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At least 109 records · Page 6

Challenges in solving structures from radiation-damaged tomograms of protein nanocrystals assessed by simulation

Structure-determination methods are needed to resolve the atomic details that underlie protein function. X-ray crystallography has provided most of our knowledge of protein structure, but is constrained by the need for large, well ordered crystals and the loss of phase information. The rapidly developing methods of serial femtosecond crystallography, micro-electron diffraction and single-particle reconstruction circumvent the first of these limitations by enabling data collection from nanocrystals or purified proteins. However, the first two methods also suffer from the phase problem, while many proteins fall below the molecular-weight threshold required for single-particle reconstruction. Cryo-electron tomography of protein nanocrystals has the potential to overcome these obstacles of mainstream structure-determination methods. Here, a data-processing scheme is presented that combines routines from X-ray crystallography and new algorithms that have been developed to solve structures from tomograms of nanocrystals. This pipeline handles image-processing challenges specific to tomographic sampling of periodic specimens and is validated using simulated crystals. The tolerance of this workflow to the effects of radiation damage is also assessed. The simulations indicate a trade-off between a wider tilt range to facilitate merging data from multiple tomograms and a smaller tilt increment to improve phase accuracy. Since phase errors, but not merging errors, can be overcome with additional data sets, these results recommend distributing the dose over a wide angular range rather than using a finer sampling interval to solve the protein structure.

59 BASIC BIOLOGICAL SCIENCES↗

Seeing the whole picture: Methods for getting the most from micro X-ray computed tomography of TRISO nuclear fuel particles

Tristructural isotropic (TRISO) coated fuel particles are a nuclear fuel form under extensive study for use in advanced nuclear reactor concepts. TRISO fuels are subjected to high temperature neutron irradiations and then examined to assess their performance by determining fission product retention and studying morphological changes. Micro X-ray computed tomography is one method of nondestructively studying the effects of TRISO performance. This work addresses the need for image processing to remove X-ray tomographic reconstruction artifacts that prevent the study of TRISO features, as the TRISO particles’ high Z kernel can introduce metal artifacts that degrade the image quality in the surrounding low Z coating layers. These metal artifacts were reduced by imaging the TRISO particles with both high- and low-energy X-rays and applying a mask to the radiographs obtained with low-energy X-rays to digitally remove the dense fuel kernel region. These masked radiographs were then used to produce a tomographic reconstruction which was combined with the tomographic reconstruction of the high-energy data. This enabled the relatively-low-density TRISO buffer layer to be examined in more detail, providing information on irradiation induced dimensional changes of the coatings. This methodology, which helps see the full picture of a TRISO particle, is not limited to nuclear fuels but can be applied to systems that contain highly attenuating material surrounded by less dense materials.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Feasibility Study: High-k Temperature (HiT) Fluctuation Diagnostic

The objective of the proposed research was to explore the feasibility of making measurements of high-k (electron-scale, ETG-relevant) electron temperature fluctuations in the core plasma of tokamaks and stellarators. We found that soft X-ray imaging combined with our novel pseudolocal tomographic algorithm enables local measurements of low-k (ion-scale, ITG/TEM and KBM/MTM relevant) electron temperature fluctuations in spherical tokamaks. The design parameters needed to consider deploying this new diagnostic are presented, and predictions for what the diagnostic would measure in L-mode and H-mode plasmas at NSTX-U, a high performance spherical tokamak in the USA, suggest that the new diagnostic can be used to study turbulence and transport over a wide range of plasma parameters, such as collisionality and plasma beta.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Neutron computed tomography of B12W and M8N socket sections of the Arecibo telescope

From neutron user principal investigator: We kindly request the public release of three neutron imaging datasets through ONCat. All datasets were collected from two forensic specimens, B12W and M8N, sectioned from zinc-filled steel-wire sockets recovered from the collapsed Arecibo Telescope. The dataset titled “Neutron radiographs of B12W and M8N socket sections of the Arecibo telescope” contains normalized two-dimensional (2D) neutron radiographs of the specimens, showing the geometry and spatial distribution of the steel wires embedded within the zinc matrix, as well as internal features such as voids and cracks. The dataset titled “Neutron computed tomography of B12W and M8N socket sections of the Arecibo telescope” contains normalized 2D neutron projection images acquired over a range of specimen rotation angles for one selected region of each specimen. These projection images were used to reconstruct three-dimensional (3D) tomographic volumes that reveal the embedded-wire geometry and internal defects. The dataset titled “Bragg edge imaging (BEI) of B12W and M8N socket sections of the Arecibo telescope” contains six time-of-flight (TOF) neutron imaging datasets, three from each specimen, acquired at regions of interest selected based on the radiographs. The spatially resolved 2D TOF images show the zinc matrix and embedded steel wires, and the wavelength-dependent neutron transmission data were used to characterize crystallographic texture within the zinc. All components and their condition are in the public domain as they are the property of the National Science Foundation (NSF). The neutron imaging data, part geometries, and detailed forensic information have been widely published in the Arecibo Telescope Collapse Forensic Report by Thornton Tomasetti Engineers and others (NASA report and NASEM report).

Bilheux, Hassina↗

Laser-driven high-resolution MeV x-ray tomography

The need for high-resolution MeV x-ray tomography to observe the three-dimensional structure of dense, large-sized objects is rapidly increasing for the non-destructive evaluation of critical additively manufactured parts, national security, and other applications. We report a demonstration of high-resolution MeV computed tomography of a dense, large object with a laser-driven x-ray source. A record detector-limited MeV radiograph resolution of < 200 µm as determined with the Bennett approximation of the point spread function was achieved by irradiating millimeter-thick tungsten targets with 300 TW femtosecond laser pulses at a 0.5 Hz repetition rate. A tungsten alloy step wedge spectrometer indicates that the peak of the x-ray emission is between 1 and 2 MeV, with an endpoint energy of 19 MeV. To illustrate the radiographic imaging capability of the system, a tomographic reconstruction of a nickel superalloy turbine blade ( maximum $ρr$ = 139 g/cm 2 ) with sub-millimeter resolution was performed using 2160 individual radiographs. The small x-ray source size opens the prospect of extremely high-resolution tomographs of large, dense objects. This laser-driven approach has major advantages for non-destructive evaluation.

47 OTHER INSTRUMENTATION↗

Hydrologic Impacts of a Strike-Slip Fault Zone: Insights from Joint 3D Body-Wave Tomography of Rock Valley

The Rock Valley fault zone (RVFZ), an intraplate strike-slip fault zone in the southern Nevada National Security Site (NNSS), hosted a series of very shallow (<3 km) earthquakes in 1993. The RVFZ may also have hydrological significance within the NNSS, potentially playing a role in regional groundwater flow, but there is a lack of local hydrological data. In the Spring of 2021, we collected active-source accelerated weight drop seismic data over part of the RVFZ to better characterize the shallow subsurface. Here, we manually picked ~17,000 P-wave travel times and over 14,000 S-wave travel times, which were inverted for P-wave velocity (V P ), S-wave velocity (V S ), and V P /V S ratio in a 3D joint tomographic inversion scheme. Seismic velocities are imaged as deep as ~700 m in areas and generally align with geologic and structural expectations. V P and V S are relatively reduced near mapped and inferred faults, with the most prominent lower V P and V S zone around the densest collection of faults. We image V P /V S ratios ranging from ~1.5 to ~2.4, the extremes of which occur at a depth of ~100 m and are juxtaposed across a fault. One possible interpretation of the imaged seismic velocities is enhanced fault damage near the densest collection of faults with relatively higher porosity and/or crack density at ~100 m depth, with patches of semiperched groundwater present in the sedimentary rock in higher V P /V S areas and drier rock in lower V P /V S areas. A relatively higher V P /V S area beneath the densest faults persists at depth, which suggests percolation of groundwater via the fault damage zone to the regionally connected lower carbonate aquifer. Potentially, the presence and movement of groundwater may have played a role in the 1993 earthquake aftershocks.

58 GEOSCIENCES↗

Reconstruction of Fission Product Distribution from Tomographic Scans in TRISO Fuel Graphitic Matrix and Nuclear Grade Graphites

An image reconstruction method was developed to rectify shortcomings of earlier methods that became apparent as destructively sampled data became available. This reconstruction method was applied to the tomographic gamma scans of nuclear graphite and graphitic matrix samples from AGR-3/4. There is generally agreement between profiles measured via destructive sampling of these rings and profiles from tomographic reconstruction.

11 - NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Reconstruction of Fission Product Distribution from Tomographic Scans in TRISO Fuel Graphitic Matrix and Nuclear Grade Graphites

An image reconstruction method was developed to rectify shortcomings of earlier methods that became apparent as destructively sampled data became available. This reconstruction method was applied to the tomographic gamma scans of nuclear graphite and graphitic matrix samples from AGR-3/4. There is generally agreement between profiles measured via destructive sampling of these rings and profiles from tomographic reconstruction.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Improved Tomographic Binning of 3 × 2 pt Lens Samples: Neural Network Classifiers and Optimal Bin Assignments

Abstract Large imaging surveys, such as the Legacy Survey of Space and Time, rely on photometric redshifts and tomographic binning for 3 × 2 pt analyses that combine galaxy clustering and weak lensing. In this paper, we propose a method for optimizing the tomographic binning choice for the lens sample of galaxies. We divide the CosmoDC2 and Buzzard simulated galaxy catalogs into a training set and an application set, where the training set is nonrepresentative in a realistic way, and then estimate photometric redshifts for the application sets. The galaxies are sorted into redshift bins covering equal intervals of redshift or comoving distance, or with an equal number of galaxies in each bin, and we consider a generalized extension of these approaches. We find that bins of equal comoving distance produce the highest dark energy figure of merit of the initial binning choices, but that the choice of bin edges can be further optimized. We then train a neural network classifier to identify galaxies that are either highly likely to have accurate photometric redshift estimates or highly likely to be sorted into the correct redshift bin. The neural network classifier is used to remove poor redshift estimates from the sample, and the results are compared to the case when none of the sample is removed. We find that the neural network classifiers are able to improve the figure of merit by ∼13% and are able to recover ∼25% of the loss in the figure of merit that occurs when a nonrepresentative training sample is used.

79 ASTRONOMY AND ASTROPHYSICS↗

Elucidating the Onset of Plasticity in Sliding Contacts Using Differential Computational Orientation Tomography

Abstract Depending on the mechanical and thermal energy introduced to a dry sliding interface, the near-surface regions of the mated bodies may undergo plastic deformation. In this work, we use large-scale molecular dynamics simulations to generate “differential computational orientation tomographs” (dCOT) and thus highlight changes to the microstructure near tribological FCC alloy surfaces, allowing us to detect subtle differences in lattice orientation and small distances in grain boundary migration. The analysis approach compares computationally generated orientation tomographs with their undeformed counterparts via a simple image analysis filter. We use our visualization method to discuss the acting microstructural mechanisms in a load- and time-resolved fashion, focusing on sliding conditions that lead to twinning, partial lattice rotation, and grain boundary-dominated processes. Extracting and laterally averaging the color saturation value of the generated tomographs allows us to produce quantitative time- and depth-resolved maps that give a good overview of the progress and severity of near-surface deformation. Corresponding maps of the lateral standard deviation in the color saturation show evidence of homogenization processes occurring in the tribologically loaded microstructure, frequently leading to the formation of a well-defined separation between deformed and undeformed regions. When integrated into a computational materials engineering framework, our approach could help optimize material design for tribological and other deformation problems. Graphic Abstract .

36 MATERIALS SCIENCE↗

Flow over an espresso cup: inferring 3-D velocity and pressure fields from tomographic background oriented Schlieren via physics-informed neural networks

Tomographic background oriented Schlieren (Tomo-BOS) imaging measures density or temperature fields in three dimensions using multiple camera BOS projections, and is particularly useful for instantaneous flow visualizations of complex fluid dynamics problems. We propose a new method based on physics-informed neural networks (PINNs) to infer the full continuous three-dimensional (3-D) velocity and pressure fields from snapshots of 3-D temperature fields obtained by Tomo-BOS imaging. The PINNs seamlessly integrate the underlying physics of the observed fluid flow and the visualization data, hence enabling the inference of latent quantities using limited experimental data. In this hidden fluid mechanics paradigm, we train the neural network by minimizing a loss function composed of a data mismatch term and residual terms associated with the coupled Navier–Stokes and heat transfer equations. We first quantify the accuracy of the proposed method based on a two-dimensional synthetic data set for buoyancy-driven flow, and subsequently apply it to the Tomo-BOS data set, where we are able to infer the instantaneous velocity and pressure fields of the flow over an espresso cup based only on the temperature field provided by the Tomo-BOS imaging. Moreover, we conduct an independent PIV experiment to validate the PINN inference for the unsteady velocity field at a centre plane. To explain the observed flow physics, we also perform systematic PINN simulations at different Reynolds and Richardson numbers and quantify the variations in velocity and pressure fields. Furthermore, the results in this paper indicate that the proposed deep learning technique can become a promising direction in experimental fluid mechanics.

97 MATHEMATICS AND COMPUTING↗

Towards real-time monitoring: data assimilated time-lapse full waveform inversion for seismic velocity and uncertainty estimation

SUMMARY Rapid development of time-lapse seismic monitoring instrumentations has made it possible to collect dense time-lapse data for tomographically retrieving time-lapse (even continuous) images of subsurface changes. While traditional time-lapse full waveform inversion (TLFWI) algorithms are designed for sparse time-lapse surveys, they lack of effective temporal constraint on time-lapse data, and, more importantly, lack of the uncertainty estimation of the TLFWI results that is critical for further interpretation. Here, we propose a new data assimilation TLFWI method, using hierarchical matrix powered extended Kalman filter (HiEKF) to quantify the image uncertainty. Compared to existing Kalman filter algorithms, HiEKF allows to store and update a data-sparse representation of the cross-covariance matrices and propagate model errors without expensive operations involving covariance matrices. Hence, HiEKF is computationally efficient and applicable to 3-D TLFWI problems. Then, we reformulate TLFWI in the framework of HiEKF (termed hereafter as TLFWI-HiEKF) to predict time-lapse images of subsurface spatiotemporal velocity changes and simultaneously quantify the uncertainty of the inverted velocity changes over time. We demonstrate the validity and applicability of TLFWI–HiEKF with two realistic CO2 monitoring models derived from Frio-II and Cranfield CO2 injection sites, respectively. In both 2-D and 3-D examples, the inverted high-resolution time-lapse velocity results clearly reveal a continuous velocity reduction due to the injection of CO2. Moreover, the accuracy of the model is increasing over time by assimilating more time-lapse data while the standard deviation is decreasing over lapsed time. We expect TLFWI-HiEKF to be equipped with real-time seismic monitoring systems for continuously imaging the distribution of subsurface gas and fluids in the future large-scale CO2 sequestration experiments and reservoir management.

58 GEOSCIENCES↗

Initial Measurements with the Prototype Parallel-Slit Ring Collimator Fast Neutron Emission Tomography System

Since 2017, Oak Ridge National Laboratory (ORNL) has been developing a passive fast-neutron emission tomography capability. The goal of this development is the ability to quantify the neutron source strength of individual fuel pins (rods) in spent nuclear fuel assemblies. Such a system could be used to measure the burnup of each fuel pin in a spent fuel assembly to take burnup credit when loading dry storage casks or to count individual fuel pins in spent fuel assemblies for safeguards purposes. At present, a laboratory prototype imager has been built and initial imaging measurements performed. The purpose of this prototype is to demonstrate imaging capability sufficient to resolve individual fuel pins in spent fuel assemblies, and in initial measurements, neutron sources separated by a spacing of 1.27 cm (similar to the spacing between fuel pins in commercial pressurized water reactor 17×17 nuclear fuel assemblies) have been resolved. This report documents the as-built imager, first measurements performed with it, and tomographic reconstructions performed using the measured data.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Radiographic Imaging and Tomography

Radiographic imaging and tomography (RadIT) come in many flavors such as X-ray imaging and tomography (IT), proton IT, neutron IT, muon IT, neutrino IT, etc. We identify five RadIT themes: Physics, Sources, Detectors, Methods, and Data Science, which are integral parts of image interpretation and three-dimensional (3D) tomographic reconstruction. Traditionally, RadIT have been driven by medicine, non-destructive testing, material sciences, and security applications. The latest thrusts of growth come from automation, machine vision, additive manufacturing and virtual reality (‘metaverse’). The five RadIT themes parallel their counterparts in optical IT. Synergies among different forms of RadIT and with optical IT motivate further advances towards multi-modal IT and quantum IT.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DESI luminous red galaxy samples for cross-correlations

We present two galaxy samples, selected from DESI Legacy Imaging Surveys (LS) DR9, with approximately 20,000 square degrees of coverage and spectroscopic redshift distributions designed for cross-correlations such as with CMB lensing, galaxy lensing, and the Sunyaev-Zel'dovich effect. The first sample is identical to the DESI Luminous Red Galaxy (LRG) sample, and the second sample is an extended LRG sample with 2–3 times the DESI LRG density. We present the improved photometric redshifts, tomographic binning and their spectroscopic redshift distributions and imaging systematics weights, and magnification bias coefficients. The catalogs and related data products will be made publicly available. The cosmological constraints using this sample and Planck lensing maps are presented in a companion paper. Here, we also make public the new set of general-purpose photometric redshifts trained using DESI spectroscopic redshifts, which are used in this work, for all galaxies in LS DR9.

79 ASTRONOMY AND ASTROPHYSICS↗

Mapping and imaging ionizing radiation in two and three dimensions

A two-dimensional imaging system and a two-dimensional or three-dimensional optical tomographic mapping system, each employing gas scintillation induced by ionizing radiation, i.e., radioluminescence, and corresponding methods, are disclosed. The systems may employ one or more cameras and corresponding UV filters (potentially solar blind filters) for imaging a radioluminescent scene. For two-dimensional or three-dimensional mapping, the resultant UV images are spatially registered with one another and then reconstructed to form a three-dimensional tomographic map of the ionizing radiation. The two-dimensional map is a plane of the three-dimensional map. The UV images may be spatially registered by using a reference source, optionally, a calibrated reference source allowing dosimetry calculations for the ionizing radiation. Molecular nitrogen is the primary candidate for the radioluminescent gas, though a controlled ambient in a chamber of nitric oxide, argon, krypton, or xenon may be employed. The reconstruction process employs an algebraic reconstruction technique or an Abel inversion.

Bentz, Brian Z.↗

Bilevel optimization, deep learning and fractional Laplacian regularization with applications in tomography

Here we consider a generalized bilevel optimization framework for solving inverse problems. We introduce fractional Laplacian as a regularizer to improve the reconstruction quality, and compare it with the total variation regularization. We emphasize that the key advantage of using fractional Laplacian as a regularizer is that it leads to a linear operator, as opposed to the total variation regularization which results in a nonlinear degenerate operator. Inspired by residual neural networks, to learn the optimal strength of regularization and the exponent of fractional Laplacian, we develop a dedicated bilevel optimization neural network with a variable depth for a general regularized inverse problem. We illustrate how to incorporate various regularizer choices into our proposed network. As an example, we consider tomographic reconstruction as a model problem and show an improvement in reconstruction quality, especially for limited data, via fractional Laplacian regularization. We successfully learn the regularization strength and the fractional exponent via our proposed bilevel optimization neural network. We observe that the fractional Laplacian regularization outperforms total variation regularization. This is specially encouraging, and important, in the case of limited and noisy data.

97 MATHEMATICS AND COMPUTING↗

Galaxy clustering in the DESI Legacy Survey and its imprint on the CMB

ABSTRACT We use data from the DESI Legacy Survey imaging to probe the galaxy density field in tomographic slices covering the redshift range 0 < z < 0.8. After careful consideration of completeness corrections and galactic cuts, we obtain a sample of 4.9 × 107 galaxies covering 17 739 deg2. We derive photometric redshifts with precision σz/(1 + z) = 0.012−0.015, and compare with alternative estimates.1 Cross-correlation of the tomographic galaxy maps with Planck maps of cosmic microwave background (CMB) temperature and lensing convergence probe the growth of structure since z = 0.8. The signals are compared with a fiducial Planck ΛCDM model, and require an overall scaling in amplitude of Aκ = 0.901 ± 0.026 for the lensing cross-correlation and AISW = 0.984 ± 0.349 for the temperature cross-correlation, interpreted as the integrated Sachs–Wolfe effect. The ISW amplitude is consistent with the fiducial Λ cold dark matter (ΛCDM) prediction, but lies significantly below the prediction of the AvERA model of Rácz et al., which has been proposed as an alternative explanation for cosmic acceleration. Within ΛCDM, our low amplitude for the lensing cross-correlation requires a reduction either in fluctuation normalization or in matter density compared to the Planck results, so that $\Omega _\mathrm{ m}^{0.78}\sigma _8=0.297\pm 0.009$. In combination with the total amplitude of CMB lensing, this favours a shift mainly in density: Ωm = 0.274 ± 0.024. We discuss the consistency of this figure with alternative evidence. A conservative compromise between lensing and primary CMB constraints would require Ωm = 0.296 ± 0.006, where the 95 per cent confidence regions of both probes overlap.

Hang, Qianjun↗