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DOE OSTI2024

Bayes_Opt-SWMM: A Gaussian process-based Bayesian optimization tool for real-time flood modeling with SWMM

Real-time flood model plays a pivotal role in averting urban flood damage, particularly when there is minimal lead time for preparatory measures. However, urban flood modeling in real-time often contends with inherent uncertainties arising from input data uncertainty and parameter ambiguities. Here this study introduces a real-time calibration (RTC) tool called Bayes_Opt-SWMM, specifically tailored for real-time urban flood modeling and uncertainty optimization. This tool leverages the Gaussian process-based Bayesian optimization algorithm and interfaces seamlessly with the Stormwater Management Model (SWMM). It integrates real-time model forcing data and flood monitoring collected through sensors and gauges which are strategically placed within critical locations of urban drainage systems. Our approach hinges on the Surrogate Model based Uncertainty Optimization (SMUO) concept, providing an avenue for enhancing real-time flood modeling. Bayes_Opt-SWMM runs the optimization process using a surrogate model called Gaussian Process emulator with two inference methods: (1) the Gaussian Process (GP) model and (2) Markov Chain Monte Carlo (MCMC) algorithm in GP model (GP_MCMC). Furthermore, three acquisition functions, namely Expected Improvement (EI), Maximum Probability of Improvement (MPI), and Lower Confidence Bound (LCB), facilitate optimal parameter fitting within the surrogate models. The efficiency of GP-based surrogate models in learning SWMM model parameters, leads to an improved uncertainty quantification and accelerated real-time flood modeling in urban areas. Overall, Bayes_Opt-SWMM emerges as a cost-effective and valuable tool for real-time flood modeling and monitoring, with significant potential for managing intelligent storm water systems in urban environments.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2026

Initial Testing of Promess Press Shielding

Testing of the initial design for the shielding to be added to the Promess servo press installed in TA9 0032 was completed on April 28, 2026. This shielding design did not provide satisfactory protection to either workers or equipment within the bay when tested at an explosive quantity of 82.5g. This memo details the design, testing method, and results of the test.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Cosmogenic surface exposure ( 10 Be) dating of raised beaches in Marguerite bay, Antarctic Peninsula: Implications for relative sea-level history

Understanding the dynamics of ice mass loss in polar regions is crucial for deciphering climate change and Glacio Isostatic Adjustment patterns. This study focuses on Marguerite Bay, located in the south-central Antarctic Peninsula. We dated raised beaches to investigate relative sea-level changes using the cosmogenic surface exposure ( 10 Be) method. Previous studies have provided valuable insights into the region's glacial history, but limitations in dating techniques and age estimates necessitate further investigation. By analysing raised shingle beaches in Gaul Cove of Horseshoe Island and the southern coast of Calmette Bay, this research aims to contribute relative sea-level change history for these areas. In Horseshoe Island's Gaul Cove, raised beaches clustered on prominent steps reveal a 15 m relative sea-level change over the last 3.31 ka. Differently, Calmette Bay exhibits a 36 m relative sea-level fall over the last 7.29 ka. Finally, these findings indicate significant and differential glacial-isostatic adjustments in both regions during the middle and late Holocene. Additionally, our data reveal accelerated sea-level fall periods corresponding to Holocene deglaciation and glacial advance events, indicating the shorelines' relative sea-level change sensitivity to climate change.

58 GEOSCIENCES↗

DOE OSTI2023

Inverse aqueous transport modeling for emergency response

ALGE is a three-dimensional, finite-difference aqueous transport model that simulates pollutant fate and transport in lakes, rivers, bays, and estuaries by solving the prognostic equations of mass, momentum, and energy. Its current modeling capabilities include transport of dissolved tracer for a series of predefined basins across the continental United States. Recently, an inverse method (also known as backtracking) has been added to ALGE to provide a possible source of a pollutant should one be detected by a sensor in a body of water and a source is not known. This inverse method is a three step process that uses an algorithm to inverse the flow. We demonstrate the new model’s capabilities through simulating the 2021 Piney Point spill in Tampa Bay, Florida (USA). This involves moving tracer backwards from its detection points, encompassing a potential source area, and applying Bayes’ Theorem and $\frac{𝜒}{𝑄}$ to reduce the area within which the true source could be located.

hydrological modeling↗

DOE OSTI2024

First measurement of the yield of 8 He isotopes produced in liquid scintillator by cosmic-ray muons at Daya Bay

Here, Daya Bay presents the first measurement of cosmogenic 8 He isotope production in liquid scintillator, using an innovative method for identifying cascade decays of 8 He and its child isotope, 8 Li. We also measure the production yield of 9 Li isotopes using well-established methodology. The results, in units of 10 –8 μ –1 ⁢g –1 cm 2 , are 0.307 ± 0.042, 0.341 ± 0.040, and 0.546 ± 0.076 for 8 He, and 6.73 ± 0.73, 6.75 ± 0.70, and 13.74 ± 0.82 for 9 Li at average muon energies of 63.9 GeV, 64.7 GeV, and 143.0 GeV, respectively. The measured production rate of 8 He isotopes is more than an order of magnitude lower than any other measurement of cosmogenic isotope production. It replaces the results of previous attempts to determine the ratio of 8 He to 9 Li production that yielded a wide range of limits from 0% to 30%. The results provide future liquid-scintillator-based experiments with improved ability to predict cosmogenic backgrounds.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2020

Protein Conformational States—A First Principles Bayesian Method

Automated identification of protein conformational states from simulation of an ensemble of structures is a hard problem because it requires teaching a computer to recognize shapes. We adapt the naïve Bayes classifier from the machine learning community for use on atom-to-atom pairwise contacts. The result is an unsupervised learning algorithm that samples a ‘distribution’ over potential classification schemes. We apply the classifier to a series of test structures and one real protein, showing that it identifies the conformational transition with >95% accuracy in most cases. A nontrivial feature of our adaptation is a new connection to information entropy that allows us to vary the level of structural detail without spoiling the categorization. This is confirmed by comparing results as the number of atoms and time-samples are varied over 1.5 orders of magnitude. Further, the method’s derivation from Bayesian analysis on the set of inter-atomic contacts makes it easy to understand and extend to more complex cases.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2022

Inferring the shape of data: a probabilistic framework for analysing experiments in the natural sciences

A critical step in data analysis for many different types of experiments is the identification of features with theoretically defined shapes in N -dimensional datasets; examples of this process include finding peaks in multi-dimensional molecular spectra or emitters in fluorescence microscopy images. Identifying such features involves determining if the overall shape of the data is consistent with an expected shape; however, it is generally unclear how to quantitatively make this determination. In practice, many analysis methods employ subjective, heuristic approaches, which complicates the validation of any ensuing results—especially as the amount and dimensionality of the data increase. Here, we present a probabilistic solution to this problem by using Bayes’ rule to calculate the probability that the data have any one of several potential shapes. This probabilistic approach may be used to objectively compare how well different theories describe a dataset, identify changes between datasets and detect features within data using a corollary method called Bayesian Inference-based Template Search; several proof-of-principle examples are provided. Altogether, this mathematical framework serves as an automated ‘engine’ capable of computationally executing analysis decisions currently made by visual inspection across the sciences.

Science & Technology - Other Topics↗

DOE OSTI2023

Bioaerosols are the dominant source of warm-temperature immersion-mode INPs and drive uncertainties in INP predictability

Ice-nucleating particles (INPs) are rare atmospheric aerosols that initiate primary ice formation, but accurately simulating their concentrations and variability in large-scale climate models remains a challenge. Doing so requires both simulating major particle sources and parameterizing their ice nucleation (IN) efficiency. Validating and improving model predictions of INP concentrations requires measuring their concentrations delineated by particle type. We present a method to speciate INP concentrations into contributions from dust, sea spray aerosol (SSA), and bioaerosol. Field campaign data from Bodega Bay, California, showed that bioaerosols were the primary source of INPs between –12° and –20°C, while dust was a minor source and SSA had little impact. We found that recent parameterizations for dust and SSA accurately predicted ambient INP concentrations. However, the model did not skillfully simulate bioaerosol INPs, suggesting a need for further research to identify major factors controlling their emissions and INP efficiency for improved representation in models.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2021

The PAU Survey: an improved photo- z sample in the COSMOS field

Here we present – and make publicly available – accurate and precise photometric redshifts in the ACS footprint from the COSMOS field for objects with i AB ≤ 23. The redshifts are computed using a combination of narrow-band photometry from PAUS, a survey with 40 narrow bands spaced at $100\,\mathring{\rm A}$ intervals covering the range from 4500 to $8500\,\mathring{\rm A}$, and 26 broad, intermediate, and narrow bands covering the UV, visible and near-infrared spectrum from the COSMOS2015 catalogue. We introduce a new method that models the spectral energy distributions as a linear combination of continuum and emission-line templates and computes its Bayes evidence, integrating over the linear combinations. The correlation between the UV luminosity and the $\mathrm{O\,{\small II}}$ line is measured using the 66 available bands with the zCOSMOS spectroscopic sample, and used as a prior which constrains the relative flux between continuum and emission-line templates. The flux ratios between the $\mathrm{O\,{\small II}}$ line and H α , H β and $\mathrm{O\,{\small III}}$ are similarly measured and used to generate the emission-line templates. Comparing to public spectroscopic surveys via the quantity Δ z ≡ (z photo – z spec )/(1 + z spec ), we find the photometric redshifts to be more precise than previous estimates, with σ 68 (Δ z ) ≈ (0.003, 0.009) for galaxies at magnitude i AB ~ 18 and i AB ~ 23, respectively, which is three times and 1.66 times tighter than COSMOS2015. Additionally, we find the redshifts to be very accurate on average, yielding a median of the Δ z distribution compatible with |median(Δ z )| ≤ 0.001 at all redshifts and magnitudes considered. Both the added PAUS data and new methodology contribute significantly to the improved results. The catalogue produced with the technique presented here is expected to provide a robust redshift calibration for current and future lensing surveys, and allows one to probe galaxy formation physics in an unexplored luminosity-redshift regime, thanks to its combination of depth, completeness, and excellent redshift precision and accuracy.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2021

Particle image velocimetry analysis with simultaneous uncertainty quantification using Bayesian neural networks

Particle image velocimetry (PIV) is an effective tool in experimental fluid mechanics for extracting flow fields from images. Recently, convolutional neural networks (CNNs) have been used to perform PIV analysis with accuracy on par with classical methods. Here we extend the use of CNNs to analyze PIV data while providing simultaneous uncertainty quantification on the inferred flow field. The method we apply in this paper is a Bayesian convolutional neural network (BCNN) which learns distributions of the CNN weights through variational Bayes. In order to demonstrate the utility of BCNNs for the PIV task, we compare the performance of three distinct BCNN models with simple architectures. The first network estimates flow velocity from image interrogation regions only. Our second model learns to infer velocity from both the image interrogation regions and interrogation region cross-correlation maps. Finally, our best performing network infers velocities from interrogation region cross-correlation maps only. We find that BCNNs using interrogation region cross-correlation maps as inputs perform better than those using interrogation windows only as inputs and discuss reasons why this may be the case. Additionally, we test the best performing BCNN on a full synthetic test image pair and a real image pair from the 1st International PIV Challenge. We show that ~98% of true particle displacements from the full synthetic image pair can be captured within the BCNN's 95% confidence intervals, and that the BCNN's performance on the real image pair is quantitatively similar to that of algorithms tested in the 1st International PIV Challenge. Finally, we show that BCNNs can be generalized to be used with multi-pass PIV algorithms with a moderate loss in accuracy, which may be overcome by future work on finetuning and training schemes. So to our knowledge, this is the first use of Bayesian neural networks to perform PIV.

47 OTHER INSTRUMENTATION↗

DOE OSTI2025

Evaluating User Errors and Temporal Trends in Marine Fish Communities Using 360-Degree Underwater Photography

The use of environmental DNA (eDNA) sampling has been proposed as a complementary method to monitor fish species in marine environments, offering a non-invasive and potentially more efficient approach to marine species observations. eDNA monitoring could be especially useful in and around sites targeted for marine energy generation as these regions need regular monitoring that would be impractical with traditional techniques. Before we can fully rely upon eDNA, we must first verify its accuracy against other proven methods, such as the use of underwater photography. In this study, I deployed a 360-degree camera in the tidal channel of Sequim Bay once a month during several hours overlapping slack tide. I investigated how having multiple people identify and count fish on underwater images could affect the overall results. Using chi square tests in R, I compared my fish identifications and counts to those made by another intern on the same images recorded in August. I found significant differences in the number of species identified and the total individual counts between the two different datasets. I also tested the statistical differences in both Shannon diversity and Pielou evenness indices between the August, September, and November camera deployments using a Hutcheson t-test. Only one significant difference was found in the Shannon index comparisons, and none were found between the Pielou evenness comparisons. These findings show that if multiple identifiers are used to process underwater images, quality control checks must be made to reduce the potential for error. This also points toward the possibility to leverage more advanced image analysis processes, such as automated image analysis software. The findings from this study also show that the dynamics of marine fish communities can vary over a few months; however, further analysis is needed to determine the extent of the seasonal changes in Sequim Bay.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

TRACER Perspectives on Gulf-Breeze and Bay-Breeze Circulations and Coastal Convection

Abstract This study explores gulf-breeze circulations (GBCs) and bay-breeze circulations (BBCs) in Houston–Galveston, investigating their characteristics, large-scale weather influences, and impacts on surface properties, boundary layer updrafts, and convective clouds. The results are derived from a combination of datasets, including satellite observations, ground-based measurements, and reanalysis datasets, using machine learning, changepoint detection method, and Lagrangian cell tracking. We find that anticyclonic synoptic patterns during the summer months (June–September) favor GBC/BBC formation and the associated convective cloud development, representing 74% of cases. The main Tracking Aerosol Convection Interactions Experiment (TRACER) site located close to the Galveston Bay is influenced by both GBC and BBC, with nearly half of the cases showing evident BBC features. The site experiences early frontal passages ranging from 1040 to 1630 local time (LT), with 1300 LT being the most frequent. These fronts are stronger than those observed at the ancillary site which is located further inland from the Galveston Bay, including larger changes in surface temperature, moisture, and wind speed. Furthermore, these fronts trigger boundary layer updrafts, likely promoting isolated convective precipitating cores that are short lived (average convective lifetime of 63 min) and slow moving (average propagation speed of 5 m s −1 ), primarily within 20–40 km from the coast.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2022

A Bayesian approach to nanoparticle characterization

We introduce and numerically validate a Bayesian method for plasmonic nanometrology. Applicable to any system described by a scattering cross section, our approach quantifies uncertainty automatically and enables model comparison through Bayes factors.

Lukens, Joseph↗

DOE OSTI2021

Antineutrino energy spectrum unfolding based on the Daya Bay measurement and its applications

The prediction of reactor antineutrino spectra will play a crucial role as reactor experiments enter the precision era. The positron energy spectrum of 3.5 million antineutrino inverse beta decay reactions observed by the Daya Bay experiment, in combination with the fission rates of fissile isotopes in the reactor, is used to extract the positron energy spectra resulting from the fission of specific isotopes. This information can be used to produce a precise, data-based prediction of the antineutrino energy spectrum in other reactor antineutrino experiments with different fission fractions than Daya Bay. The positron energy spectra are unfolded to obtain the antineutrino energy spectra by removing the contribution from detector response with the Wiener-SVD unfolding method. Consistent results are obtained with other unfolding methods. A technique to construct a data-based prediction of the reactor antineutrino energy spectrum is proposed and investigated. Given the reactor fission fractions, the technique can predict the energy spectrum to a 2% precision. In addition, we illustrate how to perform a rigorous comparison between the unfolded antineutrino spectrum and a theoretical model prediction that avoids the input model bias of the unfolding method.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2024

Estimating Carbon Dioxide Emissions in Two California Cities Using Bayesian Inversion and Satellite Measurements

NASA's Orbiting Carbon Observatories (OCO-2 and OCO-3) provide measurements of column-averaged carbon dioxide concentrations (XCO 2 ) with sufficient spatial resolution and precision to constrain bottom-up estimates of CO 2 fluxes at regional scales. We use Bayesian inversion methods assimilating satellite retrievals to improve estimates of CO 2 fluxes in the South Coast Air Basin (SoCAB) which surrounds Los Angeles, and in the San Francisco Bay Area Air Basin (SFBA). We study 2020 to understand the impact of the COVID-19 lockdowns and an active wildfire season. Our results indicated that a 50% (30%) reduction in CO 2 emissions relative to 2015 during the COVID-19 lockdown period was consistent with OCO measurements for SFBA (SoCAB). We find that posterior wildfire emissions differed significantly from the prior at the scale of individual wildfires, though with large uncertainties, and that wildfire emissions in SFBA are significant, attributing 72% of the region's CO 2 emissions during August 2020 to wildfires.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2025

Hybridization capture sequencing for Vibrio spp. and associated virulence factors

ABSTRACT Proliferation ofVibriospp. in aquatic ecosystems is associated with climate change and, concomitantly, increased incidence of vibriosis. They are autochthonous to aquatic environments globally, but traditional metagenomic methods for detecting and typing pathogenicVibriospp. are challenged by their presence in relatively low abundance and ability to persist in a viable but nonculturable state. In the study reported here, hybridization capture sequencing (HCS) was employed to profile low-abundanceVibriospp. in environmental samples. The HCS panel targeted a family of molecular chaperones (CPN60) specific to 69Vibriospp. and 162Vibrio-specific virulence factors. This approach was evaluated in parallel with traditional whole-community shotgun sequencing in a metagenomic analysis of water and oyster samples collected from the Chesapeake Bay. In addition,Vibrio parahaemolyticusandVibrio vulnificusstrains isolated from the samples were subjected to whole-genome sequencing to determine the genetic characteristics of pathogenicVibriospp. circulating in an aquatic environment. HCS, employed to determine the incidence and characterization of specificVibriospp., yielded significantly greater metagenomic insight, notably a variety of otherVibriospp., including detection ofVibrio cholerae,Vibrio fluvialis, andVibrio aestuarianus, in addition toVibrio parahaemolyticusandVibrio vulnificus, and also important virulence factors not detectable using traditional molecular methods. Thus, pathogenicVibriospp. in aquatic ecosystems may be far more common than currently understood. It is concluded that environmental surveillance should include HCS, a valuable tool for the detection and characterization of pathogenic agents in aquatic ecosystems, notably vibrios. IMPORTANCE The increasing prevalence of pathogenicVibriospp. in aquatic ecosystems, driven by climate change, is closely linked to a rise in cholera and vibriosis cases, emphasizing the need for improved environmental surveillance. Vibrios are naturally occurring in aquatic environments globally, but traditional metagenomic methods for detecting and typing pathogenicVibriospp. are challenged by their presence in relatively low abundance and ability to persist in a viable but nonculturable state. In the study reported here, hybridization capture sequencing was employed to profile low-abundanceVibriospp. in metagenomic samples, namely water and oysters collected from the Chesapeake Bay. This approach was evaluated in parallel with traditional whole-community shotgun sequencing and whole-genome sequencing ofVibrio parahaemolyticusandVibrio vulnificusstrains isolated from the samples. Results suggest pathogenicVibriospp. in aquatic ecosystems may be far more common than currently understood, when multiple methods are considered for environmental surveillance.

Microbiology↗

DOE OSTI2022

Dataset for "Bioaerosols are the dominant source of warm-temperature immersion-mode INPs and drive uncertainties in INP predictability

Ice nucleating particles (INPs) are a rare subset of atmospheric aerosol that can initiate primary ice formation and thus trigger cloud glaciation. The re is a significant gap between our ability to measure INPs and to predict their concentrations and variability in large-scale weather and climate models. Accurate simulation of I NPs requires simulation of their major particle sources, as well as representative parameterizations of IN efficiency. Thus, there is a need for measurements of INP concentrations , delineated by particle type, to validate and improve model prediction of INP concentrations. Here we present a novel method for speciating INP concentrations into the relative c ontributions from dust, sea spray aerosol (SSA), and bioaerosol using single particle measurements. In a field campaign at Bodega Bay (coastal California), we find that bioaerosol s were the primary source of INPs between -12 and -20 ?C, while dust was a relatively minor source and SSA did not contribute significantly. We show that recent INP parameterizati ons for dust and SSA accurately predict ambient INP concentrations for these particle types. Finally, we use the speciated INP concentrations to evaluate the simulation of INPs at Bodega Bay, using a Lagrangian approach to connect the locally-observed aerosol with regionally-widespread emissions parameterizations. We find that we can skillfully simulate du st and SSA INPs, but not bioaerosol INPs. This points to a need for additional research to identify the major factors controlling the emissions and INP efficiency of bioaerosol IN Ps in order to develop improved parameterizations and enable their improved representation in models.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

Periodicity significance testing with null-signal templates: reassessment of PTF’s SMBH binary candidates

Periodograms are widely employed for identifying periodicity in time series data, yet they often struggle to accurately quantify the statistical significance of detected periodic signals when the data complexity precludes reliable simulations. We develop a data-driven approach to address this challenge by introducing a null-signal template (NST). The NST is created by carefully randomizing the period of each cycle in the periodogram template, rendering it non-periodic. It has the same frequentist properties as a periodic signal template, and we show with simulations that the distribution of false positives is the same as with the original periodic template, regardless of the underlying data. Thus, performing a periodicity search with the NST acts as an effective simulation of the null (no-signal) hypothesis, without having to simulate the noise properties of the data. We apply the NST method to the supermassive black hole binaries (SMBHB) search in the Palomar Transient Factory (PTF), where Charisi et al. had previously proposed 33 high signal-to-noise candidates utilizing simulations to quantify their significance. Our approach reveals that these simulations do not capture the complexity of the real data. There are no statistically significant periodic signal detections above the non-periodic background. To improve the search sensitivity, we introduce a Gaussian quadrature based algorithm for the Bayes Factor with correlated noise as a test statistic. We show with simulations that this improves sensitivity to true signals by more than an order of magnitude. However, the Bayes Factor approach also results in no statistically significant detections in the PTF data.

79 ASTRONOMY AND ASTROPHYSICS↗