Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “Adaptation models”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 397 records · Page 22
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

LOGAN: High-Performance GPU-Based X-Drop Long-Read Alignment

Pairwise sequence alignment is one of the most computationally intensive kernels in genomic data analysis, accounting for more than 90% of the runtime for key bioinformatics applications. This method is particularly expensive for third-generation sequences due to the high computational cost of analyzing sequences of length between 1Kb and 1Mb. Given the quadratic overhead of exact pairwise algorithms for long alignments, the community primarily relies on approximate algorithms that search only for high-quality alignments and stop early when one is not found. In this work, we present the first GPU optimization of the popular X-drop alignment algorithm, that we named LOGAN. Results show that our high-performance multi-GPU implementation achieves up to 181.6 GCUPS and speed-ups up to 6.6× and 30.7× using 1 and 6 NVIDIA Tesla V100, respectively, over the state-of-the-art software running on two IBM Power9 processors using 168 CPU threads, with equivalent accuracy. We also demonstrate a 2.3× LOGAN speed-up versus ksw2, a state-of-art vectorized algorithm for sequence alignment implemented in minimap2, a long-read mapping software. Furthermore, to highlight the impact of our work on a real-world application, we couple LOGAN with a many-to-many long-read alignment software called BELLA, and demonstrate that our implementation improves the overall BELLA runtime by up to 10.6×. Finally, we adapt the Roofline model for LOGAN and demonstrate that our implementation is near optimal on the NVIDIA Tesla V100s.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2022

Evaluation of an in vitro three-dimensional HepaRG spheroid model for genotoxicity testing using the high-throughput CometChip platform

Three-dimensional (3D) culture systems are increasingly being used for genotoxicity studies due to improved cell-to-cell interactions and tissue-like structures that are limited or lacking in 2D cultures. The present study optimized a 3D culture system using metabolically competent HepaRG cells for in vitro genotoxicity testing. 3D HepaRG spheroids, formed in 96- or 384-well ultra-low attachment plates, were exposed to various concentrations of 34 test articles, including 8 direct-acting and 11 indirect-acting genotoxicants/carcinogens as well as 15 compounds that show different genotoxic responses in vitro and in vivo. DNA damage was evaluated using the high-throughput CometChip assay with concurrent cytotoxicity assessment by the ATP assay in both 2D and 3D cultures. 3D HepaRG spheroids maintained a stable phenotype for up to 30 days with higher levels of albumin secretion, cytochrome P450 gene expression, and enzyme activities compared to 2D cultures. 3D spheroids also demonstrated a higher sensitivity than 2D cultures for detecting both direct- and indirect-acting genotoxicants/carcinogens, indicating a better prediction of in vivo genotoxicity responses. When DNA damage dose-response data were quantified using PROAST software, 3D spheroids generally had lower or similar benchmark dose values compared to 2D HepaRG cells and were more comparable with primary human hepatocytes. These results demonstrate that 3D models can be adapted to the CometChip technology for high-throughput genotoxicity testing and that 3D HepaRG spheroids may be used as a reliable and pragmatic in vitro approach to better support the hazard identification and risk assessment of potential human genotoxic carcinogens.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2026

Daily, 30 m Resolution NDSI Data for the East River Watershed, CO for 2000-2020

This dataset contains daily Normalized Difference Snow Index (NDSI) values at 30 m spatial resolution for the East River watershed in Colorado, USA. The temporal range of these data includes water years 2001-2020. These data were created using the Spatial and Temporal Adaptive Reflectance Fusion Model (STARFM). This model fuses low spatial and high temporal resolution data from MODIS (500 m, daily) with high spatial and low temporal resolution data from Landsat (30 m, 16 days) to create a 30m synthetic daily snow product. This product allows for the analysis of historical snow covered area trends in the East River Watershed at fine spatiotemporal resolutions where it was not available previously. This research was performed as a part of the Department of Energy’s Subsurface Biogeochemical Research Program with the primary intent of better understanding the timing and spatial patterns of water delivery to the Critical Zone in mountain watersheds. Each .zip file contains one "water year" of data (October 1 - September 30; i.e., water year 2010 starts October 1, 2010 and ends September 30, 2011). Each zip file contains the following: STARFM daily Normalized Difference Snow Index (NDSI) fusion data files in GeoTiff format with one layer for each day between Landsat data acquisition dates (i.e., for dates of Landsat acquisition, the Landsat image is included for that date). The study area is located in an area of Landsat path overlap, so Landsat dates acquisitions are every 7-9 days. Landsat NDSI files containing the high spatial (30m), low temporal (7-9 days due to Landsat path overlap) resolution data used as input to STARFM in GeoTiff format with one layer for each day. Dates for which no Landsat data were obtained are included as NoData layers. MODIS NDSI files containing the high temporal (daily), low spatial (500m) resolution data used as input to STARFM in GeoTiff format with one layer for each day. Please note the MODIS data were resampled to 30m pixels for input into the STARFM model. The data have a scale factor of 10,000 and a no data value of -32767. The projection of all datasets is WGS 84 (EPSG: 4326), which has a latitude/longitude based degree resolution of 0.0002694946 X 0.0002694946, and approximates to the 30 m spatial resolution mentioned above. The Layer Index files in .csv format. They contain information for each layer in the above GeoTiff files regarding the corresponding date for each layer, the fraction of pixels in the image that contain valid data (missing data is due to either cloud cover or poor data quality; these values are not percent snow cover). Dates of Landsat overpass are indicated in these files. If no Landsat data were able to be obtained due to cloud cover or lack of Landsat Tier 1 data available on Google Earth Engine, this is also noted.

EARTH SCIENCE > CRYOSPHERE > SNOW/ICE↗
DOE OSTI2025

The importance of electron scattering in the analysis of actinide X-ray spectroscopy

Abstract Manifestations of electron scattering in X-ray spectroscopy have been evident for decades. Here, it will be shown that the proper interpretation of variants of X-ray Absorption Spectroscopy (XAS) of actinide materials must include an accurate treatment of features caused by electron scattering, i.e., EXAFS or Extended X-ray Absorption Fine Structure. These EXAFS features can be of such low energy that they are within ten to twenty electron volts of the Unoccupied Density of States (UDOS), immediately above the Fermi Energy or Band Gap. The adaption of simple models using the FEFF simulation program will be presented, including the demonstration of the robust nature of the results from different models. Graphical abstract

Tobin, J. G. (ORCID:0000000322943301)↗
DOE OSTI2023

DarkNESS Project Testing

This internship involved the design and assembly of a mechanical system for testing skipper-Charge Couple Devices (CCDs) for the DarkNESS project. Skipper-CCDs are highly-sensitive sensors with ultra-low readout noise that are deployed for direct detection of dark matter. DarkNESS is a CubeSat that aims to use skipper CCDs to search for dark matter decaying into X-rays. Currently, in the testing phase, the design process involved creating 3D models of mechanical adapters to operate a prototype space Multi Chip Module (sMCM) package in existing testing chambers in the CCD lab at Fermilab's IERC. The drawings were sent out to be machined, and while waiting to receive the finished adapters, we assembled a vacuum chamber for skipper-CCD testing and performed initial testing of a single CCD controlled by the space Low Threshold Acquisition (sLTA) board that will be employed on the CubeSat. The results showed that the testing conditions are optimal for data to start being taken and analyzed.

Akouedjinoude, Kodjo↗
DOE OSTI2025

Resonant Slow Extraction Simulation using Bmad

Simulations of slow extraction and transport of charged particle beams from synchrotrons requires careful modeling and experimentation. In this paper, we outline how the Bmad modeling software was adapted and developed to run third-integer resonant extraction simulations of beams at Brookhaven National Laboratory’s Booster synchrotron. Further, we show experimental comparisons of the slowly extracted beams transferred to the NASA Space Radiation Laboratory (NSRL) transport line. In this process, beam passes through a stripping foil element at the extraction point, which, along with stripping remaining electrons from the beam ions, acts as a scatterer to modify the phase space, moving to a more Gaussian-like distribution. This modification to the beam helps generate a uniform beam at the beam line’s target location; which is necessary for the variety of experiments performed at the facility. During this work, beam energy loss and multiple scattering by foil routines were built in conjunction with the Bmad code developers and are now integrated into the software.

43 PARTICLE ACCELERATORS↗
DOE OSTI2025

Characterization of Infrasonic Signatures of Earth-Grazing Fireballs as Analogues to Hypersonic Vehicles (Final Report)

Accurate detection, discrimination, and characterization of high-altitude hypersonic events using infrasonic monitoring are critical to planetary defense and global strategic surveillance. This report synthesizes recent advances achieved through rigorous analysis of infrasonic signatures from natural meteoroids, emphasizing shallow entry-angle meteoroids as essentially proxies for artificial hypersonic systems. Meteoroids naturally encompass diverse velocities, trajectories, altitudes, and fragmentation behaviors, enabling systematic validation of empirical period–yield relationships, waveform morphology classifiers, and trajectory-induced back-azimuth deviation models. Integration of adaptive array-processing enhancements within Cardinal software further extends infrasonic detection sensitivity and signal classification reliability. Collectively these advances, based solely on infrasonic signatures or limited optical data, offer robust methodologies for distinguishing natural from artificial hypersonic sources, significantly reducing event geolocation uncertainties and refining source-function determination. The outcomes detailed herein lay foundational groundwork for improved global hypersonic event-surveillance frameworks, supporting improved security preparedness and informing strategic monitoring and defense policies.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2026

Generalizable Web User Interface for Scalable and Streamlined Deployment of Building Energy Management Systems in Small and Medium-Sized Commercial Buildings

Small and medium-sized commercial buildings (SMCBs) comprise 94% of US commercial buildings yet face significant barriers to implementing building energy management systems despite advances in smart device technology. Existing solutions present critical limitations: cloud-based API solutions simplify deployment but create vendor lock-in constraints; commercial integrated software solutions ensure compatibility via standardized protocols but require substantial cost and technical expertise; open-source IoT platforms offer cost-effective vendor independence but provide insufficient standardized protocol support for commercial building automation. This research presents a generalizable web user interface framework that bridges the gap between evolving smart device capabilities and lagging software infrastructure for SMCBs. The proposed system integrates VOLTTRON open-source middleware with an automated configuration converter that transforms unified specifications written in YAML, a human-readable data-serialization format, into system-specific files, streamlining manual setup processes. The vendor-agnostic architecture supports industry-standard protocols (BACnet and Modbus) and semantic building models while providing adaptive web interfaces that dynamically adjust to various building configurations. Demonstrations through simulation-based testing and a field deployment show automatic interface adaptation across heterogeneous HVAC systems and multizone monitoring. The automated configuration converter also substantially reduces labor-intensive setup.

Chung, Jihoon [ORNL] (ORCID:0000000184880815)↗
DOE OSTI2025

PNNL-ANL Hydrometeorological Super Ensemble

The current dataset contains data upload links to the following **hydrologic (water balance), river routing (water management), and hydropower simulation** data over CONUS: * Climate Forcing: **Livneh** (https://www.nature.com/articles/sdata201542) * Simulation Scenario: **Historical** * Simulation Period: **1971-2013 (1972-2013 for Hydropower)** * Simulation Models: **VIC (Variable Infiltration Capacity)**, **mosartwmpy (Model for Scale Adaptive River Transport-Water Management in Python)**, and **PNNL B1Hydro** * Output Format: **NetCDF** and **CSV**

Tidwell, Vincent C [Pacific Northwest National Lab↗
DOE OSTI2025

PNNL-ANL Hydrometeorological Super Ensemble

The current dataset contains data upload links to the following hydrologic (water balance), river routing (water management), and hydropower simulation data over CONUS: Climate Forcing: ClimRR (https://climrr.anl.gov/climrrdata) Simulation Scenario: Historical, Mid-Century, End-Century Simulation Period: 1995-2004, 2045-2054, 2085-2094 Simulation Models: VIC (Variable Infiltration Capacity), mosartwmpy (Model for Scale Adaptive River Transport-Water Management in Python), and PNNL B1Hydro Output Format: NetCDF and CSV

Tidwell, Vincent C [Pacific Northwest National Lab↗
DOE OSTI2025

TGW Hydrology, River Routing, and Hydropower Simulation Datasets

he current dataset contains data upload links to the following hydrologic (water balance), river routing (water management), and hydropower simulation data over CONUS: Climate Forcing: TGW (https://tgw-data.msdlive.org/) Simulation Scenario: Historical, Mid-Century, End-Century Simulation Period: 1980-2024, 2020-2059, 2060-2099 Simulation Models: VIC (Variable Infiltration Capacity), mosartwmpy (Model for Scale Adaptive River Transport-Water Management in Python), and PNNL B1Hydro Output Format: NetCDF and CSV

Tidwell, Vincent C [Pacific Northwest National Lab↗
DOE OSTI2025

Enhancing Multi-Step Reservoir Inflow Forecasting: A Time-Variant Encoder–Decoder Approach

Accurate reservoir inflow forecasting is vital for effective water resource management. Reliable forecasts enable operators to optimize storage and release strategies to meet competing sectoral demands—such as water supply, irrigation, and hydropower scheduling—while also mitigating flood and drought risks. To address this need, in this study, we propose a novel time-variant encoder–decoder (ED) model designed specifically to improve multi-step reservoir inflow forecasting, enabling accurate predictions of reservoir inflows up to seven days ahead. Unlike conventional ED-LSTM and recursive ED-LSTM models, which use fixed encoder parameters or recursively propagate predictions, our model incorporates an adaptive encoder structure that dynamically adjusts to evolving conditions at each forecast horizon. Additionally, we introduce the Expected Baseline Integrated Gradients (EB-IGs) method for variable importance analysis, enhancing interpretability of inflow by incorporating multiple baselines to capture a broader range of hydrometeorological conditions. The proposed methods are demonstrated at several diverse reservoirs across the United States. Our results show that they outperform traditional methods, particularly at longer lead times, while also offering insights into the key drivers of inflow forecasting. These advancements contribute to enhanced reservoir management through improved forecasting accuracy and practical decision-making insights under complex hydroclimatic conditions.

58 GEOSCIENCES↗
DOE OSTI2020

Meta-analysis of peptides to detect protein significance

Shotgun assays are widely used in biotechnologies to char- acterize large molecules, which are hard to be measured as a whole directly. For instance, in Liquid Chromatography Mass Spectrometry (LC-MS) shotgun experiments, proteins in biological samples are digested into peptides, and then peptides are separated and measured. However, in proteomics study, investigators are usually interested in the performance of the whole proteins instead of those peptide fragments. In light of meta-analysis, we propose an adaptive thresholding method to select informative peptides, and combine peptide-level models to protein-level analysis. Overall, the meta-analysis procedure and modeling rationale can be adapted to data analysis of other types of shotgun assays.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Modeling Cost of Offshore Carbon Storage in Saline Reservoirs

Poster presentation to the AAPG-SEG-SPE CCUS 2024 Conference. Offshore saline reservoirs provide a significant and accessible resource for geologic carbon storage (CS). The offshore environment requires distinct approaches to site selection, operations, monitoring, and risk that affect the technoeconomic assessment of offshore CS projects. The National Energy Technology Laboratory (NETL) has developed a CS cost model for offshore saline reservoirs known as CO2_S_COM_Offshore. Based on NETL’s widely used CO2_S_COM cost model for onshore saline CS, CO2_S_COM_Offshore enables technoeconomic analysis of CS in offshore areas. This model comprehensively incorporates multiple facets of offshore CS projects, from regional evaluation and site selection to permitting, transport, operations, monitoring, site closure, and decommissioning. Developed to model cost for offshore United States (US) Exclusive Economic Zones, aspects of this model can be adapted to international projects. Presented at the SPE/AAPG/SEG Carbon Capture Utilization and Storage Conference in Houston, TX, March 11-13, 2024.

Mark-Moser, Mackenzie K.↗
DOE OSTI2024

Optimizing Batch Crystallization with Model-based Design of Experiments

Adaptive and self-optimizing intelligent systems such as digital twins are increasingly important in science and engineering. Digital twins utilize mathematical models to provide added precision to decision-making. However, physics-informed models are challenging to build, calibrate, and validate with existing data science methods. Model-based design of experiments (MBDoE) is a popular framework for optimizing data collection to maximize parameter precision in mathematical models and digital twins. In this work, we apply MBDoE, facilitated by the open-source package Pyomo.DoE, to train and validate mathematical models for batch crystallization. We quantitatively examined the estimability of the model parameters for experiments with different cooling rates. This analysis provides a quantitative explanation for the heuristic of using multiple experiments at different cooling rates.

Lynch, Hailey↗
DOE OSTI2022

Threat by marine heatwaves to adaptive large marine ecosystems in an eddy-resolving model

Marine heatwaves (MHWs), episodic periods of abnormally high sea surface temperature, severely affect marine ecosystems. Large marine ecosystems (LMEs) cover ~22% of the global ocean but account for 95% of global fisheries catches. Yet how climate change affects MHWs over LMEs remains unknown because such LMEs are confined to the coast where low-resolution climate models are known to have biases. Here, using a high-resolution Earth system model and applying a ‘future threshold’ that considers MHWs as anomalous warming above the long-term mean warming of sea surface temperatures, we find that future intensity and annual days of MHWs over the majority of the LMEs remain higher than in the present-day climate. Better resolution of ocean mesoscale eddies enables simulation of more realistic MHWs than low-resolution models. These increases in MHWs under global warming pose a serious threat to LMEs, even if resident organisms could adapt fully to the long-term mean warming.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

2D Magnetohydrodynamic Simulations of the Electrothermal Instability in Metallic Liners

The Virginia Tech (VT) Plasma Dynamics Laboratory Computational (PDCL) and Lawrence Livermore National Laboratory (LLNL) are performing two dimensional (2D) simulations of the electrothermal instability (ETI) using the LLNL multi-physics code Ares. Ares is a multi-physics arbitrary–Lagrangian-Eulerian (ALE) code developed by LLNL and is of particular use in studying magnetohydrodynamic (MHD) instabilities like the ETI due to its resistive MHD, magnetic diffusion, and radiative-hydrodynamics packages. Among its capabilities, it has the ability to model material strength, perform adaptive mesh refinement (AMR), and incorporate a wide variety of equations of state models and conductivity models. The 2D Ares simulation model created by VT-LLNL for studying the development and growth of the electrothermal instability has been configured with initial conditions based on the Mykonos Electrothermal Instability II (METI-II) experiments described by this grant and conducted by team members at the University of Nevada (UNR), the University of New Mexico (UNM), and Sandia National Laboratories. Previously, preliminary 2D Ares simulations of the ETI had been run to approximately 80ns. The rods in these simulations were initiated with sinusoidal perturbations at a similar order of magnitude to those measured on the aluminum rods used for the Mykonos experiment. This model has been improved by increasing the spatial resolution of the simulations and running the simulations further in time. In addition to the simulation run-times extending, the preliminary sinusoidal perturbation has been replaced with a perturbation derived from amplitude measurements by the experimental team, thereby correlating the simulation inputs better to the experimental runs. These new runs are capable of reaching 120ns of simulated time for the uncoated cases and to 200ns the 41 μm coated cases.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2025

Community-Informed Urban Flood Modeling for Impact Mitigation

The intensification of the hydrologic cycle due to climate change poses a threat to aging and under-designed water infrastructure systems which cannot adequately manage intense storm events. Developing a comprehensive plan for managing rain-driven flooding events is challenging due to uncertainties in the magnitude and frequency of future storm events and conflicting stakeholder objectives. In the City of Baltimore, Maryland, stormwater infrastructure is struggling to keep up with rainfall-driven (pluvial) flooding events, which regularly damage housing and disrupt transportation for residents. In this study, a hybrid of community engagement, numerical modeling, and artificial intelligence techniques are employed to explore prospective urban flooding adaptations. Community engagement drives the development of an urban flooding model (EPA Storm Water Management Model) for the Baltimore Harbor watershed. The model integrates complex surface and subsurface stormwater infrastructure data from the City, high-resolution spatial data, insights from local public works experts, and the lived experiences of City residents. This co-developed model simulates adaptations of interest to stakeholders in the city, including green and grey infrastructure and operational management strategies. Stormwater management scenarios focused on inlet cleaning and spatially concentrated green infrastructure are found to be the most effective in reducing flood depths in community priority locations. Together, these adaptations can reduce the duration of intersection inundation by more than twenty minutes, allowing for quicker emergency response and restoration of typical transportation systems. Future work will combine this community engaged flooding model with the Deep Uncertainties Pathways framework to explore tradeoffs between adaptations and develop dynamic adaptations which align with community objectives, enhance climate resilience in Baltimore, and can be adjusted in response to changing future conditions.

Ava, Spangler [Pennsylvania State University]↗