arXiv subjects

Andrej Antalík

Publications and source records attributed to Andrej Antalík.

9 recordsLinked to original sources

arXiv2025

Atom-centered electric multipole moments dynamically generated from QM/MM MD simulations

Atom-centered electric multipole moments can be extremely useful in chemistry as they enable the systematic mapping of a complex electrostatic problem to a simpler model. However, since they do not correspond to physical observables, there is no unique way to define them. In this work, we present an extension of the dynamically generated RESP charges (D-RESP) method, referred to as xDRESP, where atom-centered multipoles are computed from mixed quantum mechanics/molecular mechanics (QM/MM) molecular dynamics simulations. We compare the ability of xDRESP charges to reproduce the electrostatic potential, as well as molecular multipoles, against the performance of fixed point-charge models commonly used in force fields. Moreover, we highlight cases where DRESP atomic multipoles can provide valuable information about chemical systems, such as indicating when polarization plays a significant role, and chemical reactions, in which xDRESP atomic multipoles can be used as an on-the-fly analysis tool to track changes in electron density.

physics.chem-ph↗

arXiv2025

Making Puzzle Pieces Fit or Reshaping MiMiC for Multiscale Simulations with CP2K and More

MiMiC is a framework for modeling large-scale chemical processes that require treatment at multiple resolutions. It does not aim to implement single-handedly all methods required to treat individual subsystems, but instead, it relegates this task to specialized computational chemistry software while it serves as an intermediary between these external programs, and computes the interactions between the subsystems. MiMiC minimizes issues typically associated with molecular dynamics performed with multiple programs, by adopting a multiple-program multiple-data paradigm combined with a loose-coupling model. In this article, we present the addition of a new client program, CP2K, to the MiMiC ecosystem, which required a major refactoring of the entire framework and in the end allowed us to unlock its full flexibility. By thorough timing analysis, we verify that the introduced changes do not affect the performance of MiMiC or CP2K, and neither are they a source of significant computational overheads that would be detrimental to simulation efficiency. Moreover, we demonstrate the benefits of the framework's modular design, by performing a QM/MM MD simulation combining CP2K with previously interfaced OpenMM, with no additional implementation effort required.

physics.chem-ph↗

arXiv2025

OpenMM-MiMiC Interface for Efficient and Flexible Multiscale Simulations

MiMiC is a flexible and efficient framework for multiscale simulations in which different subsystems are treated by individual client programs. In this work, we present a new interface with OpenMM to be used as an MM client program and we demonstrate its efficiency for QM/MM MD simulations. Apart from its high performance, especially on GPUs, and a wide selection of features, OpenMM is a highly-flexible and easily-extensible program, ideal for the development of novel multiscale methods. Thanks to the open-ended design of MiMiC, the OpenMM-MiMiC interface will automatically support any new QM client program interfaced with MiMiC for QM/MM and, with minimal changes needed, new multiscale methods implemented, opening up new research directions beyond electrostatic embedding QM/MM.

physics.chem-ph↗

arXiv2024

MiMiC: A High-Performance Framework for Multiscale Molecular Dynamics Simulations

MiMiC is a framework for performing multiscale simulations in which loosely coupled external programs describe individual subsystems at different resolutions and levels of theory. To make it highly efficient and flexible, we adopt an interoperable approach based on a multiple-program multiple-data (MPMD) paradigm, serving as an intermediary responsible for fast data exchange and interactions between the subsystems. The main goal of MiMiC is to avoid interfering with the underlying parallelization of the external programs, including the operability on hybrid architectures (e.g., CPU/GPU), and keep their setup and execution as close as possible to the original. At the moment, MiMiC offers an efficient implementation of electrostatic embedding QM/MM that has demonstrated unprecedented parallel scaling in simulations of large biomolecules using CPMD and GROMACS as QM and MM engines, respectively. However, as it is designed for high flexibility with general multiscale models in mind, it can be straightforwardly extended beyond QM/MM. In this article, we illustrate the software design and the features of the framework, which make it a compelling choice for multiscale simulations in the upcoming era of exascale high-performance computing.

physics.chem-ph↗

arXiv2020

Ground State of the Fe(II)-porphyrin Model System Corresponds to the Quintet State: A DFT and DMRG-based Tailored CC Study

Fe(II)-porphyrins (FeP) play an important role in many reactions relevant to material science and biological processes, due to their closely lying spin states. However, this small energetic separation also makes it challenging to establish the correct spin state ordering. Although the prevalent opinion is that these systems posses the triplet ground state, the recent experiment on Fe(II)-phthalocyanine under conditions matching those of an isolated molecule points toward the quintet ground state. We present a thorough study of FeP model by means of the density functional theory and density matrix renormalization group based tailored coupled clusters, in which we address all previously discussed correlation effects. We examine the importance of geometrical parameters, the Fe-N distances in particular, and conclude that the system possesses the quintet ground state, which is in our calculations well-separated from the triplet state.

physics.chem-ph↗

arXiv2020

Near-linear Scaling in DMRG-based Tailored Coupled Clusters: An Implementation of DLPNO-TCCSD and DLPNO-TCCSD(T)

We present a new implementation of DMRG-based tailored coupled clusters method (TCCSD), which employs the domain-based local pair natural orbital approach (DLPNO-TCCSD). Compared to the previous LPNO version of the method, the new implementation is more accurate, offers more favorable scaling and provides more consistent behavior across the variety of systems. On top of the singles and doubles, we include the perturbative triples correction (T), which is able to retrieve even more dynamic correlation. The methods were tested on three systems: tetramethyleneethane, oxo-Mn(Salen) and Iron(II)-porphyrin model. The first two were revisited to assess the performance with respect to LPNO-TCCSD. For oxo-Mn(Salen), we retrieved between 99.8-99.9% of the total canonical correlation energy which is the improvement of 0.2% over the LPNO version in less than 63% of the total LPNO runtime. Similar results were obtained for Iron(II)-porphyrin. When the perturbative triples correction was employed, irrespective of the active space size or system, the obtained energy differences between two spin states were within the chemical accuracy of 1 kcal/mol using the default DLPNO settings.

physics.chem-ph↗

arXiv2019

Towards the Efficient Local Tailored Coupled Cluster Approximation and the Peculiar Case of Oxo-Mn(Salen)

We introduce a new implementation of the coupled cluster method tailored by matrix product states wave functions (DMRG-TCCSD), which employs the local pair natural orbital approach (LPNO). By exploiting locality in the coupled cluster stage of the calculation, we were able to remove some of the limitations that hindered the application of the canonical version of the method to larger systems and/or with larger basis sets. We assessed the accuracy of the approximation using two systems: tetramethyleneethane (TME) and oxo-Mn(Salen). Using the default cut-off parameters, we were able to recover over 99.7% and 99.8% of canonical correlation energy for the triplet and singlet state of TME respectively. In case of oxo-Mn(Salen), we found out that the amount of retrieved canonical correlation energy depends on the size of the active space (CAS) - we retrieved over 99.6% for the larger 27 orbital CAS and over 99.8% for the smaller 22 orbital CAS. The use of LPNO-TCCSD allowed us to perform these calculations up to quadruple-$ζ$ basis set amounting to 1178 basis functions. Moreover, we examined dependance of the ground state of oxo-Mn(Salen) on CAS composition. We found out that the inclusion of 4d$_{xy}$ orbital plays an important role in stabilizing the singlet state at the DMRG-CASSCF level via double-shell effect. However, by including dynamic correlation the ground state was found to be triplet regardless of the size of the basis set or composition of CAS, which is in agreement with previous findings by canonical DMRG-TCCSD in smaller basis.

physics.chem-ph↗

arXiv2018

Full configuration interaction quantum Monte Carlo benchmark and multireference coupled cluster studies of tetramethyleneethane diradical

We have performed a FCI-quality benchmark calculation for the tetramethyleneethane molecule in cc-pVTZ basis set employing a subset of CASPT2(6,6) natural orbitals for the FCIQMC calculation. The results are in an excellent agreement with the previous large scale diffusion Monte Carlo calculations by Pozun et al. and available experimental results. Our computations verified that there is a maximum on PES of the ground singlet state ($^1\text{A}$) $45^{\circ}$ torsional angle and the corresponding vertical singlet-triplet energy gap is $0.01$ eV. We have employed this benchmark for assessment of the accuracy of MkCCSDT and DMRG-tailored CCSD (TCCSD) methods. MR MkCCSDT with CAS(2,2) model space, though giving good values for the singlet-triplet energy gap, is not able to properly describe the shape of the multireference singlet PES. Similarly, DMRG(24,25) is not able to correctly capture the shape of the singlet surface, due to the missing dynamic correlation. On the other hand, the DMRG-tailored CCSD method describes the shape of the ground singlet state with an excellent accuracy, but for the correct ordering requires computation of the zero-spin-projection component of the triplet state ($^3\text{B}_1$).

physics.chem-ph↗

arXiv2016

Coupled cluster method with single and double excitations tailored by matrix product state wave functions

In the last decade, the quantum chemical version of the density matrix renormalization group (DMRG) method has established itself as the method of choice for calculations of strongly correlated molecular systems. Despite its favourable scaling, it is in practice not suitable for computations of dynamic correlation. We present a novel method for accurate "post-DMRG" treatment of dynamic correlation based on the tailored coupled cluster (CC) theory in which the DMRG method is responsible for the proper description of non-dynamic correlation, whereas dynamic correlation is incorporated through the framework of the CC theory. We illustrate the potential of this method on prominent multireference systems, in particular N$_2$, Cr$_2$ molecules and also oxo-Mn(Salen) for which we have performed the first "post-DMRG" computations in order to shed light on the energy ordering of the lowest spin states.

physics.chem-ph↗