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Ivan Kondov

Publications and source records attributed to Ivan Kondov.

7 recordsLinked to original sources

Polynomial propagators for classical molecular dynamics

Classical molecular dynamics simulation is performed mostly using the established velocity Verlet integrator or other symplectic propagation schemes. In this work, an alternative formulation of numerical propagators for classical molecular dynamics is introduced based on an expansion of the time evolution operator in series of Chebyshev and Newton polynomials. The suggested propagators have, in principle, arbitrary order of accuracy which can be controlled by the choice of expansion order after that the series is truncated. However, the expansion converges only after a minimum number of terms is included in the expansion and this number increases linearly with the time step size. Measurements of the energy drift demonstrate the acceptable long-time stability of the polynomial propagators. It is shown that a system of interacting Lennard-Jones particles is tractable by the proposed technique and that the scaling with the expansion order is only polynomial while the scaling with the number of particles is the same as with the conventional velocity Verlet. The proposed method is, in principle, extendable for further interaction force fields and for integration with a thermostat, and can be parallelized to speed up the computation of every time step.

physics.chem-ph

Challenges and Recommendations for Preparing HPC Applications for Exascale

While the HPC community is working towards the development of the first Exaflop computer (expected around 2020), after reaching the Petaflop milestone in 2008 still only few HPC applications are able to fully exploit the capabilities of Petaflop systems. In this paper we argue that efforts for preparing HPC applications for Exascale should start before such systems become available. We identify challenges that need to be addressed and recommend solutions in key areas of interest, including formal modeling, static analysis and optimization, runtime analysis and optimization, and autonomic computing. Furthermore, we outline a conceptual framework for porting HPC applications to future Exascale computing systems and propose steps for its implementation.

cs.DC

Stochastic unraveling of Redfield master equations and its application to electron transfer problems

A method for stochastic unraveling of general time-local quantum master equations (QMEs) is proposed. The present kind of jump algorithm allows a numerically efficient treatment of QMEs which are not in Lindblad form, i.e. are not positive semidefinite by definition. The unraveling can be achieved by allowing for trajectories with negative weights. Such a property is necessary, e.g. to unravel the Redfield QME and to treat various related problems with high numerical efficiency. The method is successfully tested on the damped harmonic oscillator and on electron transfer models including one and two reaction coordinates. The obtained results are compared to those from a direct propagation of the reduced density matrix (RDM) as well as from the standard quantum jump method. Comparison of the numerical efficiency is performed considering both the population dynamics and the RDM in the Wigner phase space representation.

physics.chem-ph

Stochastic unraveling of time-local quantum master equations beyond the Lindblad class

A new method for stochastic unraveling of general time-local quantum master equations (QME) which involve the reduced density operator at time t only is proposed. The present kind of jump algorithm enables a numerically efficient treatment of QMEs which are not of Lindblad form. So it opens new large fields of application for stochastic methods. The unraveling can be achieved by allowing for trajectories with negative weight. We present results for the quantum Brownian motion and the Redfield QMEs as test examples. The algorithm can also unravel non-Markovian QMEs when they are in a time-local form like in the time-convolutionless formalism.

quant-ph

A density matrix approach to photoinduced electron injection

Electron injection from an adsorbed molecule to the substrate (heterogeneous electron transfer) is studied. One reaction coordinate is used to model this process. The surface phonons and/or the electron-hole pairs together with the internal degrees of freedom of the adsorbed molecule as well as possibly a liquid surrounding the molecule provide a dissipative environment, which may lead to dephasing, relaxation, and sometimes excitation of the relevant system. In the process studied the adsorbed molecule is excited by a light pulse. This is followed by an electron transfer from the excited donor state to the quasi-continuum of the substrate. It is assumed that the substrate is a semiconductor. The effects of dissipation on electron injection are investigated.

physics.chem-ph

Perturbative treatment of intercenter coupling in Redfield theory

The quantum dynamics of coupled subsystems connected to a thermal bath is studied. In some of the earlier work the effect of intercenter coupling on the dissipative part was neglected. This is equivalent to a zeroth-order perturbative expansion of the damping term with respect to the intercenter coupling. It is shown numerically for two coupled harmonic oscillators that this treatment can lead to artifacts and a completely wrong description, for example, of a charge transfer processes even for very weak intercenter coupling. Here we perform a first-order treatment and show that these artifacts disappear. In addition, we demonstrate that the thermodynamic equilibrium population is almost reached even for strong intercenter coupling strength.

physics.chem-ph

Efficiency of different numerical methods for solving Redfield equations

The numerical efficiency of different schemes for solving the Liouville-von Neumann equation within multilevel Redfield theory has been studied. Among the tested algorithms are the well-known Runge-Kutta scheme in two different implementations as well as methods especially developed for time propagation: the Short Iterative Arnoldi, Chebyshev and Newtonian propagators. In addition, an implementation of a symplectic integrator has been studied. For a simple example of a two-center electron transfer system we discuss some aspects of the efficiency of these methods to integrate the equations of motion. Overall for time-independent potentials the Newtonian method is recommended. For time-dependent potentials implementations of the Runge-Kutta algorithm are very efficient.

physics.chem-ph