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At least 487 records · Page 27

waveSZ: A Hardware-Algorithm Co-Design of Efficient Lossy Compression for Scientific Data

Error-bounded lossy compression is critical to the success of extreme-scale scientific research because of ever-increasing volumes of data produced by today's high-performance computing (HPC) applications. Not only can error-controlled lossy compressors significantly reduce the I/O and storage burden but they can retain high data fidelity for post analysis. Existing state-of-the-art lossy compressors, however, generally suffer from relatively low compression and decompression throughput (up to hundreds of megabytes per second on a single CPU core), which considerably restrict the adoption of lossy compression by many HPC applications especially those with a fairly high data production rate. In this paper, we propose a highly efficient lossy compression approach based on field programmable gate arrays (FPGAs) under the state-of-the-art lossy compression model SZ. Our contributions are fourfold. (1) We adopt a wavefront memory layout to alleviate the data dependency during the prediction for higher-dimensional predictors, such as the Lorenzo predictor. (2) We propose a co-design framework named WAVESZ based on the wavefront memory layout and the characteristics of SZ algorithm and carefully implement it by using high-level synthesis. (3) We propose a hardware-algorithm co-optimization method to improve the performance. (4) We evaluate our proposed WAVESZ on three real-world HPC simulation datasets from the Scientific Data Reduction Benchmarks and compare it with other state-of-the-art methods on both CPUs and FPGAs. Experiments show that our WAVESZ can improve SZ's compression throughput by 6.9x similar to 8.7x over the production version running on a state-of-the-art CPU and improve the compression ratio and throughput by 2.1x and 5.8x on average, respectively, respectively, compared with the state-of-the-art FPGA design.

Compression Ratio↗

Monitoring of ground water table depth and soil moisture at the Point Reyes field site

Ground water table (GWT) depth and soil moisture (SM) have been monitored at several locations at the Point Reyes field site (Californian coastal grassland) from 2021 to 2024. Monitoring is still on-going and data may be added to this archive at later time. The SM data have been acquired using Teros 12 Meter soil moisture sensors placed at 10, 30, 60 and 90 cm depth at 5 locations along a small hillslope. These sensors also collect soil temperature and bulk conductance. In addition, some collocated sensors provide pore pressure and Photochemical Reflectance Index (PRI). The GWT depth has been inferred from various type of Onset pressure transducers. The pressure measurements have been corrected for atmospheric pressure variations and sensor position relative to the ground surface to infer GWT depth, as well as with RTK GPS data to infer GWT elevation. The GWT data have been acquired at 5 distinct locations from 2020 to 2024 with the sensors placed at about 4 m depth. In addition, GWT data has been acquired for the 2023-2024 period with sensors located in 1 m deep shallow wells installed near each deeper well. This data is intended to evaluate possibly different dynamic in shallow (perched) and deep aquifer. The datasets are all provided in csv format. Please note that the interpretation of the GWT data needs to be done with consideration of environmental and well characteristics at the site and uncertainty in various variables. For more information on GWT and SM data, please contact the author.

54 ENVIRONMENTAL SCIENCES↗

Technical Report on Waveform Fit Metrics for Global Models

The new WAVEFORMS Initiative in the Ground-based Nuclear Detonation Detection (GNDD) program includes an increased emphasis on the development of Earth models and methods to predict entire seismic and acoustic waveforms more accurately. In general, this increased emphasis is predicated on the need to better characterize seismic events and provide improved model-based discrimination between event types including earthquakes and explosions. More specifically, while current moment tensor inversion methods tend to work well for larger events (M>~4) using tuned 1-D Earth models, the development of state-of-the-art 3-D models and methods is required for the prediction of shorter period waves over large areas for discrimination of smaller events. There is no standard metric for model-based waveform prediction accuracy used in the waveform modeling/inversion community. However, there are several popular waveform misfit definitions; and minimizing the corresponding objective functions is the goal of waveform inversion. Some example misfit definitions employed for adjoint waveform tomography include measures of simple travel time differences (e.g. Tape et al., 2010), cross-correlation travel time differences (e.g. Luo and Schuster, 1991), multi-taper frequency dependent methods (e.g. Lei et al., 2020), time-frequency phase misfit functions (e.g. Fichtner 2010; Rodgers et al., 2022), normalized cross-correlation methods (e.g. Tao et al., 2018), and others. In some cases, these misfit definitions also involve complicated weighting schemes and summations over multiple frequency bands making it difficult to duplicate the misfit measurement with alternative models and datasets. Although each of the misfit definitions mentioned above are useful for developing waveform models, the actual misfit values are not usually meaningful outside of a given project, model, and/or dataset. Therefore, it is difficult to understand and communicate model performance for predicting waveforms and comparing to other models and/or new model iterations with a different dataset. Therefore, there is a need for a generalized method for evaluating overall model performance that is independent from the specific misfit chosen to develop the waveform models that is also intuitive and meaningful. In this report, we describe a new metric we refer to as ‘Percent of Correlated Signal’. The following sections describe and demonstrate the metric with a case study event and a more rigorous test using a random selection of globally distributed events. While the focus here is on global tomography models, the metric is meant to applicable to regional ‘wiggle-for-wiggle’ waveform models/studies as well.

58 GEOSCIENCES↗

DRE: Designing for Resilience through Emulation

Threats to cyber- and cyber-physical systems have continued to increase over the past decade. Now more than ever, it is vital that cyber-physical system stakeholders have the tools to deeply understand their systems and the threats they face. High-fidelity modeling capabilities are powerful tools to support system understanding and decision-making, but they currently lack scientifically rigorous experimentation practices and infrastructures. The purpose of the project Designing for Resilience through Emulation (DRE) was to bring together past research and existing tools into a new pipeline to improve our ability to quantitatively evaluate future cyber scenarios. DRE offers new integrated capabilities for large dataset collection, noise studies, sensitivity analysis, uncertainty quantification, and surrogate modeling using a cyber-physical system emulation environment. These new capabilities significantly improve our ability to establish the credibility of the answers derived from emulation environments, ultimately leading to better critical decision support.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

Vegetation Detection Using Deep Learning and Conventional Methods

Land cover classification with the focus on chlorophyll-rich vegetation detection plays an important role in urban growth monitoring and planning, autonomous navigation, drone mapping, biodiversity conservation, etc. Conventional approaches usually apply the normalized difference vegetation index (NDVI) for vegetation detection. In this paper, we investigate the performance of deep learning and conventional methods for vegetation detection. Two deep learning methods, DeepLabV3+ and our customized convolutional neural network (CNN) were evaluated with respect to their detection performance when training and testing datasets originated from different geographical sites with different image resolutions. A novel object-based vegetation detection approach, which utilizes NDVI, computer vision, and machine learning (ML) techniques, is also proposed. The vegetation detection methods were applied to high-resolution airborne color images which consist of RGB and near-infrared (NIR) bands. RGB color images alone were also used with the two deep learning methods to examine their detection performances without the NIR band. The detection performances of the deep learning methods with respect to the object-based detection approach are discussed and sample images from the datasets are used for demonstrations.

58 GEOSCIENCES↗

Evaluation of four ground-based retrievals of cloud droplet number concentration in marine stratocumulus with aircraft in situ measurements

Abstract. Cloud droplet number concentration (Nd) is crucial for understanding aerosol–cloud interactions (ACI) and associated radiative effects. We present evaluations of four ground-based Nd retrievals based on comprehensive datasets from the Atmospheric Radiation Measurement (ARM) Aerosol and Cloud Experiments in the Eastern North Atlantic (ACE-ENA) field campaign. The Nd retrieval methods use ARM ENA observatory ground-based remote sensing observations from a micropulse lidar, Raman lidar, cloud radar, and the ARM NDROP (Droplet Number Concentration) value-added product (VAP), all of which also retrieve cloud effective radius (re). The retrievals are compared against aircraft measurements from the fast cloud droplet probe (FCDP) and the cloud and aerosol spectrometer (CAS) obtained from low-level marine boundary layer clouds on 12 flight days during summer and winter seasons. Additionally, the in situ measurements are used to validate the assumptions and characterizations used in the retrieval algorithms. Statistical comparisons of the probability distribution function (PDF) of the Nd and cloud re retrievals with aircraft measurements demonstrate that these retrievals align well with in situ measurements for overcast clouds, but they may substantially differ for broken clouds or clouds with low liquid water path (LWP). The retrievals are applied to 4 years of ground-based remote sensing measurements of overcast marine boundary layer clouds at the ARM ENA observatory to find that Nd (re) values exhibit seasonal variations, with higher (lower) values during the summer season and lower (higher) values during the winter season. The ensemble of various retrievals using different measurements and retrieval algorithms such as those in this paper can help to quantify Nd retrieval uncertainties and identify reliable Nd retrieval scenarios. Of the retrieval methods, we recommend using the micropulse lidar-based method. This method has good agreement with in situ measurements, less sensitivity to issues arising from precipitation and low cloud LWP and/or optical depth, and broad applicability by functioning for both daytime and nighttime conditions.

54 ENVIRONMENTAL SCIENCES↗

Revisiting Huffman Coding: Toward Extreme Performance on Modern GPU Architectures

Today's high-performance computing (HPC) applications are producing vast volumes of data, which are challenging to store and transfer efficiently during the execution, such that data compression is becoming a critical technique to mitigate the storage burden and data movement cost. Huffman coding is arguably the most efficient Entropy coding algorithm in information theory, such that it could be found as a fundamental step in many modern compression algorithms such as DEFLATE. On the other hand, today's HPC applications are more and more relying on the accelerators such as GPU on supercomputers, while Huffman encoding suffers from low throughput on GPUs, resulting in a significant bottleneck in the entire data processing. In this paper, we propose and implement an efficient Huffman encoding approach based on modern GPU architectures, which addresses two key challenges: (1) how to parallelize the entire Huffman encoding algorithm, including codebook construction, and (2) how to fully utilize the high memory-bandwidth feature of modern GPU architectures. The detailed contribution is fourfold. (1) We develop an efficient parallel codebook construction on GPUs that scales effectively with the number of input symbols. (2) We propose a novel reduction based encoding scheme that can efficiently merge the codewords on GPUs. (3) We optimize the overall GPU performance by leveraging the state-of-the-art CUDA APIs such as Cooperative Groups. (4) We evaluate our Huffman encoder thoroughly using six real-world application datasets on two advanced GPUs and compare with our implemented multithreaded Huffman encoder. Experiments show that our solution can improve the encoding throughput by up to 5.0× and 6.8× on NVIDIA RTX 5000 and V100, respectively, over the state-of-the-art GPU Huffman encoder, and by up to 3.3× over the multithread encoder on two 28-core Xeon Platinum 8280 CPUs.

Tian, Jiannan↗

Unsupervised Clustering and Supervised Regression Learning to Select High Temperature Oxidation-Resistant Materials

High temperature oxidation and corrosion degradation mechanisms dictate the lifetime of materials critical to energy production. The combination of modeling and experimental approaches such as machine learning (ML) and data analytics, with sufficient experimental data, can accelerate the development of new materials while limiting its cost. In the present work, ML will be applied to two high temperature oxidation data libraries (Oak Ridge National Laboratory and National Air and Space Administration) that comprised of about 5000 mass change sample datasheets for a variety of materials and temperatures in dry air and air + 10 % H2O. A python code was developed to prepare the data for machine learning by collecting and formatting oxidation rate constants, alloy compositions and environment of exposure into a single data frame. Scikit-learn library and Statistics and Machine Learning Toolbox within MathWorks were then used to perform unsupervised clustering and supervised regression learning. The impact of dataset distribution on the performance of the developed ML models was evaluated. Potential strategies to improve the predictions and enhance extrapolative capability of the previously trained model were investigated.

Romedenne, Marie [ORNL] (ORCID:0000000317936561)↗

Poisson Log-Normal Process for Count Data Prediction

Modeling count data is important in physics and other scientific disciplines, where measurements often involve discrete, non-negative quantities such as photon or neutrino detection events. Traditional parametric approaches can be trained to generate integer-count predictions but may struggle with capturing complex, non-linear dependencies often observed in the data. Gaussian process (GP) regression provides a robust non-parametric alternative to modeling continuous data; however, it cannot generate integer outputs. We propose the Poisson Log-Normal (PoLoN) process, a framework that employs GP to model Poisson log-rates. As in GP regression, our approach relies on the correlations between data points captured via GP kernel structure rather than explicit functional parameterizations. We demonstrate that the PoLoN predictive distribution is Poisson-LogNormal and provide an algorithm for optimizing kernel hyperparameters. Furthermore, we adapt the PoLoN approach to the problem of detecting weak localized signals superimposed on a smoothly varying background - a task of considerable interest in many areas of science and engineering. Our framework allows us to predict the strength, location and width of the detected signals. We evaluate PoLoN's performance using both synthetic and real-world datasets, including the open dataset from CERN which was used to detect the Higgs boson at the Large Hadron Collider. Our results indicate that the PoLoN process can be used as a non-parametric alternative for analyzing, predicting, and extracting signals from integer-valued data.

Saha, Anushka [Rutgers U., Piscataway]↗

Multivariate Testing of Sampling Techniques to Address Class Imbalance in Building Use Type Classification

This study addresses the challenges inherent in building use type classification, particularly focusing on the issue of class imbalance in the training datasets for machine learning classifiers. We comprehensively analyze the efficacy of various class-balancing sampling techniques. Employing Monte Carlo simulations and Bayesian optimization, we evaluated the performance of multiple sampling methods, including Random Oversampling, Random Undersampling, SMOTE, Borderline-SMOTE, and ADASYN, across a dataset encompassing nine southeastern coastal states of the United States. Our findings reveal that simple random over- and undersampling techniques outperform more sophisticated methods. Additionally, we show inherent value in creating an imbalance in training data to effectively train a machine learning classifier for distinguishing between residential and nonresidential buildings. This study provides valuable guidance for future research on building use type classification research and lays essential groundwork for developing attribute-rich building stock datasets.

Adams, Daniel↗

Comparative Evaluation of Control-Oriented Heavy Duty Vehicle Air Drag Coefficient Models

Heavy-duty vehicles (HDVs) are a significant source of fuel consumption and greenhouse gas emissions, prompting solutions such as HDV platooning to mitigate these negative impacts through air drag reduction. The intervehicle distance in an HDV platoon needs to be carefully selected, such that the platoon-level energy efficiency and safety considerations can be well balanced. Underlying this problem lies in accurately modeling the relationship between HDV air drag coefficient and intervehicle distance. Through comprehensive evaluation and comparison, we analyze five control-oriented HDV air drag coefficient models, including the polynomial model, rational polynomial model, rational model, semi-quadratic model, and ridge model. Leveraging Scipy Curve-Fit toolbox and our previously compiled air drag coefficient datasets, we optimally identify the parameters inside each model. The calibrated models are then thoroughly evaluated via five complementary metrics. The comparison results reveal that the semi-quadratic model has the highest overall performance, while the widely adopted rational model only exhibits suboptimal performance.

Best, Micah↗

Inter-Domain Fusion for Enhanced Intrusion Detection in Power Systems: An Evidence Theoretic and Meta-Heuristic Approach

False alerts due to misconfigured or compromised intrusion detection systems (IDS) in industrial control system (ICS) networks can lead to severe economic and operational damage. However, research using deep learning to reduce false alerts often requires the physical and cyber sensor data to be trustworthy. Implicit trust is a major problem for artificial intelligence or machine learning (AI/ML) in cyber-physical system (CPS) security, because when these solutions are most urgently needed is also when they are most at risk (e.g., during an attack). To address this, the Inter-Domain Evidence theoretic Approach for Inference (IDEA-I) is proposed that reframes the detection problem as how to make good decisions given uncertainty. Specifically, an evidence theoretic approach leveraging Dempster–Shafer (DS) combination rules and their variants is proposed for reducing false alerts. A multi-hypothesis mass function model is designed that leverages probability scores obtained from supervised-learning classifiers. Using this model, a location-cum-domain-based fusion framework is proposed to evaluate the detector’s performance using disjunctive, conjunctive, and cautious conjunctive rules. The approach is demonstrated in a cyber-physical power system testbed, and the classifiers are trained with datasets from Man-In-The-Middle attack emulation in a large-scale synthetic electric grid. For evaluating the performance, we consider plausibility, belief, pignistic, and general Bayesian theorem-based metrics as decision functions. To improve the performance, a multi-objective-based genetic algorithm is proposed for feature selection considering the decision metrics as the fitness function. Finally, we present a software application to evaluate the DS fusion approaches with different parameters and architectures.

42 ENGINEERING↗

Gaining Perspective on Unconventional Well Design Choices through Play-level Application of Machine Learning Modeling

The recent development of unconventional oil and gas (O&G) reservoirs has led to an abundant hydrocarbon supply, both domestically and globally. However, there is a continued push to develop new and innovative approaches to improve exploration and extraction efficiencies and overall well productivity moving forward. Substantial improvements in unconventional O&G development are expected through optimized well completion and stimulation strategies aimed at maximizing well productivity. Optimizing well designs will require tailoring to the distinctive geologic conditions present for any newly placed well. To better evaluate the impact of well design attributes and their associated interactions on productivity in a major unconventional play, multivariate machine learning-based models that use empirical datasets were developed. A gradient boosted regression tree (GBRT) algorithm was applied. GBRT has been narrowly investigated for O&G applications but enables straightforward parametric importance and influence evaluation, as well as assessment of parameter interaction effects. Models were trained on well design and locational parameters that serve as a proxy for variable geologic conditions to estimate two types of productivity indicator response variables strongly correlated to estimated ultimate recovery (EUR). The dataset utilized consists of over 7,000 well observations that cover the majority of the productive region of the Marcellus Shale. Model performance was evaluated and algorithm parameters tuned by analyzing the goodness-of-fit for simulated results against observed data in a cross-validation approach. Models were found capable of 73–79 percent prediction accuracy on held out testing data of gas equivalent production and can be used to inform future well design and placement decisions for increasing EUR per well and improving overall field-level recovery. Study results indicate that Marcellus well performance improves most with upscaling perforated interval lengths and water and proppant volumes per foot; but relative productivity improvements are spatially dependent across the play. Finally, optimal combinations of water and proppant on well performance were found to vary depending on well location, emphasizing the utility of data-driven models capable of broad application across a play of interest for informing tailored well design approaches prior to their field deployment.

04 OIL SHALES AND TAR SANDS↗

CMIP6-based Multi-model Hydropower Projection over the Conterminous US, Version 1.1

This dataset presents a suite of hydropower projections for the conterminous United States (CONUS), derived from multiple downscaled and bias-corrected Global Climate Models (GCMs) from the Coupled Model Intercomparison Project Phase 6 (CMIP6). The CMIP6 GCMs are downscaled using either statistical (DBCCA) or dynamical (RegCM) approaches, based on two meteorological reference datasets (Daymet and Livneh). The resulting downscaled precipitation, temperature, and wind speed data are then used to drive two calibrated hydrologic models (VIC and PRMS), enabling simulations of projected future hydrologic responses across the CONUS. Simulated total runoff is subsequently employed to drive two hydropower models (WMP, now implemented as mosartwmpy-power, and WRES) to evaluate how climate change may affect future hydropower production for both federal and non-federal hydropower fleets. This dataset was developed to support the SECURE Water Act Section 9505 Assessment for the U.S. Department of Energy (DOE) Water Power Technologies Office (WPTO). For further details, see Broman et al. (2024), Thurber et al. (2024), Kao et al. (2022), and Zhou et al. (2023).

Voisin, Nathalie [Pacific Northwest National Labor↗

Estimating irrigation water use from remotely sensed evapotranspiration data: Accuracy and uncertainties at field, water right, and regional scales

Irrigated agriculture is the dominant user of water globally, but most water withdrawals are not monitored or reported. As a result, it is largely unknown when, where, and how much water is used for irrigation. Here, we evaluated the ability of remotely sensed evapotranspiration (ET) data, integrated with other datasets, to calculate irrigation water withdrawals and applications in an intensively irrigated portion of the United States. We compared irrigation calculations based on an ensemble of satellite-driven ET models from OpenET with reported groundwater withdrawals from hundreds of farmer irrigation application records and a statewide flowmeter database at three spatial scales (field, water right group, and management area). At the field scale, we found that ET-based calculations of irrigation agreed best with reported irrigation when the OpenET ensemble mean was aggregated to the growing season timescale (bias = 1.6–4.9%, R 2 = 0.53–0.74), and agreement between calculated and reported irrigation was better for multi-year averages than for individual years. At the water right group scale, linking pumping wells to specific irrigated fields was the primary source of uncertainty. At the management area scale, calculated irrigation exhibited similar temporal patterns as flowmeter data but tended to be positively biased with more interannual variability. Disagreement between calculated and reported irrigation was strongly correlated with annual precipitation, and calculated and reported irrigation agreed more closely after statistically adjusting for annual precipitation. The selection of an ET model was also an important consideration, as variability across ET models was larger than the potential impacts of conservation measures employed in the region. From these results, we suggest key practices for working with ET-based irrigation data that include accurately accounting for changes in soil moisture, deep percolation, and runoff; careful verification of irrigated area and well-field linkages; and conducting application-specific evaluations of uncertainty.

59 BASIC BIOLOGICAL SCIENCES↗

Generation and evaluation of synthetic patient data

Background: Machine learning (ML) has made a significant impact in medicine and cancer research; however, its impact in these areas has been undeniably slower and more limited than in other application domains. A major reason for this has been the lack of availability of patient data to the broader ML research community, in large part due to patient privacy protection concerns. High-quality, realistic, synthetic datasets can be leveraged to accelerate methodological developments in medicine. By and large, medical data is high dimensional and often categorical. These characteristics pose multiple modeling challenges. Methods: In this paper, we evaluate three classes of synthetic data generation approaches; probabilistic models, classification-based imputation models, and generative adversarial neural networks. Metrics for evaluating the quality of the generated synthetic datasets are presented and discussed. Results: While the results and discussions are broadly applicable to medical data, for demonstration purposes we generate synthetic datasets for cancer based on the publicly available cancer registry data from the Surveillance Epidemiology and End Results (SEER) program. Specifically, our cohort consists of breast, respiratory, and non-solid cancer cases diagnosed between 2010 and 2015, which includes over 360,000 individual cases. Conclusions: We discuss the trade-offs of the different methods and metrics, providing guidance on considerations for the generation and usage of medical synthetic data.

59 BASIC BIOLOGICAL SCIENCES↗

BioADAPT-MRC: adversarial learning-based domain adaptation improves biomedical machine reading comprehension task

ABSTRACT Motivation Biomedical machine reading comprehension (biomedical-MRC) aims to comprehend complex biomedical narratives and assist healthcare professionals in retrieving information from them. The high performance of modern neural network-based MRC systems depends on high-quality, large-scale, human-annotated training datasets. In the biomedical domain, a crucial challenge in creating such datasets is the requirement for domain knowledge, inducing the scarcity of labeled data and the need for transfer learning from the labeled general-purpose (source) domain to the biomedical (target) domain. However, there is a discrepancy in marginal distributions between the general-purpose and biomedical domains due to the variances in topics. Therefore, direct-transferring of learned representations from a model trained on a general-purpose domain to the biomedical domain can hurt the model’s performance. Results We present an adversarial learning-based domain adaptation framework for the biomedical machine reading comprehension task (BioADAPT-MRC), a neural network-based method to address the discrepancies in the marginal distributions between the general and biomedical domain datasets. BioADAPT-MRC relaxes the need for generating pseudo labels for training a well-performing biomedical-MRC model. We extensively evaluate the performance of BioADAPT-MRC by comparing it with the best existing methods on three widely used benchmark biomedical-MRC datasets—BioASQ-7b, BioASQ-8b and BioASQ-9b. Our results suggest that without using any synthetic or human-annotated data from the biomedical domain, BioADAPT-MRC can achieve state-of-the-art performance on these datasets. Availability and implementation BioADAPT-MRC is freely available as an open-source project at https://github.com/mmahbub/BioADAPT-MRC. Supplementary information Supplementary data are available at Bioinformatics online.

60 APPLIED LIFE SCIENCES↗