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At least 91 records · Page 5

AQDrop Quantum Service (AQDrop) v1.0

AQDrop is a job management system designed to streamline access to the Advanced Quantum Testbed (AQT) at NERSC (National Energy Research Scientific Computing Center). It serves as a centralized middleware layer between researchers and quantum processing hardware. Key Features: AQDrop provides a FastAPI-based server backed by PostgreSQL for job submission, queue management, and role-based access control (members, operators, and administrators). Users submit Qiskit circuits via JSON payloads, which are queued, dispatched to the QPU through the Qubic API, and returned as measurement counts. A Python client library and web dashboard round out the interface options. Primary Use: Researchers submit quantum circuit jobs from a laptop or login node; an operator client executes those jobs on the AQT's physical QPU and returns results — all coordinated through the central API. Advantages: Compared to ad-hoc or direct hardware access, AQDrop adds structured queue management, auditable job-status tracking and OAuth2 authentication — reducing scheduling conflicts and unauthorized access. Its containerized deployment also improves reproducibility and scalability. Overall, AQDrop functions as a purpose-built quantum job broker tailored to NERSC's specific hardware and institutional access requirements.

Caplinger, Evan [Lawrence Berkeley National Labora↗

IRMA

IRMA (In)elastic Representation of Materials As S(α,β) evaluations IRMA turns one phonon model into three outputs that usually require three separate tool chains: an evaluated nuclear-data file, predicted neutron-scattering spectra, and scattering kernels for Monte Carlo transport. The three outputs draw on a single, consistent description of the material, so the evaluation, the spectroscopy that can validate it, and the transport that uses it always agree about the physics. Nuclear data. IRMA writes ENDF-6 File 7 thermal scattering evaluations on automatically constructed (α, β) grids. This part reimplements and generalizes NJOY's LEAPR: the classic kernels reproduce freshly generated NJOY2016 tapes digit for digit and published reference tapes to about 1e-4, and the generalized paths add the exact coherent one-phonon term, anisotropic Debye-Waller tensors, coherent elastic for arbitrary crystals, and a per-species partition for polyatomic materials. The tapes feed NJOY, AMPX, FUDGE, and every transport code downstream of them. Neutron spectroscopy. The irma.spectra forward model projects the same physics onto an instrument's kinematics and resolution: INS spectra for VISION and generic indirect geometries, and 2-D S(Q,E) powder maps for direct-geometry spectrometers, from a phonopy model or straight from a phonon DOS. It can be used to predict a proposed measurement before beam time; in analysis, it supplies the calculated single-scattering counterpart of a measured spectrum, from the same material description the evaluation was built from. Monte Carlo transport. The irma.ncrystal exporter writes per-temperature scattering kernels for the companion NCrystal plugin, so McStas, OpenMC, and other NCrystal-aware codes sample the same physics. The exported kernels carry the per-site anisotropic Debye-Waller tensors, keeping directional coherent-elastic physics that NCrystal's standard scalar treatment does not represent. With the same physics inside a transport code, an entire beamline becomes a virtual experiment: IRMA's end-to-end validation ran a custom McStas implementation of the ARCS spectrometer, assembled from the existing McVine and McStas models, against measured data. From a bare crystal structure. The irma mlip front end builds the phonon model itself: a structure file and a choice of potential are enough. Nine pretrained machine-learned interatomic potentials are supported, on a laptop CPU, with no first-principles calculation; an approximate phonon model for a new material costs minutes, not a DFT campaign, and the build emits prefilled inputs for all three outputs. The result is a good starting point rather than a finished evaluation: survey-quality physics with every parameter exposed for review. A converged atomistic calculation enters the same way, as a phonopy model, when higher fidelity is needed.

Ramic, Kemal [Oak Ridge National Laboratory (ORNL)↗

Wet-Bulb Temperature from Pressure, Relative Humidity, and Air Temperature

Abstract The algorithms currently in use for calculating the wet-bulb temperature from pressure, relative humidity, and air temperature have errors of a degree or more. Here, the equation for the thermodynamic wet-bulb temperature is derived using the Rankine–Kirchhoff approximations, which are highly accurate for meteorological and climatological applications. Likewise, equations are derived for the thermodynamic ice-bulb temperature and for the psychrometric wet-bulb and ice-bulb temperatures. The equations are fast to solve, requiring only a microsecond on a current laptop computer, and the results match empirical data to within hundredths of a degree. Furthermore, the equations reveal the existence of air temperatures and humidities that generate bistability: Evaporating liquid water is stable at a liquid temperature above freezing and, simultaneously, sublimating ice is stable at an ice temperature below freezing.

Romps, David M↗

AMReX: Block-structured adaptive mesh refinement for multiphysics applications

Block-structured adaptive mesh refinement (AMR) provides the basis for the temporal and spatial discretization strategy for a number of Exascale Computing Project applications in the areas of accelerator design, additive manufacturing, astrophysics, combustion, cosmology, multiphase flow, and wind plant modeling. AMReX is a software framework that provides a unified infrastructure with the functionality needed for these and other AMR applications to be able to effectively and efficiently utilize machines from laptops to exascale architectures. AMR reduces the computational cost and memory footprint compared to a uniform mesh while preserving accurate descriptions of different physical processes in complex multiphysics algorithms. AMReX supports algorithms that solve systems of partial differential equations in simple or complex geometries and those that use particles and/or particle–mesh operations to represent component physical processes. In this article, we will discuss the core elements of the AMReX framework such as data containers and iterators as well as several specialized operations to meet the needs of the application projects. In addition, we will highlight the strategy that the AMReX team is pursuing to achieve highly performant code across a range of accelerator-based architectures for a variety of different applications.

Zhang, Weiqun↗

From 2D to 4D: a containerized workflow and browser to explore dynamic chromatin architecture

Background Characterizing the physical organization of the genome is essential for understanding long-range gene regulation, chromatin compartmentalization, and epigenetic accessibility. Hi-C experiments generate two-dimensional (2D) genome-wide contact maps of chromatin interactions by capturing the spatial proximity between genomic loci, which reveal interaction frequencies but lack the spatial resolution needed to interpret the three-dimensional (3D) genome structure(s). Emerging evidence suggests that epigenetic regulation is closely linked to 3D genome architecture, and that structural changes over time (4D) drive key biological processes in development, disease, and environmental response. Thus, integrating 3D structure with functional data is critical for a more complete understanding of genome regulation. Previous work, most notably the 4DHiC chromosome modeling framework, has shown that physical multi-dimensional modeling approaches rooted in polymer physics and molecular dynamics can resolve these structures at biologically meaningful resolutions by integrating temporal Hi-C data with physical constraints to uncover dynamic chromosome reorganization. Thus, molecular dynamics simulations, constrained by Hi-C contact matrices, can resolve fine-scale structural changes and reveal functionally significant transitions in chromatin conformation. Results Herein, we present the 4D Genome Browser Workflow (4DGBWorkflow) and the 4D Genome Browser (4DGB). The algorithm is based on the 4DHiC method, and the containerized tool is an end-to-end workflow that can transform, filter, and view 4D epigenomics and chromatin datasets, allowing non-specialists to apply three-dimensional modeling principles to diverse datasets and experimental conditions. The software executes on a laptop running macOS, Linux or Windows. From input Hi-C files (.hic), the 4DGBWorkflow produces 3D reconstructions of chromosomes, integrates the reconstruction with track data (e.g., epigenetic marks, transcriptome profiles), and provides comparative visualization of the results in a single workflow. Conclusions The 4DGBWorkflow and 4D Genome Browser are open-source tools for comparative analysis and visualization of 4D chromosome datasets, including chromatin architecture and epigenomic signals. Automatic integration of Hi-C data with molecular dynamics democratizes the construction of time resolved 3D genome structures, simplifying complex simulations and data integration schemes.

3D Genome Browser↗

Dataset for "A primer on forest structure measurement with lidar for ecologists"

This repository includes data and code accompanying the case study included in the manuscript "A primer on forest structure measurement with lidar for ecologists" (submitted to Ecosphere). We compiled lidar datasets from multiple platforms in a common area to: 1. Demonstrate how differences in sensor characteristics influence density and resolution of lidar data. 2. Provide open-source, co-located datasets for users to further inspect differences in lidar data. 3. Provide example code to perform basic lidar analysis. This case study is meant to allow readers to get hands-on experience with real-world data from different platforms. This case study is not meant to be a rigorous comparison of derived ecological metrics among all sensors; such comparisons can be found throughout other publications referenced throughout the main manuscript. Code includes basic functions in R commonly used to visualize and manipulate lidar data accessible with a normal laptop computer; more sophisticated algorithms for advanced users are also referenced throughout the main manuscript. Terrestrial laser scanning (TLS), mobile laser scanning (MLS), UAS laser scanning (ULS), airborne laser scanning (ALS), and spaceborne laser scanning (SLS) data were collected within the Smithsonian Environmental Research Center (SERC) forest dynamics plot in Maryland, USA. TLS, MLS, and ALS data were collected within 1 month of the 2021 growing season; ULS data were collected in November 2020 (“leaf-off” data) and July 2022 (“leaf-on” data).

54 ENVIRONMENTAL SCIENCES↗

Using Deep Learning to Derive Shear-Wave Velocity Models from Surface-Wave Dispersion Data

We present a new algorithm for derivations of 1D shear-wave velocity models from surface-wave dispersion data using convolutional neural networks (CNNs). The technique is applied for continental China and the plate boundary region in southern California. Different CNNs are designed for these two regions and are trained using theoretical Rayleigh-wave phase and group velocity images computed from reference 1D VS models. The methodology is tested with 3260 phase–group images for continental China and 4160 phase–group images for southern California. The conversions of these images to velocity profiles take ~23 s for continental China and ~30 s for southern California on a personal laptop with the NVIDIA GeForce GTX 1060 core and a memory of 6 GB. The results obtained by the CNNs show high correlation with previous studies using conventional methods. The effectiveness of the CNN technique makes this fast method an important alternative for deriving shear-wave velocity models from large datasets of surface-wave dispersion data.

Geochemistry & Geophysics↗

ParFlow Sand Tank: A tool for groundwater exploration

The ParFlow Sand Tank model is an open source application designed to allow users to interactively simulate and visualize groundwater movement through the subsurface. The app is designed for both research and education; teaching hydrogeology concepts and making it easy explore and run sophisticated groundwater simulations. Our goal is to support increased accessibility and usability of research grade hydrology tools for research and teaching. The Sand Tank application simulates groundwater and surface water fluxes as well as contaminant transport in real time using the integrated physical hydrology model ParFlow (Kollet & Maxwell, 2006; Maxwell & Miller, 2005; Osei-Kuffuor et al., 2014) and the particle tracking code EcoSlim (Maxwell et al., 2019). ParFlow is a numerical hydrology model that simulates spatially distributed groundwater and surface water flow. It is a well established research tool with more than 90 publications documenting its development use to advance our understanding of groundwater dynamics and groundwater surface water interactions from the hillslope to the continental scale e.g. (Condon et al., 2020; Condon & Maxwell, 2019; Maxwell & Condon, 2016). It is designed for efficient parallel computation and has been run on many platforms spanning from laptops to supercomputers. However, one of the challenges of ParFlow is that it requires significant training and hydrologic expertise to develop simulations. The Sand Tank application makes this model accessible to anyone for education and exploration. Our application uses ParFlow for its simulation backend and ParaView for the data loading and processing. The communication infrastructure relies on the ParaViewWeb framework. We use model templates deployed in Docker images to setup the Sand Tank framework. Users can build the application locally or interact with it through our web deployment. When interacting with a template users can interactively change model parameters like subsurface processes or pump/inject water into the subsurface and watch the system respond to their changes in real time as the simulation runs. Additionally, our template setup will allow more advanced users to build custom templates of increasing complexity for both research and educational purposes.

54 ENVIRONMENTAL SCIENCES↗

The Generalized Green’s function Cluster Expansion: A Python package for simulating polarons

We present an efficient implementation of the Generalized Green’s function Cluster Expansion (GGCE), which is a new method for computing the ground-state properties and dynamics of polarons (single electrons coupled to lattice vibrations) in model electron-phonon systems. The GGCE works at arbitrary temperature and is well suited for a variety of electron-phonon couplings, including, but not limited to, site and bond Holstein and Peierls (Su-SchriefferHeeger) couplings, and couplings to multiple phonon modes with different energy scales and coupling strengths. Quick calculations can be performed efficiently on a laptop using solvers from NumPy and SciPy, or in parallel at scale using the PETSc sparse linear solver engine.

36 MATERIALS SCIENCE↗

libEnsemble: A complete Python toolkit for dynamic ensembles of calculations

Almost all science and engineering applications eventually stop scaling: their runtime no longer decreases as available computational resources increase. Therefore, many applications will struggle to efficiently use emerging extreme-scale high-performance, parallel, and distributed systems. libEnsemble is a complete Python toolkit and workflow system for intelligently driving ensembles of experiments or simulations at massive scales. It enables and encourages multidisciplinary design, decision, and inference studies portably running on laptops, clusters, and supercomputers.

97 MATHEMATICS AND COMPUTING↗

DeepHyper: A Python Package for Massively Parallel Hyperparameter Optimization in Machine Learning

Machine learning models are increasingly applied across scientific disciplines, yet their effectiveness often hinges on heuristic decisions—such as data transformations, training strategies, and model architectures—that are not learned by the models themselves. Automating the selection of these heuristics and analyzing their sensitivity is crucial for building robust and efficient learning workflows. DeepHyper addresses this challenge by democratizing hyperparameter optimization, providing accessible tools to streamline and enhance machine learning workflows from a laptop to the largest supercomputer in the world. Building on top of hyperparameter optimization, it unlocks new capabilities around ensembles of models for improved accuracy and uncertainty quantification. All of these organized around efficient parallel computing.

ensemble↗

Side Channel Considerations for AES Intermediate Rounds

We illustrate a theoretical side-channel analysis on the intermediate rounds of AES, using only the Hamming weights of the bytes registered after the S-box operation. Input and output state values are unknown. Simulations and a blind test were used to show the feasibility of the analysis under ideal conditions. General applicability of the idea and possible extensions are discussed, as well as limiting assumptions. Some implementation approaches are described in Appendix A, in the case of constrained computing capabilities (desktop or laptop).

97 MATHEMATICS AND COMPUTING↗

Analysis of FFT Run-Times on LANL Computers

This paper gives results of a timing study for computing fast Fourier transforms (FFTs) on LANL based computing platforms. The platforms considered will be a node on Snow and a standard LANL HP laptop. The run-time for 1D FFTs will be measured for different sizes of data and the results are reported in FFTs/s.

97 MATHEMATICS AND COMPUTING↗

QUIC-Fire: 3D Fire-Atmosphere Feedback Model for Wildland Fire Management

Los Alamos National Laboratory, U.S. Forest Service, and Tall Timbers Research Station developed QUIC-Fire, the first laptop-capable, real-time wildland fire prediction software that captures the critical influences of 3D vegetation structure, interactions between multiple fires, variable winds, and complex topography at meter-scale resolutions. Prescribed burns are needed to prevent catastrophic wildfires in the U.S. QUIC-Fire transforms a prescribed fire manager’s ability to assess risk, optimize fuel treatments, and plan prescribed burns. Los Alamos, U.S. Forest Service, Tall Timbers Research Station, U.S. Fish and Wildlife Service, Spatial Information Group, and Applied Interagency Prescribed Training Center have used QUIC-Fire.

54 ENVIRONMENTAL SCIENCES↗

NEAMS Workbench Status and Capabilities

The mission of the US Department of Energy’s Nuclear Energy Advanced Modeling and Simulation (NEAMS) program is to develop, apply, deploy, and support state-of-the-art predictive modeling and simulation tools for the design and analysis of current and future nuclear energy systems. This is accomplished by using computing architectures that range from laptops to leadership-class facilities. The NEAMS Workbench is a new initiative that will facilitate the transition from conventional tools to highfidelity tools by providing a common user interface for model creation, review, execution, output review, and visualization for integrated codes. The Workbench can use common user input, including engineering-scale specifications that are expanded into application-specific input requirements through the use of customizable templates. The templating process can enable multifidelity analysis of a system from a common set of input data. Additionally, the common user input processor can provide an enhanced alternative application input that provides additional conveniences compared with native input, especially for legacy codes. Expansion of the integrated codes and application templates available in the Workbench will broaden the NEAMS user community and will facilitate system analysis and design. Current and planned capabilities of the NEAMS Workbench are detailed herein.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

TAO Users Manual (Rev. 3.15)

The Toolkit for Advanced Optimization (TAO) focuses on the development of algorithms and software for the solution of large-scale optimization problems on high-performance architectures. Areas of interest include unconstrained and bound-constrained optimization, nonlinear least squares problems, optimization problems with partial differential equation constraints, and variational inequalities and complementarity constraints. The development of TAO was motivated by the scattered support for parallel computations and the lack of reuse of external toolkits in current optimization software. Our aim is to produce high-quality optimization software for computing environments ranging from workstations and laptops to massively parallel high-performance architectures. Our design decisions are strongly motivated by the challenges inherent in the use of large-scale distributed memory architectures and the reality of working with large, often poorly structured legacy codes for specific applications.

97 MATHEMATICS AND COMPUTING↗

Characterizing Plug Load Energy Use and Savings Potential in Army Buildings

The Assistant Secretary of the Army (Installations, Energy and Environment) tasked the Pacific Northwest National Laboratory to examine plug loads in typical Army buildings. Plug loads (also known as miscellaneous electric loads (MELs)) represent the electricity used by appliances and devices that are plugged in or hardwired and serve functions outside of a building’s core end uses. Common plug loads include computers, printers, copiers, networking devices, refrigerators, and vending machines. They also include personal electronic devices such as televisions, smart phones, tablets, and gaming systems. Examples of hardwired MELs include elevators, air compressors, and fire and security systems. The findings from this study confirm that significant energy is consumed within Army buildings by plug load devices and hardwired MEL equipment. A number of opportunities are identified for reducing unnecessary energy use that could save the Army over $5 million per year when broadly applied. Army regulations clearly spell out expectations for the purchase and operation of information technology equipment (computers, laptops, monitors, printers, and multi-function devices). However, the policies regarding the shutdown or activation of sleep and other lower power modes after 30 minutes of inactivity (15 minutes for monitors) do not appear to be consistently followed. There are many effective approaches and pathways for impacting change as it relates to improving awareness, implementing measures, and adjusting behaviors to identify and reduce plug load energy use. The Army should prioritize and consider deploying all of these to better understand and manage plug load equipment to save energy and enhance resilience across their facilities. Engaging the building occupants who use these devices daily via outreach and education should be a strong component of the strategy. The focus should be on reducing waste without sacrificing productivity or the benefits that many of these devices provide. Continued evaluation of plug loads beyond that performed here is important to gather lessons from additional building and equipment types, and to stay aware of evolving device technology and management options. This will highlight additional needs for policies, best practices, control technologies, and education of personnel to achieve real reductions in energy waste from plug load equipment. It is recommended that this study may serve as the foundation for a broader and sustained focus on plug loads and MELs, towards simultaneously enhancing the productivity, readiness, and resilience of the Army while reducing energy use and demand, and freeing up resources to better support the mission.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Managing Army Plug Load Equipment Energy Use: Vending Machines

Vending machines consume the most energy of individual plug load devices common to Army buildings. As a group, they rank fourth in total electricity consumption, behind only clothes dryers, laptop computers, and telecom loads. Upgrading 80% of the estimated 22,000 refrigerated vending machines on Army installations to the latest ENERGY STAR ® performance and optimizing their efficiency settings could save 31 million kWh and $2 million per year.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗