arXiv subjects

Daniel Hollas

Publications and source records attributed to Daniel Hollas.

9 recordsLinked to original sources

arXiv2026

Perspective on a challenge: predicting the photochemistry of cyclobutanone

This Perspective is part of a Special Topic that explored the maturity of nonadiabatic molecular dynamics for predicting photochemical processes. In 2023, a prediction challenge was issued to the community of computational photochemists to simulate the photochemistry of cyclobutanone, photoexcited at 200 nm, and the resulting time-resolved MeV-UED signal. The challenge attracted 15 theoretical predictions from more than 70 researchers, employing a wide range of strategies for electronic structure and nonadiabatic molecular dynamics to predict the time-resolved MeV-UED signal before the experiment had been conducted at SLAC (Stanford, USA). The MeV-UED instrument at Shanghai Jiao Tong University was also used to provide a second independent time-resolved MeV-UED signal for the photochemistry of cyclobutanone. This Perspective discusses the various approaches and strategies used by the participants to predict the photochemistry of cyclobutanone. This work also summarizes the strengths and weaknesses of various methods used for photoexcitation, electronic structure, nonadiabatic dynamics, and calculation of observables, as agreed by the participants during a CECAM workshop dedicated to the results of the challenge and organized in Lausanne in April 2025. This Perspective also collects all the predicted time-resolved MeV-UED signals into a single figure, together with the experimental signal. This challenge (i) demonstrated the qualitative predictive power of nonadiabatic molecular dynamics and (ii) underscore the impact of electronic-structure theory on the outcome of the excited-state dynamics and the need for its careful benchmarking. This effort allowed the community to share practical strategies to perform nonadiabatic dynamics (discussed in the present Perspective) and constitutes a 'calibration' exercise for computational photochemistry.

physics.chem-ph↗

arXiv2025

Accelerating discovery across scientific disciplines through reproducible workflows with AiiDAlab

With ever-increasing computational capabilities, robust and automated research workflows have become essential for orchestrating large numbers of interdependent simulations. However, significant technical expertise is still required to configure execution environments, define calculation inputs, interpret outputs, and manage the complexity of parallel code execution on remote machines. To address these challenges, we developed AiiDAlab, a Jupyter-based web platform powered by the AiiDA computational infrastructure that provides a framework for managing and automating computational workflows while ensuring reproducibility through full provenance tracking. Through a collection of open-source user-friendly applications, AiiDAlab enables scientists to set up, execute, and analyze complex computational workflows without interacting directly with the underlying technical details, allowing them to focus on their research questions. In this paper, we discuss how AiiDAlab has matured over the past few years, expanding beyond computational materials science and its AiiDA origins. We present recent developments towards integrating with electronic laboratory notebooks (ELNs) for FAIR-compliant data management, adoption in large-scale facilities for secure access to experimental data and analytical tools, and applications in educational settings. Together with community-driven efforts to simplify onboarding, improve access to computational resources, and support large-scale data workflows, these advancements position AiiDAlab as a powerful platform for accelerating scientific discovery and fostering collaboration across disciplines.

cs.DC↗

arXiv2025

eT 2.0: An efficient open-source molecular electronic structure program

The eT program is an open-source electronic structure program with emphasis on performance and modularity. As its name suggests, the program features extensive coupled cluster capabilities, performing well compared to other electronic structure programs, and, in some cases, outperforming commercial alternatives. However, eT is more than a coupled cluster program; other models based on wave function theory (such as full and reduced space configuration interaction and a variety of self-consistent field models) and density functional theory are supported. The second major release of the program, eT 2.0, has specialized functionality for strong light-matter coupling conditions. In addition, it includes a wide range of optimizations and algorithmic improvements, as well as new capabilities for exploring potential energy surfaces and for modeling experiments in the UV and X-ray regimes. Molecular gradients are now available at the coupled cluster level, and high-accuracy spectroscopic simulations are available at reduced computational cost within the multilevel coupled cluster and multiscale frameworks. We present the modifications to the program since its first major release, eT 1.0, highlighting some notable new features and demonstrating the performance of the new version relative to the first release and to other established electronic structure programs.

physics.chem-ph↗

arXiv2025

Best practices for nonadiabatic molecular dynamics simulations

Nonadiabatic molecular dynamics simulations aim to describe the coupled electron-nuclear dynamics of molecules in excited electronic states. These simulations have been applied to understand a plethora of photochemical and photophysical processes, and, as a result, the number of nonadiabatic dynamics simulations has been growing significantly over the past decade. Yet, the field remains in its infancy, and a potential user may find it difficult to approach this type of simulation, given their complexity and the number of elements that should be considered for a (hopefully) successful nonadiabatic dynamics simulation. Nonadiabatic molecular dynamics relies on several key steps: finding a level of electronic-structure theory to describe the molecule in its Franck-Condon region and beyond, describing the photoexcitation process, selecting a method to perform the nonadiabatic dynamics, and analyzing the final results before calculating observables for a more direct comparison with experiment. This Best Practices guide aims to provide a general guide for the user of nonadiabatic molecular dynamics by (i) discussing the fundamentals of nonadiabatic molecular dynamics and the various trajectory-based methods developed for molecular systems, (ii) introducing the different electronic-structure methods and concepts - adiabatic/diabatic representation, conical intersections - that can be used with nonadiabatic molecular dynamics (or for benchmarking), (iii) providing details on the various steps required to perform a nonadiabatic dynamics simulation and their practical use, as well as guided examples and a discussion on the calculation of observables, (iv) proposing a FAQ with the typical questions a user may have when performing nonadiabatic dynamics, and (v) sketching a checklist for the key practical steps when performing a (trajectory-based) nonadiabatic molecular dynamics.

physics.chem-ph↗

arXiv2025

Benchmarking electronic-structure methods for the description of dark transitions in carbonyls at and beyond the Franck-Condon point

Herein, we propose a comprehensive benchmark of electronic-structure methods to describe dark transitions, that is, transitions to excited electronic states characterized by a near-zero oscillator strength. This type of electronic state is particularly important for the photochemistry of molecules containing carbonyl groups, such as atmospheric volatile organic compounds (VOCs). The oscillator strength characterizing a dark transition can change dramatically by a slight alteration of the molecular geometry around its ground-state equilibrium, the so-called non-Condon effects. Hence, testing the performance of electronic-structure methods for dark transitions requires considering molecules at their Franck-Condon point (i.e., equilibrium geometry), but also beyond the Franck-Condon point. Our benchmark focuses on various electronic-structure methods - LR-TDDFT(/TDA), ADC(2), CC2, EOM-CCSD, CC2/3, XMS-CASPT2 - with CC3/aug-cc-pVTZ serving as a theoretical best estimate. These techniques are tested against a set of 16 carbonyl-containing VOCs at their equilibrium geometry. We then assess the performance of these methods to describe the dark transition of acetaldehyde beyond its Franck-Condon point by (i) distorting the molecule towards its S$_1$ minimum energy structure and (ii) sampling an approximate ground-state quantum distribution for the molecule and calculating photoabsorption cross-sections within the nuclear ensemble approach. Based on the calculated cross-sections, we calculate the photolysis half-life as depicted by the different electronic-structure methods - highlighting the impact of the different electronic-structure methods on predicted experimental photolysis observables.

physics.chem-ph↗

arXiv2025

Making atomistic materials calculations accessible with the AiiDAlab Quantum ESPRESSO app

Despite the wide availability of density functional theory (DFT) codes, their adoption by the broader materials science community remains limited due to challenges such as software installation, input preparation, high-performance computing setup, and output analysis. To overcome these barriers, we introduce the Quantum ESPRESSO app, an intuitive, web-based platform built on AiiDAlab that integrates user-friendly graphical interfaces with automated DFT workflows. The app employs a modular Input-Process-Output model and a plugin-based architecture, providing predefined computational protocols, automated error handling, and interactive results visualization. We demonstrate the app's capabilities through plugins for electronic band structures, projected density of states, phonon, infrared/Raman, X-ray and muon spectroscopies, Hubbard parameters (DFT+$U$+$V$), Wannier functions, and post-processing tools. By extending the FAIR principles to simulations, workflows, and analyses, the app enhances the accessibility and reproducibility of advanced DFT calculations and provides a general template to interface with other first-principles calculation codes.

cond-mat.mtrl-sci↗

arXiv2024

AtmoSpec -- A Tool to Calculate Photoabsorption Cross-Sections for Atmospheric Volatile Organic Compounds

Characterizing the photolysis processes undergone by transient volatile organic compounds in the troposphere requires the knowledge of their photoabsorption cross-section - quantities often challenging to determine experimentally, particularly due to the reactivity of these molecules. We present a computational tool coined AtmoSpec, which can predict a quantitative photoabsorption cross-section for volatile organic compounds by using computational photochemistry. The user enters the molecule of interest as a SMILES code and, after selecting a level of theory for the electronic structure (and waiting for the calculations to take place), is presented with a photoabsorption cross-section for the low-energy conformers and an estimate of the photolysis rate coefficient for different standardized actinic fluxes. More specifically, AtmoSpec is an automated workflow for the nuclear ensemble approach, an efficient technique to approximate the absolute intensities and excitation wavelengths of a photoabsorption cross-section for a molecule in the gas phase. This work provides background information on the nuclear ensemble approach, a guided example of a typical AtmoSpec calculation, details about the architecture of the code, and the current limitations and future developments of this tool.

physics.chem-ph↗

arXiv2024

Predicting the photodynamics of cyclobutanone triggered by a laser pulse at 200 nm and its MeV-UED signals -- a trajectory surface hopping and XMS-CASPT2 perspective

This work is part of a prediction challenge that invited theoretical/computational chemists to predict the photochemistry of cyclobutanone in the gas phase, excited at 200 nm by a laser pulse, and the expected signal that will be recorded during a time-resolved megaelectronvolt ultrafast electron diffraction (MeV-UED). We present here our theoretical predictions based on a combination of trajectory surface hopping with XMS-CASPT2 (for the nonadiabatic molecular dynamics) and Born-Oppenheimer molecular dynamics (BOMD) with MP2 (for the athermal ground-state dynamics following internal conversion), coined (NA+BO)MD. The initial conditions were sampled from BOMD coupled to a quantum thermostat. Our simulations indicate that the main photoproducts after 2 ps of dynamics are CO + cyclopropane (50%), CO + propene (10%), and ethene and ketene (34%). The photoexcited cyclobutanone in its second excited electronic state S$_2$ can follow two pathways for its nonradiative decay: (i) a ring-opening in S$_2$ and a subsequent rapid decay to the ground electronic state, where the photoproducts are formed, or (ii) a transfer through a closed-ring conical intersection to S$_1$, where cyclobutanone ring opens and then funnels to the ground state. Lifetimes for the photoproduct and electronic populations were determined. We calculated a stationary MeV-UED signal [difference pair distribution function - $\Delta$PDF$(r)$] for each (interpolated) pathway as well as a time-resolved signal [$\Delta$PDF$(r,t)$ and $\Delta I/I(s,t)$] for the full swarm of (NA+BO)MD trajectories. Furthermore, our analysis provides time-independent basis functions that can be used to fit the time-dependent experimental UED signals and potentially recover the population of photoproducts. We also offer a detailed analysis of the limitations of our model and their potential impact on the predicted experimental signals.

physics.chem-ph↗

arXiv2023

Deciphering the Influence of Ground-State Distributions on the Calculation of Photolysis Observables

Nonadiabatic molecular dynamics offers a powerful tool for studying the photochemistry of molecular systems. Key to any nonadiabatic molecular dynamics simulation is the definition of its initial conditions, ideally representing the initial molecular quantum state of the system of interest. In this work, we provide a detailed analysis of how initial conditions may influence the calculation of experimental observables by focusing on the photochemistry of methylhydroperoxide, the simplest and most abundant organic peroxide in our atmosphere. We investigate the outcome of trajectory surface hopping simulations for distinct sets of initial conditions sampled from different approximate quantum distributions, namely harmonic Wigner functions and ab initio molecular dynamics using a quantum thermostat. Calculating photoabsorption cross-sections, quantum yields, and translational kinetic energy maps from the results of these simulations reveals the significant effect of the initial conditions, in particular when low-frequency (~ a few hundred cm-1) normal modes are connected to the photophysics of the molecule. Overall, our results indicate that sampling initial conditions from ab initio molecular dynamics using a quantum thermostat is preferable for flexible molecules with photoactive low-frequency modes. From a photochemical perspective, our nonadiabatic dynamics simulations offer an explanation for a low-energy tail observed at high excitation energy in the translational kinetic energy map of methylhydroperoxide.

physics.chem-ph↗