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DOE OSTI2024

Framework for custom event sample augmentations for ATLAS analysis data

For HEP event processing, data is typically stored in column-wise synchronized containers, such as most prominently ROOT’s TTree, which have been used for several decades to store by now over 1 exabyte. These containers can combine row-wise association capabilities needed by most HEP event processing frameworks (e.g. Athena for ATLAS) with column-wise storage, which typically results in better compression and more efficient support for many analysis use-cases. One disadvantage is that these containers, TTree in the HEP use-case, require to contain the same attributes for each entry/row (representing events), which can make extending the list of attributes very costly in storage, even if those are only required for a small subsample of events. Since the initial design, the ATLAS software framework features powerful navigational infrastructure to allow storing custom data extensions for subsamples of events in separate, but synchronized containers. This allows adding event augmentations to ATLAS standard data products (such as DAOD-PHYS or PHYSLITE) avoiding duplication of those core data products, while limiting their size increase. For this functionality, the framework does not rely on any associations made by the I/O technology (i.e. ROOT), however it supports TTree friends and builds the associated index to allow for analysis outside of the ATLAS framework. A prototype based on the Long-Lived Particle search is implemented and preliminary results with this prototype will be presented. At this point, augmented data are stored within the same file as the core data. Storing them in separate files will be investigated in future, as this could provide more flexibility, e.g. certain sites may only want a subset of several augmentations or augmentations can be archived to tape once their analysis is complete.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2025

The git based ATLAS data acquisition configuration service in LHC Run 3

The ATLAS experiment at the LHC at CERN uses a large, distributed trigger and data acquisition system composed of many computing nodes, networks, and hardware modules. Its configuration service is used to provide descriptions of control, monitoring, diagnostic, recovery, dataflow and data quality configurations, interconnections, and parameters for modules, chips, and channels of various online systems, detectors, and the whole ATLAS experiment. Those descriptions have historically been stored in more than one thousand interconnected XML files, which are updated by various experts many times per day. Maintaining error-free and consistent sets of such files and providing reliable and fast access to current and historical configurations is a major challenge. This paper gives details of the configuration service upgrade on the modern Git version control system backend for LHC Run 3 and its exploitation experience. It may be interesting for developers using human-readable file formats, where consistency of the files, performance, access control, traceability of modifications, and effective archiving are key requirements.

Soloviev, Igor [Univ. of California, Irvine, CA (U↗

DOE OSTI2025

dCache project status and update

The dCache project delivers an open-source, massively scalable, distributed storage system deployed internationally to satisfy today’s scientists’ ever-demanding storage requirements. Its multifaceted approach supports different use cases with the same storage, from high throughput data ingest, data sharing over wide area networks, efficient access from HPC clusters, and longterm data persistence on tertiary storage. Even though dCache was initially developed for HEP experiments, today, it is used by various scientific communities, including astrophysics, biomed, and life science, each with their specific requirements. To match the needs of these new communities and keep up with the scaling demands of existing experiments, dCache is permanently evolving. With this contribution, we would like to highlight the recent developments in dCache regarding integration with CERN Tape Archive (CTA), advanced metadata handling, token-based authorization support, bulk API for QoS transitions, REST API to control interaction with the tape system, and future development directions.

Mkrtchyan, Tigran [DESY]↗

DOE OSTI2020

Long short-term memory embedded nudging schemes for nonlinear data assimilation of geophysical flows

Reduced rank nonlinear filters are increasingly utilized in data assimilation of geophysical flows, but often require a set of ensemble forward simulations to estimate forecast covariance. On the other hand, predictor-corrector type nudging approaches are still attractive due to their simplicity of implementation when more complex methods need to be avoided. However, optimal estimate of nudging gain matrix might be cumbersome. In this paper, we put forth a fully nonintrusive recurrent neural network approach based on a long short-term memory (LSTM) embedding architecture to estimate the nudging term, which plays a role not only to force the state trajectories to the observations but also acts as a stabilizer. Furthermore, our approach relies on the power of archival data and the trained model can be retrained effectively due to power of transfer learning in any neural network applications. In order to verify the feasibility of the proposed approach, we perform twin experiments using Lorenz 96 system. Our results demonstrate that the proposed LSTM nudging approach yields more accurate estimates than both extended Kalman filter (EKF) and ensemble Kalman filter (EnKF) when only sparse observations are available. With the availability of emerging AI-friendly and modular hardware technologies and heterogeneous computing platforms, we articulate that our simplistic nudging framework turns out to be computationally more efficient than either the EKF or EnKF approaches.

42 ENGINEERING↗

DOE OSTI2021

Verification of a fully implicit particle-in-cell method for the  v ∥ -formalism of electromagnetic gyrokinetics in the XGC code

A fully implicit particle-in-cell method for handling the v ∥ -formalism of electromagnetic gyrokinetics has been implemented in XGC. By choosing the v ∥ -formalism, here we avoid introducing the nonphysical skin terms in Ampère's law, which are responsible for the well-known “cancellation problem” in the p ∥ -formalism. The v ∥ -formalism, however, is known to suffer from a numerical instability when explicit time integration schemes are used due to the appearance of a time derivative in the particle equations of motion from the inductive component of the electric field. Here, using the conventional δf scheme, we demonstrate that our implicitly discretized algorithm can provide numerically stable simulation results with accurate dispersive properties. We verify the algorithm using a test case for shear Alfvén wave propagation in addition to a case demonstrating the ion temperature gradient-kinetic ballooning mode (ITG-KBM) transition. The ITG-KBM transition case is compared to results obtained from other δf gyrokinetic codes/schemes, whose verification has already been archived in the literature.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2021

Quantum Chemistry Common Driver and Databases (QCDB) and Quantum Chemistry Engine (QCEngine): Automation and interoperability among computational chemistry programs

We report that community efforts in the computational molecular sciences (CMS) are evolving toward modular, open, and interoperable interfaces that work with existing community codes to provide more functionality and composability than could be achieved with a single program. The Quantum Chemistry Common Driver and Databases (QCDB) project provides such capability through an application programming interface (API) that facilitates interoperability across multiple quantum chemistry software packages. In tandem with the Molecular Sciences Software Institute and their Quantum Chemistry Archive ecosystem, the unique functionalities of several CMS programs are integrated, including CFOUR, GAMESS, NWChem, OpenMM, Psi4, Qcore, TeraChem, and Turbomole, to provide common computational functions, i.e., energy, gradient, and Hessian computations as well as molecular properties such as atomic charges and vibrational frequency analysis. Both standard users and power users benefit from adopting these APIs as they lower the language barrier of input styles and enable a standard layout of variables and data. These designs allow end-to-end interoperable programming of complex computations and provide best practices options by default.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2025

Computational toolkit for predicting thickness of 2D materials using machine learning and autogenerated dataset by large language model

The thickness of 2D materials not only plays a crucial role in determining the performance of nanoelectronic and optoelectronic devices but also introduces complexities in predicting volume-dependent properties, such as energy storage capacity, due to the intrinsic vacuum within these materials. Although a plethora of experimental techniques, including but not limited to optical contrast, Raman spectroscopy, nonlinear optical spectroscopy, near-field optical imaging, and hyperspectral imaging, facilitate the measurement of 2D material thickness, comprehensive data for many materials remain elusive. Over the past decade, the exponential proliferation of 2D materials and their heterostructures has outstripped the capabilities of conventional experimental and computational approaches. In this evolving landscape, machine learning (ML) has emerged as an indispensable tool, offering a scalable approach to augment these traditional methodologies. Addressing the critical gap, we introduce THICK2D—Thickness Hierarchy Inference and Calculation Kit for 2D Materials. This Python-based computational framework harnesses an autogenerated thickness database, developed using large language models, and advanced ML algorithms to facilitate the rapid and scalable estimation of material thickness, relying solely on crystallographic data. To demonstrate the utility and robustness of THICK2D, we successfully used the toolkit to predict the thickness of more than 8000 2D-based materials, sourced from two extensive 2D materials databases. THICK2D is disseminated as an open-source utility, accessible on GitHub at https://github.com/gmp007/THICK2D, and archived on Zenodo at https://10.5281/zenodo.11216648.

Ekuma, Chinedu E. (ORCID:0000000258527556)↗

DOE OSTI2025

Using system identification in modeling the yaw response of tail fins for small wind turbines with bearing friction

Here, we describe three main developments of our previous study of the nonlinear yaw dynamics of the tail fins for small wind turbines [Khedr et al., J. Renewable Sustainable Energy 16, 053305 (2024)]. First, the model constants derived from archived computational and experimental studies are adjusted by employing system identification (SI) to maximize the model's agreement with wind tunnel tests. This adjustment was done for high wind speeds, where yaw bearing friction can be ignored. When starting a turbine at low wind speed, however, friction can become important. Our second development is to implement a model for the frictional resistive torque and use SI to maximize its accuracy. These developments used wind tunnel experiments on generic delta, elliptical, and rectangular planforms that were described by Khedr et al. [J. Renewable Sustainable Energy 16, 053305 (2024)]. Since the aerodynamic and friction models employ a large number of constants, we describe ways to constrain the values using linearized solutions of the response equations for small and large yaw angles. Third, we test the generality of the aerodynamic and friction modeling using the complex planform from a commercial small turbine, for which limited theoretical and computational guidance is available in selecting the model constants. The model implemented with SI is shown to provide an accurate description of the yaw response of the complex planform. Guidelines are given for the use of wind tunnel tests to determine the model constants for tail fins of any planform.

17 WIND ENERGY↗

DOE OSTI2020

Massive formation of early diagenetic dolomite in the Ediacaran ocean: Constraints on the “dolomite problem”

Paleozoic and Precambrian sedimentary successions frequently contain massive dolomicrite [CaMg(CO 3 ) 2 ] units despite kinetic inhibitions to nucleation and precipitation of dolomite at Earth surface temperatures (<60 °C). This paradoxical observation is known as the “dolomite problem.” Accordingly, the genesis of these dolostones is usually attributed to burial–hydrothermal dolomitization of primary limestones (CaCO 3 ) at temperatures of >100 °C, thus raising doubt about the validity of these deposits as archives of Earth surface environments. We present a high-resolution, >63-My-long clumped-isotope temperature (T Δ47 ) record of shallow-marine dolomicrites from two drillcores of the Ediacaran (635 to 541 Ma) Doushantuo Formation in South China. Our T ∆47 record indicates that a majority (87%) of these dolostones formed at temperatures of <100 °C. When considering the regional thermal history, modeling of the influence of solid-state reordering on our T Δ47 record further suggests that most of the studied dolostones formed at temperatures of <60 °C, providing direct evidence of a low-temperature origin of these dolostones. Furthermore, calculated δ 18 O values of diagenetic fluids, rare earth element plus yttrium compositions, and petrographic observations of these dolostones are consistent with an early diagenetic origin in a rock-buffered environment. We thus propose that a precursor precipitate from seawater was subsequently dolomitized during early diagenesis in a near-surface setting to produce the large volume of dolostones in the Doushantuo Formation. Our findings suggest that the preponderance of dolomite in Paleozoic and Precambrian deposits likely reflects oceanic conditions specific to those eras and that dolostones can be faithful recorders of environmental conditions in the early oceans.

58 GEOSCIENCES↗

DOE OSTI2022

Twenty-first century hydroclimate: A continually changing baseline, with more frequent extremes

Variability in hydroclimate impacts natural and human systems worldwide. In particular, both decadal variability and extreme precipitation events have substantial effects and are anticipated to be strongly influenced by climate change. From a practical perspective, these impacts will be felt relative to the continuously evolving background climate. Removing the underlying forced trend is therefore necessary to assess the relative impacts, but to date, the small size of most climate model ensembles has made it difficult to do this. Here we use an archive of large ensembles run under a high-emissions scenario to determine how decadal “megadrought” and “megapluvial” events—and shorter-term precipitation extremes—will vary relative to that changing baseline. When the trend is retained, mean state changes dominate: In fact, soil moisture changes are so large in some regions that conditions that would be considered a megadrought or pluvial event today are projected to become average. Time-of-emergence calculations suggest that in some regions including Europe and western North America, this shift may have already taken place and could be imminent elsewhere: Emergence of drought/pluvial conditions occurs over 61% of the global land surface (excluding Antarctica) by 2080. Relative to the changing baseline, megadrought/megapluvial risk either will not change or is slightly reduced. However, the increased frequency and intensity of both extreme wet and dry precipitation events will likely present adaptation challenges beyond anything currently experienced. In many regions, resilience against future hazards will require adapting to an ever-changing “normal,” characterized by unprecedented aridification/wetting punctuated by more severe extremes.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2022

Biogeochemical fingerprinting of magnetotactic bacterial magnetite

Biominerals are important archives of the presence of life and environmental processes in the geological record. However, ascribing a clear biogenic nature to minerals with nanometer-sized dimensions has proven challenging. Identifying hallmark features of biologically controlled mineralization is particularly important for the case of magnetite crystals, resembling those produced by magnetotactic bacteria (MTB), which have been used as evidence of early prokaryotic life on Earth and in meteorites. In this work, we show that magnetite produced by MTB displays a clear coupled C–N signal that is absent in abiogenic and/or biomimetic (protein-mediated) nanometer-sized magnetite. We attribute the presence of this signal to intracrystalline organic components associated with proteins involved in magnetosome formation by MTB. These results demonstrate that we can assign a biogenic origin to nanometer-sized magnetite crystals, and potentially other biominerals of similar dimensions, using unique geochemical signatures directly measured at the nanoscale. This finding is significant for searching for the earliest presence of life in the Earth’s geological record and prokaryotic life on other planets.

58 GEOSCIENCES↗

DOE OSTI2022

A New Integrated Analysis Suite for Fast-Ion Study in KSTAR

Here, an integrated workflow for fast-ion analysis was developed by adapting the One Modeling Framework for Integrated Task (OMFIT) workflow manager to support a standard and unified analysis platform for KSTAR users. The newly established analysis suite offers a graphical user interface–based workflow to enable users to readily access and handle experimental data archived in various data formats and servers. Further, users can analyze the data by importing modules designed for conducting certain tasks, such as profile fitting, equilibrium reconstruction, and postprocessing of tokamak data. The procedures for preparing the inputs for fast-ion simulations are streamlined by a common workflow manager, which enables the parallel processing of various tasks to efficiently analyze large fast-ion datasets. The OMFIT platform comprises a flexible Python-based application that enables users to freely manipulate the Python scripts for applications that are unavailable in the standard workflow. The framework also offers mapping tools to translate the output data into the Integrated Modeling and Analysis Suite format to maintain application compatibility for future ITER burning plasma experiments.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2025

Implementation of the D1S Methodology for Shutdown Dose Rate Calculations in the OpenMC Monte Carlo Particle Transport Code

We present an implementation of the direct one-step (D1S) methodology for shutdown dose rate (SDR) calculations in the OpenMC Monte Carlo particle transport code. In addition to being the first fully open-source D1S implementation, it is also the first to require no ad hoc source code or nuclear data library modifications. The code can seamlessly switch between production of prompt and decay photons based on a user input parameter, and the decay data needed for decay photon generation are made available through a depletion chain file, which is already used for OpenMC’s built-in depletion/activation solver. A set of Python functions significantly eases the burden of computing and applying time correction factors needed to properly account for the time dependence of radionuclide activity. To assess the accuracy of the D1S implementation, SDR calculations have been carried out for three problems: a prism of iron irradiated by 14-MeV neutrons, the ITER port plug computational benchmark, and the Frascati Neutron Generator (FNG) ITER dose rate benchmark problem from the Shielding INtegral Benchmark Archive and Database (SINBAD). For each of these problems, comparisons were made to calculations using the rigorous two-step (R2S) method. The results on the iron prism problem illustrate how the D1S method achieves superior spatial resolution compared to the R2S method without the need for spatial discretization of the activation regions. The D1S and R2S results for the ITER port plug benchmark agree well with previously reported results in the literature. While the D1S results are 10% to 15% lower than the R2S results, this may be due to stochastic uncertainty and/or spatial discretization in the R2S calculations. On the FNG dose rate benchmark problem, the D1S method produces dose rate estimates that are within 4% of the dose rates predicted using a cell-based R2S workflow. The D1S estimates of the SDR are also in reasonable agreement with the experimental measurements and show the same basic trends that have been observed in previous works. A qualitative analysis of the execution time and uncertainty for the R2S and D1S workflows suggests that the D1S method would attain a higher figure of merit.

D1S method↗

DOE OSTI2023

HPC-driven computational reproducibility in numerical relativity codes: a use case study with IllinoisGRMHD

Abstract Reproducibility of results is a cornerstone of the scientific method. Scientific computing encounters two challenges when aiming for this goal. Firstly, reproducibility should not depend on details of the runtime environment, such as the compiler version or computing environment, so results are verifiable by third-parties. Secondly, different versions of software code executed in the same runtime environment should produceconsistent numerical results for physical quantities. In this manuscript, we test the feasibility of reproducing scientific results obtained using theIllinoisGRMHDcode that is part of an open-source community software for simulation in relativistic astrophysics, theEinstein Toolkit. We verify that numerical results of simulating a single isolated neutron star withIllinoisGRMHDcan be reproduced, and compare them to results reported by the code authors in 2015. We use two different supercomputers: Expanse at SDSC, and Stampede2 at TACC. By compiling the source code archived along with the paper on both Expanse and Stampede2, we find thatIllinoisGRMHDreproduces results published in its announcement paper up to errors comparable to round-off level changes in initial data parameters. We also verify that a current version ofIllinoisGRMHDreproduces these results once we account for bug fixes which have occurred since the original publication.

Astronomy & Astrophysics↗

DOE OSTI2023

Reconstructed lung doses for the million person study cohort of 26,650 Tennessee Eastman corporation workers employed between 1942 and 1947

Abstract Tennessee Eastman Corporation workers were exposed to uranium dust resulting in high-linear energy transfer (LET) irradiation to lung tissue. In this work, radiation lung doses were reconstructed for 26 650 men and women working at the plant between 1942 and 1947. Site air monitoring data of uranium concentrations and payroll records were used to determine the daily inhaled activities and annualized lung doses. Variations in the activity median aerodynamic diameter of the uranium dust, the solubility of particulate matter in the lungs and the sex-specific breathing rate were investigated as part of a sensitivity analysis. Male and female mean lung doses of 18.9 and 32.7 mGy, respectively, from high-LET alpha irradiation, and there was general agreement with evaluations from previously published epidemiological studies. Annual lung dose estimates and sensitivity analysis for the 26 650 workers in the TEC cohort have been archived on the United States Department of Energy Comprehensive Epidemiologic Data Resource.

61 RADIATION PROTECTION AND DOSIMETRY↗

DOE OSTI2020

The Atacama Cosmology Telescope: DR4 maps and cosmological parameters

In this paper, we present new arcminute-resolution maps of the Cosmic Microwave Background temperature and polarization anisotropy from the Atacama Cosmology Telescope, using data taken from 2013–2016 at 98 and 150 GHz. The maps cover more than 17,000 deg 2 , the deepest 600 deg 2 with noise levels below 10µK-arcmin. We use the power spectrum derived from almost 6,000 deg 2 of these maps to constrain cosmology. The ACT data enable a measurement of the angular scale of features in both the divergence-like polarization and the temperature anisotropy, tracing both the velocity and density at last-scattering. From these one can derive the distance to the last-scattering surface and thus infer the local expansion rate, H 0 . By combining ACT data with large-scale information from WMAP we measure H 0 = 67.6±1.1 km/s/Mpc, at 68% confidence, in excellent agreement with the independently-measured Planck satellite estimate (from ACT alone we find H 0 = 67.9 ± 1.5 km/s/Mpc). The ΛCDM model provides a good fit to the ACT data, and we find no evidence for deviations: both the spatial curvature, and the departure from the standard lensing signal in the spectrum, are zero to within 1σ; the number of relativistic species, the primordial Helium fraction, and the running of the spectral index are consistent with ΛCDM predictions to within 1.5–2.2σ. We compare ACT, WMAP, and Planck at the parameter level and find good consistency; we investigate how the constraints on the correlated spectral index and baryon density parameters readjust when adding CMB large-scale information that ACT does not measure. The DR4 products presented here will be publicly released on the NASA Legacy Archive for Microwave Background Data Analysis.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2024

Searching for Exploding black holes

Abstract The observation of the final stages of the evaporation of a light black hole, which Hawking referred to as “black hole explosion”, would offer critical insights on quantum gravity and high-energy physics phenomena. Here, we explore, review, and revisit the observational features and rates expected for nearby, light, evaporating black holes, and we assess and compare the expected sensitivity of a broad range of observatories. We then focus on the search for candidate black hole explosions in archival data from the Fermi Large Area Telescope and Gamma-ray Burst Monitor, and outline possible future observational campaigns.

Astronomy & Astrophysics↗

DOE OSTI2023

Color Transformations of Photometric Measurements of Galaxies in Optical and Near-infrared Wide-field Imaging Surveys*

Abstract Over the past 2 decades, wide-field photometric surveys in optical and infrared domains reached a nearly all-sky coverage thanks to numerous observational facilities operating in both hemispheres. However, subtle differences among exact realizations of Johnson and SDSS photometric systems require one to convert photometric measurements into the same system prior to analysis of composite data sets originating from multiple surveys. It turns out that the published photometric transformations lead to substantial biases when applied to integrated photometry of galaxies from the corresponding catalogs. Here we present photometric transformations based on piece-wise linear approximations of integrated photometry of galaxies in the optical surveys SDSS, DECaLS, BASS, MzLS, DES, DELVE, KiDS, VST ATLAS, and the near-infrared surveys UKIDSS, UHS, VHS, and VIKING. We validate our transformations by constructing k -corrected color–magnitude diagrams of non-active galaxies and measuring the position and tightness of the “red sequence.” We also provide transformations for aperture magnitudes and show how they are affected by the image quality difference among the surveys. We present the implementation of the derived transformations in python and idl and also a web-based color transformation calculator for galaxies. By comparing DECaLS and DES, we identified systematic issues in DECaLS photometry for extended galaxies, which we attribute to the photometric software package used by DECaLS. As an application of our method, we compiled two multi-wavelength photometric catalogs for over 200,000 low- and intermediate-redshift galaxies originating from CfA FAST and Hectospec spectral archives.

Astronomy & Astrophysics↗