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Farantos SC. Hamiltonian Computational Chemistry: Geometrical Structures in Chemical Dynamics and Kinetics. ENTROPY (BASEL, SWITZERLAND) 2024; 26:399. [PMID: 38785648 PMCID: PMC11120360 DOI: 10.3390/e26050399] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2023] [Revised: 04/28/2024] [Accepted: 04/29/2024] [Indexed: 05/25/2024]
Abstract
The common geometrical (symplectic) structures of classical mechanics, quantum mechanics, and classical thermodynamics are unveiled with three pictures. These cardinal theories, mainly at the non-relativistic approximation, are the cornerstones for studying chemical dynamics and chemical kinetics. Working in extended phase spaces, we show that the physical states of integrable dynamical systems are depicted by Lagrangian submanifolds embedded in phase space. Observable quantities are calculated by properly transforming the extended phase space onto a reduced space, and trajectories are integrated by solving Hamilton's equations of motion. After defining a Riemannian metric, we can also estimate the length between two states. Local constants of motion are investigated by integrating Jacobi fields and solving the variational linear equations. Diagonalizing the symplectic fundamental matrix, eigenvalues equal to one reveal the number of constants of motion. For conservative systems, geometrical quantum mechanics has proved that solving the Schrödinger equation in extended Hilbert space, which incorporates the quantum phase, is equivalent to solving Hamilton's equations in the projective Hilbert space. In classical thermodynamics, we take entropy and energy as canonical variables to construct the extended phase space and to represent the Lagrangian submanifold. Hamilton's and variational equations are written and solved in the same fashion as in classical mechanics. Solvers based on high-order finite differences for numerically solving Hamilton's, variational, and Schrödinger equations are described. Employing the Hénon-Heiles two-dimensional nonlinear model, representative results for time-dependent, quantum, and dissipative macroscopic systems are shown to illustrate concepts and methods. High-order finite-difference algorithms, despite their accuracy in low-dimensional systems, require substantial computer resources when they are applied to systems with many degrees of freedom, such as polyatomic molecules. We discuss recent research progress in employing Hamiltonian neural networks for solving Hamilton's equations. It turns out that Hamiltonian geometry, shared with all physical theories, yields the necessary and sufficient conditions for the mutual assistance of humans and machines in deep-learning processes.
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Affiliation(s)
- Stavros C. Farantos
- Department of Chemistry, University of Crete, GR-700 13 Heraklion, Greece; or
- Institute of Electronic Structure and Laser, FORTH, GR-711 10 Heraklion, Greece
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Benito-Gómez I, Méndez L, Suárez J, Gorfinkiel JD, Rabadán I. Resonant Fragmentation of the Water Cation by Electron Impact: a Wave-Packet Study. Chemphyschem 2023; 24:e202300305. [PMID: 37463249 DOI: 10.1002/cphc.202300305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Revised: 07/12/2023] [Accepted: 07/13/2023] [Indexed: 07/20/2023]
Abstract
We have investigated the dissociation of a resonant state that can be formed in low energy electron scattering from H2 O+ . We have chosen the second triplet resonance above theB ˜ 2 A ' ${{{\tilde{\rm {B}}}}\;^2 {\rm{A{^\prime}}}}$ ( B ˜ 2 B 2 ) ${{\rm{(\tilde{B}}}\;^2 {\rm{B}}_2 )}$ state of H2 O+ whose autoionization mainly produces H2 O+ (X ˜ 2 A ' ' ${{{\tilde{\rm {X}}}}\;^2 {\rm{A{^\prime}{^\prime}}}}$ ). We have considered both dissociation of the resonant state itself, dissociative recombination (DR), or the dissociation of the H2 O+ cation after autodetachment, dissociative excitation (DE). The time-evolution of a wave packet on the potential energy surfaces of the resonance and cationic states shows, for the initial conditions studied, that the probability for DR is about 38 % while the probability for DE is negligible.
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Affiliation(s)
- Ignacio Benito-Gómez
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión, Departamento de Química, módulo 13, Universidad Autónoma de Madrid, 28049, Madrid, Spain
| | - Luis Méndez
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión, Departamento de Química, módulo 13, Universidad Autónoma de Madrid, 28049, Madrid, Spain
| | - Jaime Suárez
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión, Departamento de Química, módulo 13, Universidad Autónoma de Madrid, 28049, Madrid, Spain
| | - Jimena D Gorfinkiel
- School of Physical Sciences, The Open University, Walton Hall, MK7 6AA, Milton Keynes, UK
| | - Ismanuel Rabadán
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión, Departamento de Química, módulo 13, Universidad Autónoma de Madrid, 28049, Madrid, Spain
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Moussa AH, Shalaby M, Sedik EWS, Kamal MTED, Talaat H. Molecular Dynamic Investigation of HN2ON a Potential Energy Surface Designed by Lie Algebra Method. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY B 2022. [DOI: 10.1134/s1990793122040133] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Micciarelli M, Conte R, Suarez J, Ceotto M. Anharmonic vibrational eigenfunctions and infrared spectra from semiclassical molecular dynamics. J Chem Phys 2018; 149:064115. [DOI: 10.1063/1.5041911] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Marco Micciarelli
- Dipartimento di Chimica, Università degli Studi di Milano, via C. Golgi 19, 20133 Milano, Italy
| | - Riccardo Conte
- Dipartimento di Chimica, Università degli Studi di Milano, via C. Golgi 19, 20133 Milano, Italy
| | - Jaime Suarez
- Dipartimento di Chimica, Università degli Studi di Milano, via C. Golgi 19, 20133 Milano, Italy
| | - Michele Ceotto
- Dipartimento di Chimica, Università degli Studi di Milano, via C. Golgi 19, 20133 Milano, Italy
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Li X, Sun Z. Quantum real wave packet method by using spectral difference for a triatomic reactive scattering. Chem Phys 2018. [DOI: 10.1016/j.chemphys.2018.03.014] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Suárez J, Méndez L, Rabadán I. Nonadiabatic fragmentation of H2O+ and isotopomers. Wave packet propagation using ab initio wavefunctions. Phys Chem Chem Phys 2018; 20:28511-28522. [DOI: 10.1039/c8cp03725f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The nonadiabatic fragmentation of excited water cations (and isotopomers) is studied by propagating wave packets on ab initio potential energy surfaces.
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Affiliation(s)
- Jaime Suárez
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión
- Departamento de Química
- Universidad Autónoma de Madrid
- 28049-Madrid
- Spain
| | - L. Méndez
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión
- Departamento de Química
- Universidad Autónoma de Madrid
- 28049-Madrid
- Spain
| | - I. Rabadán
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión
- Departamento de Química
- Universidad Autónoma de Madrid
- 28049-Madrid
- Spain
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Shizgal BD. Pseudospectral method of solution of the Schrödinger equation with non classical polynomials; the Morse and Pöschl–Teller (SUSY) potentials. COMPUT THEOR CHEM 2016. [DOI: 10.1016/j.comptc.2016.03.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Yu D, Cong SL, Sun Z. An improved Lobatto discrete variable representation by a phase optimisation and variable mapping method. Chem Phys 2015. [DOI: 10.1016/j.chemphys.2015.07.009] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Suárez J, Méndez L, Rabadán I. Nonadiabatic Quantum Dynamics Predissociation of H2O(+)(B̃ (2)B2). J Phys Chem Lett 2015; 6:72-76. [PMID: 26263094 DOI: 10.1021/jz5022894] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
A quantum-mechanical study of the predissociation of H2O(+) (B̃ (2)B2) is carried out by using wave packet propagations on ab initio potential energy surfaces connected by nonadiabatic couplings. The simulations show that within the first 30 fs 80% of the initial wave packet is transferred from the B̃ (2)B2 to the à (2)A1 electronic state through a conical intersection. A much slower transfer (in the ps time scale) from the à (2)A1 to the X̃ (2)B1 state due to a Renner-Teller coupling determines the fragmentation branching ratios, which are in accordance with the experimental measurements.
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Affiliation(s)
- Jaime Suárez
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión, Departamento de Química, módulo 13, Universidad Autónoma de Madrid, Avenida Francisco Tomás y Valiente, 7, 28049 Madrid, Spain
| | - L Méndez
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión, Departamento de Química, módulo 13, Universidad Autónoma de Madrid, Avenida Francisco Tomás y Valiente, 7, 28049 Madrid, Spain
| | - I Rabadán
- Laboratorio Asociado al CIEMAT de Física Atómica y Molecular en Plasmas de Fusión, Departamento de Química, módulo 13, Universidad Autónoma de Madrid, Avenida Francisco Tomás y Valiente, 7, 28049 Madrid, Spain
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Talaat H, Moussa AH, Shalaby M, Sedik EWS, Kamal MTED. Quantum dynamics of heavy light heavy reactions: Application to (F + CH4 → FCH3 + H) reaction. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY A 2013. [DOI: 10.1134/s0036024413030369] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Mauguiere F, Farantos SC, Suarez J, Schinke R. Non-linear dynamics of the photodissociation of nitrous oxide: Equilibrium points, periodic orbits, and transition states. J Chem Phys 2011; 134:244302. [DOI: 10.1063/1.3601754] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Farantos SC, Schinke R, Guo H, Joyeux M. Energy Localization in Molecules, Bifurcation Phenomena, and Their Spectroscopic Signatures: The Global View. Chem Rev 2009; 109:4248-71. [DOI: 10.1021/cr900069m] [Citation(s) in RCA: 64] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Stavros C. Farantos
- Institute of Electronic Structure and Laser, Foundation for Research and Technology—Hellas, and Department of Chemistry, University of Crete, Iraklion 711 10, Crete, Greece, Max-Planck-Institut für Dynamik und Selbstorganisation, D-37073 Göttingen, Germany, Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, and Laboratoire de Spectrométrie Physique, Université Joseph Fourier—Grenoble I, BP 87, F-38402, St. Martin d’Heres Cedex, France
| | - Reinhard Schinke
- Institute of Electronic Structure and Laser, Foundation for Research and Technology—Hellas, and Department of Chemistry, University of Crete, Iraklion 711 10, Crete, Greece, Max-Planck-Institut für Dynamik und Selbstorganisation, D-37073 Göttingen, Germany, Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, and Laboratoire de Spectrométrie Physique, Université Joseph Fourier—Grenoble I, BP 87, F-38402, St. Martin d’Heres Cedex, France
| | - Hua Guo
- Institute of Electronic Structure and Laser, Foundation for Research and Technology—Hellas, and Department of Chemistry, University of Crete, Iraklion 711 10, Crete, Greece, Max-Planck-Institut für Dynamik und Selbstorganisation, D-37073 Göttingen, Germany, Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, and Laboratoire de Spectrométrie Physique, Université Joseph Fourier—Grenoble I, BP 87, F-38402, St. Martin d’Heres Cedex, France
| | - Marc Joyeux
- Institute of Electronic Structure and Laser, Foundation for Research and Technology—Hellas, and Department of Chemistry, University of Crete, Iraklion 711 10, Crete, Greece, Max-Planck-Institut für Dynamik und Selbstorganisation, D-37073 Göttingen, Germany, Department of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, and Laboratoire de Spectrométrie Physique, Université Joseph Fourier—Grenoble I, BP 87, F-38402, St. Martin d’Heres Cedex, France
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Peng LY, Starace AF. Application of Coulomb wave function discrete variable representation to atomic systems in strong laser fields. J Chem Phys 2006; 125:154311. [PMID: 17059259 DOI: 10.1063/1.2358351] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023] Open
Abstract
We present an efficient and accurate grid method for solving the time-dependent Schrodinger equation for an atomic system interacting with an intense laser pulse. Instead of the usual finite difference (FD) method, the radial coordinate is discretized using the discrete variable representation (DVR) constructed from Coulomb wave functions. For an accurate description of the ionization dynamics of atomic systems, the Coulomb wave function discrete variable representation (CWDVR) method needs three to ten times fewer grid points than the FD method. The resultant grid points of the CWDVR are distributed unevenly so that one has a finer grid near the origin and a coarser one at larger distances. The other important advantage of the CWDVR method is that it treats the Coulomb singularity accurately and gives a good representation of continuum wave functions. The time propagation of the wave function is implemented using the well-known Arnoldi method. As examples, the present method is applied to multiphoton ionization of both the H atom and the H(-) ion in intense laser fields. The short-time excitation and ionization dynamics of H by an abruptly introduced static electric field is also investigated. For a wide range of field parameters, ionization rates calculated using the present method are in excellent agreement with those from other accurate theoretical calculations.
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Affiliation(s)
- Liang-You Peng
- Department of Physics and Astronomy, The University of Nebraska-Lincoln, Nebraska 68588-0111, USA.
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Farantos S, Filippou E, Stamatiadis S, Froudakis G, Mühlhäuser M, Massaouti M, Sfounis A, Velegrakis M. Photofragmentation spectra of Sr+CO complex: experiment and ab initio calculations. Chem Phys Lett 2002. [DOI: 10.1016/s0009-2614(02)01574-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Gray SK, Goldfield EM. Dispersion fitted finite difference method with applications to molecular quantum mechanics. J Chem Phys 2001. [DOI: 10.1063/1.1408285] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
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Mazziotti DA. Comment on “High order finite difference algorithms for solving the Schrödinger equation in molecular dynamics” [J. Chem. Phys. 111, 10827 (1999)]. J Chem Phys 2001. [DOI: 10.1063/1.1400783] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
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Guantes R, Farantos SC. Response to “Comment on ‘High order finite difference algorithms for solving the Schrödinger equation in molecular dynamics’ ” [J. Chem. Phys. 115, 6794 (2001)]. J Chem Phys 2001. [DOI: 10.1063/1.1400784] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Guantes R, Farantos SC. High order finite difference algorithms for solving the Schrödinger equation in molecular dynamics. II. Periodic variables. J Chem Phys 2000. [DOI: 10.1063/1.1324004] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
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Guantes R, Nezis A, Farantos SC. Periodic orbit–Quantum mechanical investigation of the inversion mechanism of Ar3. J Chem Phys 1999. [DOI: 10.1063/1.480447] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
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