) Can non-linear transformations represent serial motor decision making within the sensorimotor feedback loop intrinsic to tracking? Twelve participants (instructed to act in three prescribed

  1. Optimization of piezoelectric cantilever energy harvesters including non-linear effects

    International Nuclear Information System (INIS)

    Patel, R; McWilliam, S; Popov, A A

    2014-01-01

    This paper proposes a versatile non-linear model for predicting piezoelectric energy harvester performance. The presented model includes (i) material non-linearity, for both substrate and piezoelectric layers, and (ii) geometric non-linearity incorporated by assuming inextensibility and accurately representing beam curvature. The addition of a sub-model, which utilizes the transfer matrix method to predict eigenfrequencies and eigenvectors for segmented beams, allows for accurate optimization of piezoelectric layer coverage. A validation of the overall theoretical model is performed through experimental testing on both uniform and non-uniform samples manufactured in-house. For the harvester composition used in this work, the magnitude of material non-linearity exhibited by the piezoelectric layer is 35 times greater than that of the substrate layer. It is also observed that material non-linearity, responsible for reductions in resonant frequency with increases in base acceleration, is dominant over geometric non-linearity for standard piezoelectric harvesting devices. Finally, over the tested range, energy loss due to damping is found to increase in a quasi-linear fashion with base acceleration. During an optimization study on piezoelectric layer coverage, results from the developed model were compared with those from a linear model. Unbiased comparisons between harvesters were realized by using devices with identical natural frequencies—created by adjusting the device substrate thickness. Results from three studies, each with a different assumption on mechanical damping variations, are presented. Findings showed that, depending on damping variation, a non-linear model is essential for such optimization studies with each model predicting vastly differing optimum configurations. (paper)

  2. Real-time axial motion detection and correction for single photon emission computed tomography using a linear prediction filter

    International Nuclear Information System (INIS)

    Saba, V.; Setayeshi, S.; Ghannadi-Maragheh, M.

    2011-01-01

    We have developed an algorithm for real-time detection and complete correction of the patient motion effects during single photon emission computed tomography. The algorithm is based on a linear prediction filter (LPC). The new prediction of projection data algorithm (PPDA) detects most motions-such as those of the head, legs, and hands-using comparison of the predicted and measured frame data. When the data acquisition for a specific frame is completed, the accuracy of the acquired data is evaluated by the PPDA. If patient motion is detected, the scanning procedure is stopped. After the patient rests in his or her true position, data acquisition is repeated only for the corrupted frame and the scanning procedure is continued. Various experimental data were used to validate the motion detection algorithm; on the whole, the proposed method was tested with approximately 100 test cases. The PPDA shows promising results. Using the PPDA enables us to prevent the scanner from collecting disturbed data during the scan and replaces them with motion-free data by real-time rescanning for the corrupted frames. As a result, the effects of patient motion is corrected in real time. (author)

  3. Internal transport barriers in the National Spherical Torus Experimenta)

    Science.gov (United States)

    Yuh, H. Y.; Levinton, F. M.; Bell, R. E.; Hosea, J. C.; Kaye, S. M.; LeBlanc, B. P.; Mazzucato, E.; Peterson, J. L.; Smith, D. R.; Candy, J.; Waltz, R. E.; Domier, C. W.; Luhmann, N. C.; Lee, W.; Park, H. K.

    2009-05-01

    In the National Spherical Torus Experiment [M. Ono et al., Nucl. Fusion 41, 1435 (2001)], internal transport barriers (ITBs) are observed in reversed (negative) shear discharges where diffusivities for electron and ion thermal channels and momentum are reduced. While neutral beam heating can produce ITBs in both electron and ion channels, high harmonic fast wave heating can also produce electron ITBs (e-ITBs) under reversed magnetic shear conditions without momentum input. Interestingly, the location of the e-ITB does not necessarily match that of the ion ITB (i-ITB). The e-ITB location correlates best with the magnetic shear minima location determined by motional Stark effect constrained equilibria, whereas the i-ITB location better correlates with the location of maximum E ×B shearing rate. Measured electron temperature gradients in the e-ITB can exceed critical gradients for the onset of electron thermal gradient microinstabilities calculated by linear gyrokinetic codes. A high-k microwave scattering diagnostic shows locally reduced density fluctuations at wave numbers characteristic of electron turbulence for discharges with strongly negative magnetic shear versus weakly negative or positive magnetic shear. Reductions in fluctuation amplitude are found to be correlated with the local value of magnetic shear. These results are consistent with nonlinear gyrokinetic simulations predicting a reduction in electron turbulence under negative magnetic shear conditions despite exceeding critical gradients.

  4. Thermal ions dilution and ITG suppression in ASDEX Upgrade ion ITBs

    International Nuclear Information System (INIS)

    Tardini, G.; Hobirk, J.; Igochine, V.G.; Maggi, C.F.; Martin, P.; McCune, D.; Peeters, A.G.; Sips, A.C.C.; Staebler, A.; Stober, J.

    2007-01-01

    Internal transport barriers (ITBs) in the ion channel in the tokamak ASDEX Upgrade allow for high energy confinement but collapse after only several energy confinement times. In this paper we show that in most cases the ITB phase is terminated clearly before the first ELM burst, thereby ruling out the ELMs as the main trigger of the ITB collapse. For the first time, the ITB formation and sustainment are found to be associated with a mechanism of transport suppression based on thermal ions dilution by the injected fast ions. Interestingly, such ITBs do not require reversed magnetic shear. The linear growth rate of the ion temperature gradient driven mode is computed as a function of the fast ion fraction with gyrokinetic stability analysis. Monte Carlo simulations predict the fast ion population to be above the gyrokinetic critical fraction in a region consistent with the experimental ITB width. The density threshold documented for the onset of ASDEX Upgrade ion ITBs is explained. The role of T i /T e and of the plasma sheared rotation for ITB sustainment are analysed. The stabilization mechanism presented here is consistent with the observed ITB lifetime of the order of the beam slowing down time. A possible runaway mechanism leading to ITB collapse is described. Finally, the relevance of this particular ITB scheme for ITER is discussed

  5. Zonal flow dynamics and control of turbulent transport in stellarators.

    Science.gov (United States)

    Xanthopoulos, P; Mischchenko, A; Helander, P; Sugama, H; Watanabe, T-H

    2011-12-09

    The relation between magnetic geometry and the level of ion-temperature-gradient (ITG) driven turbulence in stellarators is explored through gyrokinetic theory and direct linear and nonlinear simulations. It is found that the ITG radial heat flux is sensitive to details of the magnetic configuration that can be understood in terms of the linear behavior of zonal flows. The results throw light on the question of how the optimization of neoclassical confinement is related to the reduction of turbulence.

  6. Nonlinear Simulations of Trapped Electron Mode Turbulence in Low Magnetic Shear Stellarators

    Science.gov (United States)

    Faber, B. J.; Pueschel, M. J.; Terry, P. W.; Hegna, C. C.

    2017-10-01

    Optimized stellarators, like the Helically Symmetric eXperiment (HSX), often operate with small global magnetic shear to avoid low-order rational surfaces and magnetic islands. Nonlinear, flux-tube gyrokinetic simulations of density-gradient-driven Trapped Electron Mode (TEM) turbulence in HSX shows two distinct spectral fluctuation regions: long-wavelength slab-like TEMs localized by global magnetic shear that extend along field lines and short-wavelength TEMs localized by local magnetic shear to a single helical bad curvature region. The slab-like TEMs require computational domains significantly larger than one poloidal turn and are computationally expensive, making turbulent optimization studies challenging. A computationally more efficient, zero-average-magnetic-shear approximation is shown to sufficiently describe the relevant nonlinear physics and replicate finite-shear computations, and can be exploited in quasilinear models based on linear gyrokinetics as a feasible optimization tool. TEM quasilinear heat fluxes are computed with the zero-shear approximation and compared to experimentally-relevant nonlinear gyrokinetic TEM heat fluxes for HSX. Research supported by U.S. DoE Grants DE-FG02-99ER54546, DE-FG02-93ER54222 and DE-FG02-89ER53291.

  7. Prediction of Depression in Cancer Patients With Different Classification Criteria, Linear Discriminant Analysis versus Logistic Regression.

    Science.gov (United States)

    Shayan, Zahra; Mohammad Gholi Mezerji, Naser; Shayan, Leila; Naseri, Parisa

    2015-11-03

    Logistic regression (LR) and linear discriminant analysis (LDA) are two popular statistical models for prediction of group membership. Although they are very similar, the LDA makes more assumptions about the data. When categorical and continuous variables used simultaneously, the optimal choice between the two models is questionable. In most studies, classification error (CE) is used to discriminate between subjects in several groups, but this index is not suitable to predict the accuracy of the outcome. The present study compared LR and LDA models using classification indices. This cross-sectional study selected 243 cancer patients. Sample sets of different sizes (n = 50, 100, 150, 200, 220) were randomly selected and the CE, B, and Q classification indices were calculated by the LR and LDA models. CE revealed the a lack of superiority for one model over the other, but the results showed that LR performed better than LDA for the B and Q indices in all situations. No significant effect for sample size on CE was noted for selection of an optimal model. Assessment of the accuracy of prediction of real data indicated that the B and Q indices are appropriate for selection of an optimal model. The results of this study showed that LR performs better in some cases and LDA in others when based on CE. The CE index is not appropriate for classification, although the B and Q indices performed better and offered more efficient criteria for comparison and discrimination between groups.

  8. On the relevance of the micromechanics approach for predicting the linear viscoelastic behavior of semi-crystalline poly(ethylene)terephtalates (PET)

    International Nuclear Information System (INIS)

    Diani, J.; Bedoui, F.; Regnier, G.

    2008-01-01

    The relevance of micromechanics modeling to the linear viscoelastic behavior of semi-crystalline polymers is studied. For this purpose, the linear viscoelastic behaviors of amorphous and semi-crystalline PETs are characterized. Then, two micromechanics modeling methods, which have been proven in a previous work to apply to the PET elastic behavior, are used to predict the viscoelastic behavior of three semi-crystalline PETs. The microstructures of the crystalline PETs are clearly defined using WAXS techniques. Since microstructures and mechanical properties of both constitutive phases (the crystalline and the amorphous) are defined, the simulations are run without adjustable parameters. Results show that the models are unable to reproduce the substantial decrease of viscosity induced by the increase of crystallinity. Unlike the real materials, for moderate crystallinity, both models show materials of viscosity nearly identical to the amorphous material

  9. Efficient Implementation of Solvers for Linear Model Predictive Control on Embedded Devices

    DEFF Research Database (Denmark)

    Frison, Gianluca; Kwame Minde Kufoalor, D.; Imsland, Lars

    2014-01-01

    This paper proposes a novel approach for the efficient implementation of solvers for linear MPC on embedded devices. The main focus is to explain in detail the approach used to optimize the linear algebra for selected low-power embedded devices, and to show how the high-performance implementation...

  10. Linear-quadratic model predictions for tumor control probability

    International Nuclear Information System (INIS)

    Yaes, R.J.

    1987-01-01

    Sigmoid dose-response curves for tumor control are calculated from the linear-quadratic model parameters α and Β, obtained from human epidermoid carcinoma cell lines, and are much steeper than the clinical dose-response curves for head and neck cancers. One possible explanation is the presence of small radiation-resistant clones arising from mutations in an initially homogeneous tumor. Using the mutation theory of Delbruck and Luria and of Goldie and Coldman, the authors discuss the implications of such radiation-resistant clones for clinical radiation therapy

  11. A comparative in silico linear B-cell epitope prediction and characterization for South American and African Trypanosoma vivax strains.

    Science.gov (United States)

    Guedes, Rafael Lucas Muniz; Rodrigues, Carla Monadeli Filgueira; Coatnoan, Nicolas; Cosson, Alain; Cadioli, Fabiano Antonio; Garcia, Herakles Antonio; Gerber, Alexandra Lehmkuhl; Machado, Rosangela Zacarias; Minoprio, Paola Marcella Camargo; Teixeira, Marta Maria Geraldes; de Vasconcelos, Ana Tereza Ribeiro

    2018-02-27

    Trypanosoma vivax is a parasite widespread across Africa and South America. Immunological methods using recombinant antigens have been developed aiming at specific and sensitive detection of infections caused by T. vivax. Here, we sequenced for the first time the transcriptome of a virulent T. vivax strain (Lins), isolated from an outbreak of severe disease in South America (Brazil) and performed a computational integrated analysis of genome, transcriptome and in silico predictions to identify and characterize putative linear B-cell epitopes from African and South American T. vivax. A total of 2278, 3936 and 4062 linear B-cell epitopes were respectively characterized for the transcriptomes of T. vivax LIEM-176 (Venezuela), T. vivax IL1392 (Nigeria) and T. vivax Lins (Brazil) and 4684 for the genome of T. vivax Y486 (Nigeria). The results presented are a valuable theoretical source that may pave the way for highly sensitive and specific diagnostic tools. Copyright © 2018 The Authors. Published by Elsevier Inc. All rights reserved.

  12. Seismic evaluation of a large nuclear pump bearing using non-linear dynamic analysis

    International Nuclear Information System (INIS)

    Huber, K.A.; Hugins, M.S.

    1983-01-01

    Hydrostatic bearings of a large vertical pump using sodium as the lubricant were critically examined to determine their ability to withstand seismic loads. Initial linear dynamics analyses predicted journal displacements to exceed bearing clearance by a ratio of 3:1. Equivalent time-history excitations were then developed from the response spectra to determine the number, magnitude, and duration of the bearing impact loads. Predicted loads were further reduced by 50% by modeling non-linear bearing characteristics normally present but not generally included in conventional linear analyses. Results are presented of the comprehensive design evaluation performed, based on these non-linear predictions, that assess stress, wear, and fatigue to demonstrate hydrostatic bearing integrity

  13. Stuck pipe prediction

    KAUST Repository

    Alzahrani, Majed; Alsolami, Fawaz; Chikalov, Igor; Algharbi, Salem; Aboudi, Faisal; Khudiri, Musab

    2016-01-01

    Disclosed are various embodiments for a prediction application to predict a stuck pipe. A linear regression model is generated from hook load readings at corresponding bit depths. A current hook load reading at a current bit depth is compared with a normal hook load reading from the linear regression model. A current hook load greater than a normal hook load for a given bit depth indicates the likelihood of a stuck pipe.

  14. Stuck pipe prediction

    KAUST Repository

    Alzahrani, Majed

    2016-03-10

    Disclosed are various embodiments for a prediction application to predict a stuck pipe. A linear regression model is generated from hook load readings at corresponding bit depths. A current hook load reading at a current bit depth is compared with a normal hook load reading from the linear regression model. A current hook load greater than a normal hook load for a given bit depth indicates the likelihood of a stuck pipe.

  15. Predicting heat stress index in Sasso hens using automatic linear modeling and artificial neural network

    Science.gov (United States)

    Yakubu, A.; Oluremi, O. I. A.; Ekpo, E. I.

    2018-03-01

    There is an increasing use of robust analytical algorithms in the prediction of heat stress. The present investigation therefore, was carried out to forecast heat stress index (HSI) in Sasso laying hens. One hundred and sixty seven records on the thermo-physiological parameters of the birds were utilized. They were reared on deep litter and battery cage systems. Data were collected when the birds were 42- and 52-week of age. The independent variables fitted were housing system, age of birds, rectal temperature (RT), pulse rate (PR), and respiratory rate (RR). The response variable was HSI. Data were analyzed using automatic linear modeling (ALM) and artificial neural network (ANN) procedures. The ALM model building method involved Forward Stepwise using the F Statistic criterion. As regards ANN, multilayer perceptron (MLP) with back-propagation network was used. The ANN network was trained with 90% of the data set while 10% were dedicated to testing for model validation. RR and PR were the two parameters of utmost importance in the prediction of HSI. However, the fractional importance of RR was higher than that of PR in both ALM (0.947 versus 0.053) and ANN (0.677 versus 0.274) models. The two models also predicted HSI effectively with high degree of accuracy [r = 0.980, R 2 = 0.961, adjusted R 2 = 0.961, and RMSE = 0.05168 (ALM); r = 0.983, R 2 = 0.966; adjusted R 2 = 0.966, and RMSE = 0.04806 (ANN)]. The present information may be exploited in the development of a heat stress chart based largely on RR. This may aid detection of thermal discomfort in a poultry house under tropical and subtropical conditions.

  16. A Study of Electron Modes in Off-axis Heated Alcator C-Mod Plasmas

    Science.gov (United States)

    Fiore, C. L.; Ernst, D. R.; Mikkelsen, D.; Ennever, P. C.; Howard, N. T.; Gao, C.; Reinke, M. L.; Rice, J. E.; Hughes, J. W.; Walk, J. R.

    2013-10-01

    Understanding the underlying physics and stability of the peaked density internal transport barriers (ITB) that have been observed during off-axis ICRF heating of Alcator C-Mod plasmas is the goal of recent gyro-kinetic simulations. Two scenarios are examined: an ITB plasma formed with maximal (4.5 MW) off-axis heating power; also the use of off-axis heating in an I-mode plasma as a target in the hopes of establishing an ITB. In the former, it is expected that evidence of trapped electron mode instabilities could be found if a sufficiently high electron temperature is achieved in the core. Linear simulations show unstable modes are present across the plasma core from r/a = 0.2 and greater. In the latter case, despite establishing similar conditions to those in which ITBS were formed, none developed in the I-mode plasmas. Linear gyrokinetic analyses show no unstable ion modes at r/a < 0.55 in these I-mode plasmas, with both ITG and ETG modes present beyond r/a = 0.65. The details of the experimental results will be presented. Linear and non-linear simulations of both of these cases will attempt to explore the underlying role of electron and ion gradient driven instabilities to explain the observations. This work was supported by US-DoE DE-FC02-99ER54512 and DE-AC02-09CH11466.

  17. Real-time prediction of extreme ambient carbon monoxide concentrations due to vehicular exhaust emissions using univariate linear stochastic models

    International Nuclear Information System (INIS)

    Sharma, P.; Khare, M.

    2000-01-01

    Historical data of the time-series of carbon monoxide (CO) concentration was analysed using Box-Jenkins modelling approach. Univariate Linear Stochastic Models (ULSMs) were developed to examine the degree of prediction possible for situations where only a limited data set, restricted only to the past record of pollutant data are available. The developed models can be used to provide short-term, real-time forecast of extreme CO concentrations for an Air Quality Control Region (AQCR), comprising a major traffic intersection in a Central Business District of Delhi City, India. (author)

  18. Increased understanding of the dynamics and transport in ITB plasmas from multi-machine comparisons

    International Nuclear Information System (INIS)

    Gohil, P.; Kinsey, J.; Parail, V.

    2003-01-01

    Our understanding of the physics of internal transport barriers (ITBs) is being furthered by analysis and comparisons of experimental data from many different tokamaks worldwide. An international database consisting of scalar and 2-D profile data on ITB plasmas is being developed to determine the requirements for the formation and sustainment of ITBs and to perform tests of theory-based transport models in an effort to improve the predictive capability of the models. Tests of several transport models (JETTO, Weiland model) using the 2-D profile data indicate that there is only limited agreement between the model predictions and the experimental results for the range of plasma conditions examined for the different devices (DIII-D, JET, JT-60U). Gyrokinetic stability analysis of the ITB discharges from these devices indicates that the ITG/TEM growth rates decrease with increased negative magnetic shear and that the ExB shear rate is comparable to the linear growth rates at the location of the ITB. (author)

  19. A comparative study between the use of artificial neural networks and multiple linear regression for caustic concentration prediction in a stage of alumina production

    Directory of Open Access Journals (Sweden)

    Giovanni Leopoldo Rozza

    2015-09-01

    Full Text Available With world becoming each day a global village, enterprises continuously seek to optimize their internal processes to hold or improve their competitiveness and make better use of natural resources. In this context, decision support tools are an underlying requirement. Such tools are helpful on predicting operational issues, avoiding cost risings, loss of productivity, work-related accident leaves or environmental disasters. This paper has its focus on the prediction of spent liquor caustic concentration of Bayer process for alumina production. Caustic concentration measuring is essential to keep it at expected levels, otherwise quality issues might arise. The organization requests caustic concentration by chemical analysis laboratory once a day, such information is not enough to issue preventive actions to handle process inefficiencies that will be known only after new measurement on the next day. Thereby, this paper proposes using Multiple Linear Regression and Artificial Neural Networks techniques a mathematical model to predict the spent liquor´s caustic concentration. Hence preventive actions will occur in real time. Such models were built using software tool for numerical computation (MATLAB and a statistical analysis software package (SPSS. The models output (predicted caustic concentration were compared with the real lab data. We found evidence suggesting superior results with use of Artificial Neural Networks over Multiple Linear Regression model. The results demonstrate that replacing laboratorial analysis by the forecasting model to support technical staff on decision making could be feasible.

  20. Numerical Methods for Solution of the Extended Linear Quadratic Control Problem

    DEFF Research Database (Denmark)

    Jørgensen, John Bagterp; Frison, Gianluca; Gade-Nielsen, Nicolai Fog

    2012-01-01

    In this paper we present the extended linear quadratic control problem, its efficient solution, and a discussion of how it arises in the numerical solution of nonlinear model predictive control problems. The extended linear quadratic control problem is the optimal control problem corresponding...... to the Karush-Kuhn-Tucker system that constitute the majority of computational work in constrained nonlinear and linear model predictive control problems solved by efficient MPC-tailored interior-point and active-set algorithms. We state various methods of solving the extended linear quadratic control problem...... and discuss instances in which it arises. The methods discussed in the paper have been implemented in efficient C code for both CPUs and GPUs for a number of test examples....

  1. Linear stability analysis in a solid-propellant rocket motor

    Energy Technology Data Exchange (ETDEWEB)

    Kim, K.M.; Kang, K.T.; Yoon, J.K. [Agency for Defense Development, Taejon (Korea, Republic of)

    1995-10-01

    Combustion instability in solid-propellant rocket motors depends on the balance between acoustic energy gains and losses of the system. The objective of this paper is to demonstrate the capability of the program which predicts the standard longitudinal stability using acoustic modes based on linear stability analysis and T-burner test results of propellants. Commercial ANSYS 5.0A program can be used to calculate the acoustic characteristic of a rocket motor. The linear stability prediction was compared with the static firing test results of rocket motors. (author). 11 refs., 17 figs.

  2. Robust Comparison of the Linear Model Structures in Self-tuning Adaptive Control

    DEFF Research Database (Denmark)

    Zhou, Jianjun; Conrad, Finn

    1989-01-01

    The Generalized Predictive Controller (GPC) is extended to the systems with a generalized linear model structure which contains a number of choices of linear model structures. The Recursive Prediction Error Method (RPEM) is used to estimate the unknown parameters of the linear model structures...... to constitute a GPC self-tuner. Different linear model structures commonly used are compared and evaluated by applying them to the extended GPC self-tuner as well as to the special cases of the GPC, the GMV and MV self-tuners. The simulation results show how the choice of model structure affects the input......-output behaviour of self-tuning controllers....

  3. Time series prediction: statistical and neural techniques

    Science.gov (United States)

    Zahirniak, Daniel R.; DeSimio, Martin P.

    1996-03-01

    In this paper we compare the performance of nonlinear neural network techniques to those of linear filtering techniques in the prediction of time series. Specifically, we compare the results of using the nonlinear systems, known as multilayer perceptron and radial basis function neural networks, with the results obtained using the conventional linear Wiener filter, Kalman filter and Widrow-Hoff adaptive filter in predicting future values of stationary and non- stationary time series. Our results indicate the performance of each type of system is heavily dependent upon the form of the time series being predicted and the size of the system used. In particular, the linear filters perform adequately for linear or near linear processes while the nonlinear systems perform better for nonlinear processes. Since the linear systems take much less time to be developed, they should be tried prior to using the nonlinear systems when the linearity properties of the time series process are unknown.

  4. Evaluating prediction uncertainty

    International Nuclear Information System (INIS)

    McKay, M.D.

    1995-03-01

    The probability distribution of a model prediction is presented as a proper basis for evaluating the uncertainty in a model prediction that arises from uncertainty in input values. Determination of important model inputs and subsets of inputs is made through comparison of the prediction distribution with conditional prediction probability distributions. Replicated Latin hypercube sampling and variance ratios are used in estimation of the distributions and in construction of importance indicators. The assumption of a linear relation between model output and inputs is not necessary for the indicators to be effective. A sequential methodology which includes an independent validation step is applied in two analysis applications to select subsets of input variables which are the dominant causes of uncertainty in the model predictions. Comparison with results from methods which assume linearity shows how those methods may fail. Finally, suggestions for treating structural uncertainty for submodels are presented

  5. Microturbulence and Flow Shear in High-performance JET ITB Plasma; TOPICAL

    International Nuclear Information System (INIS)

    R.V. Budny; A. Andre; A. Bicoulet; C. Challis; G.D. Conway; W. Dorland; D.R. Ernst; T.S. Hahm; T.C. Hender; D. McCune; G. Rewoldt; S.E. Sharapov

    2001-01-01

    The transport, flow shear, and linear growth rates of microturbulence are studied for a Joint European Torus (JET) plasma with high central q in which an internal transport barrier (ITB) forms and grows to a large radius. The linear microturbulence growth rates of the fastest growing (most unstable) toroidal modes with high toroidal mode number are calculated using the GS2 and FULL gyrokinetic codes. These linear growth rates, gamma (subscript lin) are large, but the flow-shearing rates, gamma (subscript ExB) (dominated by the toroidal rotation contribution) are also comparably large when and where the ITB exists

  6. On the linearity of cross-correlation delay times

    Science.gov (United States)

    Mercerat, E. D.; Nolet, G.

    2012-12-01

    We investigate the question whether a P-wave delay time Δ T estimated by locating the maximum of the cross-correlation function between data d(t) and a predicted test function s(t): γ (t) = ∫ t1t_2 s(τ ) d(τ -t) \\ {d}τ, provides an estimate of the Delta T that is (quasi-)linear with the relative velocity perturbation deltaln V_P}. Such linearity is intuitive if the data d(t) is an undeformed but delayed replica of the test signal, i.e. if d(t)=s(t-Delta T). Then the maximum of gamma (t) is shifted exactly by the delay Delta T, and linearity holds even for Delta T very large. In this case, we say that the body waves are in the ray theoretical regime and their delays, because of Fermat's Principle, depend quasi-linearly on the relative velocity (or slowness) perturbations deltaln V_P in the model. However, even if we correct for dispersion induced by the instrument response and by attenuation, body waves may show frequency dependent delay times that are caused by diffraction effects around lateral heterogeneities. It is not a-priori clear that linearity holds for Delta T, as is assumed in finite-frequency theory, if the waveforms of d(t) and s(t) differ substantially because of such dispersion. To test the linearity, we generate synthetic seismograms between two boreholes, and between the boreholes and the surface, in a 3D box of 200 × 120 × 120 m. The heterogeneity is a checkerboard with cubic anomalies of size 12 × 12 × 12 m. We test two different anomaly amplitudes: ± 2% and ± 5%, and measure Delta T using a test seismogram s(t) computed for an homogeneous medium. We also predict the delays for the 5% model from those in the 2% model by multiplying with 5/2. These predictions are in error by 10-20% of the delay, which is usually acceptable for tomography when compared with actual data errors. A slight bias in the prediction indicates that the Wielandt effect - the fact that negative delays suffer less wavefront healing than positive delays - is a

  7. Transient Vibration Prediction for Rotors on Ball Bearings Using Load-dependent Non-linear Bearing Stiffness

    Science.gov (United States)

    Fleming, David P.; Poplawski, J. V.

    2002-01-01

    Rolling-element bearing forces vary nonlinearly with bearing deflection. Thus an accurate rotordynamic transient analysis requires bearing forces to be determined at each step of the transient solution. Analyses have been carried out to show the effect of accurate bearing transient forces (accounting for non-linear speed and load dependent bearing stiffness) as compared to conventional use of average rolling-element bearing stiffness. Bearing forces were calculated by COBRA-AHS (Computer Optimized Ball and Roller Bearing Analysis - Advanced High Speed) and supplied to the rotordynamics code ARDS (Analysis of Rotor Dynamic Systems) for accurate simulation of rotor transient behavior. COBRA-AHS is a fast-running 5 degree-of-freedom computer code able to calculate high speed rolling-element bearing load-displacement data for radial and angular contact ball bearings and also for cylindrical and tapered roller beatings. Results show that use of nonlinear bearing characteristics is essential for accurate prediction of rotordynamic behavior.

  8. High-Order Sparse Linear Predictors for Audio Processing

    DEFF Research Database (Denmark)

    Giacobello, Daniele; van Waterschoot, Toon; Christensen, Mads Græsbøll

    2010-01-01

    Linear prediction has generally failed to make a breakthrough in audio processing, as it has done in speech processing. This is mostly due to its poor modeling performance, since an audio signal is usually an ensemble of different sources. Nevertheless, linear prediction comes with a whole set...... of interesting features that make the idea of using it in audio processing not far fetched, e.g., the strong ability of modeling the spectral peaks that play a dominant role in perception. In this paper, we provide some preliminary conjectures and experiments on the use of high-order sparse linear predictors...... in audio processing. These predictors, successfully implemented in modeling the short-term and long-term redundancies present in speech signals, will be used to model tonal audio signals, both monophonic and polyphonic. We will show how the sparse predictors are able to model efficiently the different...

  9. US SciDAC Program on Integrated Simulation of Edge Transport in Fusion Plasmas, and its Progress

    International Nuclear Information System (INIS)

    Chang, C.S.

    2007-01-01

    The multi-institutional collaborative center for plasma edge simulation (CPES) has been launched in the USA under the SciDAC (Scientific Discovery through Advanced Computing) Fusion Simulation Program. This is a multi-disciplinary effort among physicists, applied mathematicians, and computer scientists from 15 national laboratories and universities. Its goal is to perform first principles simulations on plasma transport in the edge region from the top of the pedestal to the scrape off/divertor regions bounded by a material wall, and to predict L-H transition, pedestal buildup, ELM crashes, scrape-off transport and divertor heat load. As a major part of the effort, a PIC gyrokinetic edge code XGC is constructed. The gyrokinetic edge code XGC is coupled to a nonlinear edge MHD/2fluid code (M3D and NIMROD) to predict the cycle of pedestal buildup and ELM crash. The magnetic geometry includes the realistic separatrix, X-point, open field lines and material wall. In the first phase of this effort, the electrostatic version of the PIC gyrokinetic code XGC-1 has been built, to be extended into an electromagnetic version soon in the next phase. XGC-1 includes the gyrokinetic ions, electrons, and Monte Carlo neutrals with wall recycling. Since the ions have non-Maxwellian distribution function in the edge, as demonstrated in XGC, a full-f ion technique is used. Electrons are, though, handled with a mixed-f technique: the full-f technique for neoclassical and adiabatic or delta-f split-weight techniques for turbulence physics. The mixed-f electron approach used in XGC is new, successfully integrating the neoclassical and turbulence physics. Recent progress and results on neoclassical and electrostatic turbulence transports will be reported, which includes the pedestal buildup by neutral ionization, density pedestal width scaling, electrostatic potential and plasma flow distributions in the pedestal and scrape-off, and other important physical effects in the pedestal

  10. Improved understanding of physics processes in pedestal structure, leading to improved predictive capability for ITER

    International Nuclear Information System (INIS)

    Groebner, R.J.; Snyder, P.B.; Leonard, A.W.; Chang, C.S.; Maingi, R.; Boyle, D.P.; Diallo, A.; Hughes, J.W.; Davis, E.M.; Ernst, D.R.; Landreman, M.; Xu, X.Q.; Boedo, J.A.; Cziegler, I.; Diamond, P.H.; Eldon, D.P.; Callen, J.D.; Canik, J.M.; Elder, J.D.; Fulton, D.P.

    2013-01-01

    Joint experiment/theory/modelling research has led to increased confidence in predictions of the pedestal height in ITER. This work was performed as part of a US Department of Energy Joint Research Target in FY11 to identify physics processes that control the H-mode pedestal structure. The study included experiments on C-Mod, DIII-D and NSTX as well as interpretation of experimental data with theory-based modelling codes. This work provides increased confidence in the ability of models for peeling–ballooning stability, bootstrap current, pedestal width and pedestal height scaling to make correct predictions, with some areas needing further work also being identified. A model for pedestal pressure height has made good predictions in existing machines for a range in pressure of a factor of 20. This provides a solid basis for predicting the maximum pedestal pressure height in ITER, which is found to be an extrapolation of a factor of 3 beyond the existing data set. Models were studied for a number of processes that are proposed to play a role in the pedestal n e and T e profiles. These processes include neoclassical transport, paleoclassical transport, electron temperature gradient turbulence and neutral fuelling. All of these processes may be important, with the importance being dependent on the plasma regime. Studies with several electromagnetic gyrokinetic codes show that the gradients in and on top of the pedestal can drive a number of instabilities. (paper)

  11. Efficient predictive algorithms for image compression

    CERN Document Server

    Rosário Lucas, Luís Filipe; Maciel de Faria, Sérgio Manuel; Morais Rodrigues, Nuno Miguel; Liberal Pagliari, Carla

    2017-01-01

    This book discusses efficient prediction techniques for the current state-of-the-art High Efficiency Video Coding (HEVC) standard, focusing on the compression of a wide range of video signals, such as 3D video, Light Fields and natural images. The authors begin with a review of the state-of-the-art predictive coding methods and compression technologies for both 2D and 3D multimedia contents, which provides a good starting point for new researchers in the field of image and video compression. New prediction techniques that go beyond the standardized compression technologies are then presented and discussed. In the context of 3D video, the authors describe a new predictive algorithm for the compression of depth maps, which combines intra-directional prediction, with flexible block partitioning and linear residue fitting. New approaches are described for the compression of Light Field and still images, which enforce sparsity constraints on linear models. The Locally Linear Embedding-based prediction method is in...

  12. Development of a predictive model for lead, cadmium and fluorine soil-water partition coefficients using sparse multiple linear regression analysis.

    Science.gov (United States)

    Nakamura, Kengo; Yasutaka, Tetsuo; Kuwatani, Tatsu; Komai, Takeshi

    2017-11-01

    In this study, we applied sparse multiple linear regression (SMLR) analysis to clarify the relationships between soil properties and adsorption characteristics for a range of soils across Japan and identify easily-obtained physical and chemical soil properties that could be used to predict K and n values of cadmium, lead and fluorine. A model was first constructed that can easily predict the K and n values from nine soil parameters (pH, cation exchange capacity, specific surface area, total carbon, soil organic matter from loss on ignition and water holding capacity, the ratio of sand, silt and clay). The K and n values of cadmium, lead and fluorine of 17 soil samples were used to verify the SMLR models by the root mean square error values obtained from 512 combinations of soil parameters. The SMLR analysis indicated that fluorine adsorption to soil may be associated with organic matter, whereas cadmium or lead adsorption to soil is more likely to be influenced by soil pH, IL. We found that an accurate K value can be predicted from more than three soil parameters for most soils. Approximately 65% of the predicted values were between 33 and 300% of their measured values for the K value; 76% of the predicted values were within ±30% of their measured values for the n value. Our findings suggest that adsorption properties of lead, cadmium and fluorine to soil can be predicted from the soil physical and chemical properties using the presented models. Copyright © 2017 Elsevier Ltd. All rights reserved.

  13. Performance test of 100 W linear compressor

    Energy Technology Data Exchange (ETDEWEB)

    Ko, J; Ko, D. Y.; Park, S. J.; Kim, H. B.; Hong, Y. J.; Yeom, H. K. [Korea Institute of Machinery and Materials, Daejeon(Korea, Republic of)

    2013-09-15

    In this paper, we present test results of developed 100 W class linear compressor for Stirling-type pulse tube refrigerator. The fabricated linear compressor has dual-opposed configuration, free piston and moving magnet type linear motor. Power transfer, efficiency and required pressure waveform are predicted with designed and measured specifications. In experiments, room temperature test with flow impedance is conducted to evaluate performance of developed linear compressor. Flow impedance is loaded to compressor with metering valve for flow resistance, inertance tube for flow inertance and buffer volumes for flow compliance. Several operating parameters such as input voltage, current, piston displacement and pressure wave are measured for various operating frequency and fixed input current level. Behaviors of dynamics and performance of linear compressor as varying flow impedance are discussed with measured experimental results. The developed linear compressor shows 124 W of input power, 86 % of motor efficiency and 60 % of compressor efficiency at its resonant operating condition.

  14. Isotherms and thermodynamics by linear and non-linear regression analysis for the sorption of methylene blue onto activated carbon: Comparison of various error functions

    International Nuclear Information System (INIS)

    Kumar, K. Vasanth; Porkodi, K.; Rocha, F.

    2008-01-01

    A comparison of linear and non-linear regression method in selecting the optimum isotherm was made to the experimental equilibrium data of methylene blue sorption by activated carbon. The r 2 was used to select the best fit linear theoretical isotherm. In the case of non-linear regression method, six error functions, namely coefficient of determination (r 2 ), hybrid fractional error function (HYBRID), Marquardt's percent standard deviation (MPSD), average relative error (ARE), sum of the errors squared (ERRSQ) and sum of the absolute errors (EABS) were used to predict the parameters involved in the two and three parameter isotherms and also to predict the optimum isotherm. For two parameter isotherm, MPSD was found to be the best error function in minimizing the error distribution between the experimental equilibrium data and predicted isotherms. In the case of three parameter isotherm, r 2 was found to be the best error function to minimize the error distribution structure between experimental equilibrium data and theoretical isotherms. The present study showed that the size of the error function alone is not a deciding factor to choose the optimum isotherm. In addition to the size of error function, the theory behind the predicted isotherm should be verified with the help of experimental data while selecting the optimum isotherm. A coefficient of non-determination, K 2 was explained and was found to be very useful in identifying the best error function while selecting the optimum isotherm

  15. Using multiple linear regression and physicochemical changes of amino acid mutations to predict antigenic variants of influenza A/H3N2 viruses.

    Science.gov (United States)

    Cui, Haibo; Wei, Xiaomei; Huang, Yu; Hu, Bin; Fang, Yaping; Wang, Jia

    2014-01-01

    Among human influenza viruses, strain A/H3N2 accounts for over a quarter of a million deaths annually. Antigenic variants of these viruses often render current vaccinations ineffective and lead to repeated infections. In this study, a computational model was developed to predict antigenic variants of the A/H3N2 strain. First, 18 critical antigenic amino acids in the hemagglutinin (HA) protein were recognized using a scoring method combining phi (ϕ) coefficient and information entropy. Next, a prediction model was developed by integrating multiple linear regression method with eight types of physicochemical changes in critical amino acid positions. When compared to other three known models, our prediction model achieved the best performance not only on the training dataset but also on the commonly-used testing dataset composed of 31878 antigenic relationships of the H3N2 influenza virus.

  16. Improvement of Bragg peak shift estimation using dimensionality reduction techniques and predictive linear modeling

    Science.gov (United States)

    Xing, Yafei; Macq, Benoit

    2017-11-01

    With the emergence of clinical prototypes and first patient acquisitions for proton therapy, the research on prompt gamma imaging is aiming at making most use of the prompt gamma data for in vivo estimation of any shift from expected Bragg peak (BP). The simple problem of matching the measured prompt gamma profile of each pencil beam with a reference simulation from the treatment plan is actually made complex by uncertainties which can translate into distortions during treatment. We will illustrate this challenge and demonstrate the robustness of a predictive linear model we proposed for BP shift estimation based on principal component analysis (PCA) method. It considered the first clinical knife-edge slit camera design in use with anthropomorphic phantom CT data. Particularly, 4115 error scenarios were simulated for the learning model. PCA was applied to the training input randomly chosen from 500 scenarios for eliminating data collinearities. A total variance of 99.95% was used for representing the testing input from 3615 scenarios. This model improved the BP shift estimation by an average of 63+/-19% in a range between -2.5% and 86%, comparing to our previous profile shift (PS) method. The robustness of our method was demonstrated by a comparative study conducted by applying 1000 times Poisson noise to each profile. 67% cases obtained by the learning model had lower prediction errors than those obtained by PS method. The estimation accuracy ranged between 0.31 +/- 0.22 mm and 1.84 +/- 8.98 mm for the learning model, while for PS method it ranged between 0.3 +/- 0.25 mm and 20.71 +/- 8.38 mm.

  17. High-performance small-scale solvers for linear Model Predictive Control

    DEFF Research Database (Denmark)

    Frison, Gianluca; Sørensen, Hans Henrik Brandenborg; Dammann, Bernd

    2014-01-01

    , with the two main research areas of explicit MPC and tailored on-line MPC. State-of-the-art solvers in this second class can outperform optimized linear-algebra libraries (BLAS) only for very small problems, and do not explicitly exploit the hardware capabilities, relying on compilers for that. This approach...

  18. Dynamic segmentation and linear prediction for maternal ECG removal in antenatal abdominal recordings

    International Nuclear Information System (INIS)

    Vullings, R; Sluijter, R J; Mischi, M; Bergmans, J W M; Peters, C H L; Oei, S G

    2009-01-01

    Monitoring the fetal heart rate (fHR) and fetal electrocardiogram (fECG) during pregnancy is important to support medical decision making. Before labor, the fHR is usually monitored using Doppler ultrasound. This method is inaccurate and therefore of limited clinical value. During labor, the fHR can be monitored more accurately using an invasive electrode; this method also enables monitoring of the fECG. Antenatally, the fECG and fHR can also be monitored using electrodes on the maternal abdomen. The signal-to-noise ratio of these recordings is, however, low, the maternal electrocardiogram (mECG) being the main interference. Existing techniques to remove the mECG from these non-invasive recordings are insufficiently accurate or do not provide all spatial information of the fECG. In this paper a new technique for mECG removal in antenatal abdominal recordings is presented. This technique operates by the linear prediction of each separate wave in the mECG. Its performance in mECG removal and fHR detection is evaluated by comparison with spatial filtering, adaptive filtering, template subtraction and independent component analysis techniques. The new technique outperforms the other techniques in both mECG removal and fHR detection (by more than 3%)

  19. High-throughput quantitative biochemical characterization of algal biomass by NIR spectroscopy; multiple linear regression and multivariate linear regression analysis.

    Science.gov (United States)

    Laurens, L M L; Wolfrum, E J

    2013-12-18

    One of the challenges associated with microalgal biomass characterization and the comparison of microalgal strains and conversion processes is the rapid determination of the composition of algae. We have developed and applied a high-throughput screening technology based on near-infrared (NIR) spectroscopy for the rapid and accurate determination of algal biomass composition. We show that NIR spectroscopy can accurately predict the full composition using multivariate linear regression analysis of varying lipid, protein, and carbohydrate content of algal biomass samples from three strains. We also demonstrate a high quality of predictions of an independent validation set. A high-throughput 96-well configuration for spectroscopy gives equally good prediction relative to a ring-cup configuration, and thus, spectra can be obtained from as little as 10-20 mg of material. We found that lipids exhibit a dominant, distinct, and unique fingerprint in the NIR spectrum that allows for the use of single and multiple linear regression of respective wavelengths for the prediction of the biomass lipid content. This is not the case for carbohydrate and protein content, and thus, the use of multivariate statistical modeling approaches remains necessary.

  20. Application of Constrained Linear MPC to a Spray Dryer

    DEFF Research Database (Denmark)

    Petersen, Lars Norbert; Poulsen, Niels Kjølstad; Niemann, Hans Henrik

    2014-01-01

    In this paper we develop a linear model predictive control (MPC) algorithm for control of a two stage spray dryer. The states are estimated by a stationary Kalman filter. A non-linear first-principle engineering model is developed to simulate the spray drying process. The model is validated against...... experimental data and able to precisely predict the temperatures, the air humidity and the residual moisture in the dryer. The MPC controls these variables to the target and reject disturbances. Spray drying is a cost-effective method to evaporate water from liquid foods and produces a free flowing powder...