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DOE OSTI2022

Accelerating error correction in tomographic reconstruction

Abstract Spurred by recent advances in detector technology and X-ray optics, upgrades to scanning-probe-based tomographic imaging have led to an exponential growth in the amount and complexity of experimental data and have created a clear opportunity for tomographic imaging to approach single-atom sensitivity. The improved spatial resolution, however, is highly susceptible to systematic and random experimental errors, such as center of rotation drifts, which may lead to imaging artifacts and prevent reliable data extraction. Here, we present a model-based approach that simultaneously optimizes the reconstructed specimen and sinogram alignment as a single optimization problem for tomographic reconstruction with center of rotation error correction. Our algorithm utilizes an adaptive regularizer that is dynamically adjusted at each alternating iteration step. Furthermore, we describe its implementation in a software package targeting high-throughput workflows for execution on distributed-memory clusters. We demonstrate the performance of our solver on large-scale synthetic problems and show that it is robust to a wide range of noise and experimental drifts with near-ideal throughput.

Ali, Sajid (ORCID:0000000321864636)↗

DOE OSTI2012

Design of the reflective optics for Tore Supra ECEI system

A 2D electron cyclotron emission (ECE) imaging system for Tore Supra is under design for studying the MHD physics of the magnetically confined plasma such as sawteeth, tearing modes, and turbulent fluctuations. Complex beam path due to the tight access in Tore Supra led to the design of reflective optics made of 6 or more large cylindrical/flat mirrors. The total path length of the ECE beam is about 11 m, including almost 4 m inside the vacuum vessel. The imaging property of the optics has been estimated using the Gaussian beam simulation and ray transfer analysis. The possible setups for the optical alignment of the diagnostic and the operation scenarios with single- or dual-array measurement system are discussed.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2025

Compression–tension cell with sample manipulator for in situ X‐ray nanotomography experiments

In situ X-ray nanotomography experiments where tensile or compressive force is applied on the sample require specialized equipment. A compression-tension device with fluid flow-through capability has been designed for X-ray nanotomography beamlines. The compression-tension cell is equipped with a triaxial stage for sample alignment and a high sensitivity loadcell for measurement of applied force. To handle the <100 µm samples used for X-ray nanotomography imaging and for loading samples on the compression-tension cell a sample manipulator has been built. The sample manipulator is capable of selecting a single <100 µm particle for nanotomography scanning while viewing multiple samples under an optical microscope. To test the functionality of these two devices an initial compression experiment involving two glass beads was performed. To demonstrate instrument stability two spherical glass beads were compressed from a no load condition until one of the beads fractured. Nanotomography data were collected at each step of increasing compressive force. The experimentally observed contact area of the spherical glass beads was compared with the theoretical estimate using the Hertz analysis. To demonstrate the fluid flow capability, two calcite grains were compressed against each other under a calcite saturated solution. Surface topological changes were observed for the stressed grain contact area.

X-ray tomography↗

NASA NTRS1980

Diffuse X-ray emission from the jets of SS 433

The detection of large-scale diffuse X-ray jets from the variable-emission-line object SS 433 is reported. Observations were made with the high resolution imager and imaging proportional counter on board the Einstein X-ray Observatory. The two diffuse X-ray features discovered are found to be aligned with both the central source of SS 433 and with the bulges of the shell of the huge supernova remnant W 50 associated with SS 433, thus confirming the detection of jets related to SS 433 and the link between SS 433 and W 50, establishing a minimum age of 1000 years for the jet phenomenon and offering an explanation of the size of W 50. Processes by which two oppositely directed beams of material from the SS 433 source region may emit the diffuse X-rays are then considered, including shock heating by interactions with the ambient medium and synchrotron radiation. Similarities between the morphologies of the diffuse X-ray emission and those of radio galaxies are also noted.

Seward, F.↗

NASA NTRS1991

Concentration measurements in an axisymmetric jet using laser-induced fluorescence

Errors associated with the use of an image processing technique to correct images of an axisymmetric jet produced by laser-induced fluorescence are analyzed. In particular, attention is given to errors related to the alignment of the optical system, spreading of the laser light sheet, laser light attenuation due to light absorption by the fluorescent dye, and solubility effects. Although the above effects are negligible in the case of a small low-concentration jet, they are not negligible in all fluorescent dye experiments.

Shoe, B.↗

NASA NTRS2011

Computer Generated Hologram System for Wavefront Measurement System Calibration

Computer Generated Holograms (CGHs) have been used for some time to calibrate interferometers that require nulling optics. A typical scenario is the testing of aspheric surfaces with an interferometer placed near the paraxial center of curvature. Existing CGH technology suffers from a reduced capacity to calibrate middle and high spatial frequencies. The root cause of this shortcoming is as follows: the CGH is not placed at an image conjugate of the asphere due to limitations imposed by the geometry of the test and the allowable size of the CGH. This innovation provides a calibration system where the imaging properties in calibration can be made comparable to the test configuration. Thus, if the test is designed to have good imaging properties, then middle and high spatial frequency errors in the test system can be well calibrated. The improved imaging properties are provided by a rudimentary auxiliary optic as part of the calibration system. The auxiliary optic is simple to characterize and align to the CGH. Use of the auxiliary optic also reduces the size of the CGH required for calibration and the density of the lines required for the CGH. The resulting CGH is less expensive than the existing technology and has reduced write error and alignment error sensitivities. This CGH system is suitable for any kind of calibration using an interferometer when high spatial resolution is required. It is especially well suited for tests that include segmented optical components or large apertures.

Olczak, Gene↗

NASA NTRS2010

Dynamics of Ring Current and Electric Fields in the Inner Magnetosphere During Disturbed Periods: CRCM-BATS-R-US Coupled Model

We present simulation results from a one-way coupled global MHD model (Block-Adaptive-Tree Solar-Wind Roe-Type Upwind Scheme, BATS-R-US) and kinetic ring current models (Comprehensive Ring Current Model, CRCM, and Fok Ring Current, FokRC). The BATS-R-US provides the CRCM/FokRC with magnetic field information and plasma density/temperature at the polar CRCM/FokRC boundary. The CRCM uses an electric potential from the BATS-R-US ionospheric solver at the polar CRCM boundary in order to calculate the electric field pattern consistent with the CRCM pressure distribution. The FokRC electric field potential is taken from BATS-R-US ionospheric solver everywhere in the modeled region, and the effect of Region II currents is neglected. We show that for an idealized case with southward-northward-southward Bz IMF turning, CRCM-BATS-R-US reproduces well known features of inner magnetosphere electrodynamics: strong/weak convection under the southward/northward Bz; electric field shielding/overshielding/penetration effects; an injection during the substorm development; Subauroral Ion Drift or Polarization Jet (SAID/PJ) signature in the dusk sector. Furthermore, we find for the idealized case that SAID/PJ forms during the substorm growth phase, and that substorm injection has its own structure of field-aligned currents which resembles a substorm current wedge. For an actual event (12 August 2000 storm), we calculate ENA emissions and compare with Imager for Magnetopause-to-Aurora Global Exploration/High Energy Neutral Atom data. The CRCM-BATS-R-US reproduces both the global morphology of ring current and the fine structure of ring current injection. The FokRC-BATS-R-US shows the effect of a realistic description of Region II currents in ring current-MHD coupled models.

Buzulukova, N.↗

NASA NTRS2011

NIRCam: Development and Testing of the JWST Near-Infrared Camera

The Near Infrared Camera (NIRCam) is one of the four science instruments of the James Webb Space Telescope (JWST). Its high sensitivity, high spatial resolution images over the 0.6 - 5 microns wavelength region will be essential for making significant findings in many science areas as well as for aligning the JWST primary mirror segments and telescope. The NIRCam engineering test unit was recently assembled and has undergone successful cryogenic testing. The NIRCam collimator and camera optics and their mountings are also progressing, with a brass-board system demonstrating relatively low wavefront error across a wide field of view. The flight model?s long-wavelength Si grisms have been fabricated, and its coronagraph masks are now being made. Both the short (0.6 - 2.3 microns) and long (2.4 - 5.0 microns) wavelength flight detectors show good performance and are undergoing final assembly and testing. The flight model subsystems should all be completed later this year through early 2011, and NIRCam will be cryogenically tested in the first half of 2011 before delivery to the JWST integrated science instrument module (ISIM).

Greene, Thomas↗

NASA NTRS2021

Compact, Self-Aligned Focusing Schlieren System

A novel compact, self-aligned focusing Schlieren system is presented that eliminates the need for a separate source grid and cutoff grid. A single grid element serves to both generate a projected source grid onto a retroreflective background, and to act as the cutoff grid for the reflected light. This is made possible by manipulating the polarization of the light through the system. The use of only a single grid element eliminates the need to create a cutoff grid that is perfectly matched and scaled to the source grid, and removes the need to align the source and cutoff grids to each other. The sensitivity to density objects is adjustable with the use of a polarizing prism. Images obtained with this system show similar operation to existing focusing Schlieren systems, but with much reduced complexity and setup time. Images taken with acrylic windows placed nor-mal to the optical axis further demonstrate the system’s utility for wind tunnel measurements.

Focusing Schlieren↗

NASA NTRS2023

Shape from spectra

We introduce a new unified atmospheric–topographic correction approach that estimates surface geometry directly from the radiance measurement. Surface topography influences the at-sensor radiance measurement, making precise topography modeling critical in applications like vegetation or snow studies in mountainous terrain. Currently, elevation maps are used to derive topographic variables such as the slope and sky-view factor. This process is error-prone since static global digital elevation models do not generally achieve the accuracy required, and even minor mismatches in spatial resolution can introduce significant artifacts in downstream processing. Here we demonstrate that it is possible to estimate topographic parameters directly from spectral data, ensuring perfect physical consistency, temporal coincidence, and spatial alignment. We present experiments estimating topographic slope in two scenes in Southern California, with data from NASA’s Next Generation Airborne Visible/Near Infrared Imaging Spectrometer (AVIRIS-NG). We compared our radiance-based estimates against high-resolution lidar datasets. Our initial validation result showed a correlation of R 2 = 0.864 (n = 160) over the homogeneous surface of Beckman Auditorium’s cone-shaped roof on the Caltech campus in Pasadena, California. We then validate the model over a larger study site near Santa Clarita, California, finding R 2 = 0.923 (n = 40,000) in a 350 x 350m area. The accuracy of our model estimates, combined with its systematic advantages over the alternative, show the potential of the approach for use in both airborne campaigns and orbital missions.

Nimrod Carmon↗

NASA NTRS2023

Large Photospheric Doppler Shift in Solar Active Region 12673: I. Field-Aligned Flows

Delta (δ) sunspots sometimes host fast photospheric flows along the central magnetic polarity inversion line (PIL). Here we study the strong Doppler shift signature in the central penumbral light bridge of solar active region NOAA 12673. Observations from the Helioseismic and Magnetic Imager (HMI) indicate highly sheared, strong magnetic fields. Large Doppler shifts up to 3.2 km s −1 appeared during the formation of the light bridge and persisted for about 16 hours. A new velocity estimator, called DAVE4VMwDV, reveals fast converging and shearing motion along the PIL from HMI vector magnetograms, and recovers the observed Doppler signal much better than an old version of the algorithm. The inferred velocity vectors are largely (anti-)parallel to the inclined magnetic fields, suggesting that the observed Doppler shift contains significant contribution from the projected, field-aligned flows. High-resolution observations from the Hinode/Spectro-Polarimeter (SP) further exhibit a clear correlation between the Doppler velocity and the cosine of the magnetic inclination, which is in agreement with HMI results and consistent with a field-aligned flow of about 9.6 km s −1 . The complex Stokes profiles suggest significant gradients of physical variables along the line of sight. We discuss the implications on the δ-spot magnetic structure and the flow-driving mechanism.

Solar active region magnetic fields↗

NASA NTRS2011

On-Orbit Solar Dynamics Observatory (SDO) Star Tracker Warm Pixel Analysis

This paper describes the process of identification and analysis of warm pixels in two autonomous star trackers on the Solar Dynamics Observatory (SDO) mission. A brief description of the mission orbit and attitude regimes is discussed and pertinent star tracker hardware specifications are given. Warm pixels are defined and the Quality Index parameter is introduced, which can be explained qualitatively as a manifestation of a possible warm pixel event. A description of the algorithm used to identify warm pixel candidates is given. Finally, analysis of dumps of on-orbit star tracker charge coupled devices (CCD) images is presented and an operational plan going forward is discussed. SDO, launched on February 11, 2010, is operated from the NASA Goddard Space Flight Center (GSFC). SDO is in a geosynchronous orbit with a 28.5 inclination. The nominal mission attitude points the spacecraft X-axis at the Sun, with the spacecraft Z-axis roughly aligned with the Solar North Pole. The spacecraft Y-axis completes the triad. In attitude, SDO moves approximately 0.04 per hour, mostly about the spacecraft Z-axis. The SDO star trackers, manufactured by Galileo Avionica, project the images of stars in their 16.4deg x 16.4deg fields-of-view onto CCD detectors consisting of 512 x 512 pixels. The trackers autonomously identify the star patterns and provide an attitude estimate. Each unit is able to track up to 9 stars. Additionally, each tracker calculates a parameter called the Quality Index, which is a measure of the quality of the attitude solution. Each pixel in the CCD measures the intensity of light and a warns pixel is defined as having a measurement consistently and significantly higher than the mean background intensity level. A warns pixel should also have lower intensity than a pixel containing a star image and will not move across the field of view as the attitude changes (as would a dim star image). It should be noted that the maximum error introduced in the star tracker attitude solution during suspected warm pixel corruptions is within the specified 36 attitude error budget requirement of [35, 70, 70] arcseconds. Thus, the star trackers provided attitude accuracy within the specification for SDO. The star tracker images are intentionally defocused so each star image is detected in more than one CCD pixel. The position of each star is calculated as an intensity-weighted average of the illuminated pixels. The exact method of finding the positions is proprietary to the tracker manufacturer. When a warm pixel happens to be in the vicinity of a star, it can corrupt the calculation of the position of that particular star, thereby corrupting the estimate of the attitude.

Felikson, Denis↗

NASA NTRS1994

Formation and eruption of Sun-aligned arcs at the polar cap-auroral oval boundary

This paper reports on results from a study of the poleward edge of the auroral oval in the morning sector using a comprehensive blend of in-situ and ground-based measurements. Three rockets, equipped to measure electric and magnetic fields, energetic particles, and plasma density flew into an auroral display whose dynamical features were reorded with a digital image into an auroral display intensified all-sky camera as well as with an incoherent scatter radar. In addition, a number of DMSP satellite measurements bracketed the launch time. Evidence is presented here that in a condition of declining magnetic activity Sun-aligned arcs are injected into the polar cap at velocities approximately 7 km/s from locations of periodic brightening along the morningside of the auroral oval. The multipoint in situ measurements allow some separation of temporal and spatial effects and strongly suggest a poleward contraction of the convention pattern of about 0.25 deg INVL in 70 s. The most equatorward of the two brightest arcs studied erupted into a region which already was characterized by strong sunward convection. The most poleward, however, pushed into a region that had been convecting in an antisunward direction at velocities exceeding 1 km/s less than 2 min earlier, and it is likely that sunward convection subsequently pertained poleward of that arc as well. We believe that these events mark the reconfiguration of the magnetosphere into a system characterized by a smaller polar cap.

Berg, G. A.↗

DOE OSTI2018

Antimicrobial Properties of 2D MnO 2 and MoS 2 Nanomaterials Vertically Aligned on Graphene Materials and Ti 3 C 2 MXene

Two-dimensional (2D) nanomaterials have attracted considerable attention in biomedical and environmental applications due to their antimicrobial activity. In the interest of investigating the primary antimicrobial mode-of-action of 2D nanomaterials, we studied the antimicrobial properties of MnO 2 and MoS 2 , toward Gram-positive and Gram-negative bacteria. Bacillus subtilis and Escherichia coli bacteria were treated individually with 100 μg/mL of randomly oriented and vertically aligned nanomaterials for ~3 h in the dark. The vertically aligned 2D MnO 2 and MoS 2 were grown on 2D sheets of graphene oxide, reduced graphene oxide, and Ti 3 C 2 MXene. Measurements to determine the viability of bacteria in the presence of the 2D nanomaterials performed by using two complementary techniques, flow cytometry, and fluorescence imaging showed that, while MnO 2 and MoS 2 nanosheets show different antibacterial activities, in both cases, Gram-positive bacteria show a higher loss in membrane integrity. Scanning electron microscopy images suggest that the 2D nanomaterials, which have a detrimental effect on bacteria viability, compromise the cell wall, leading to significant morphological changes. Here, we propose that the peptidoglycan mesh (PM) in the bacterial wall is likely the primary target of the 2D nanomaterials. Vertically aligned 2D MnO 2 nanosheets showed the highest antimicrobial activity, suggesting that the edges of the nanosheets were likely compromising the cell walls upon contact.

2D nanomaterials↗

DOE OSTI2011

Quantifying the Reproducibility of Heart Position During Treatment and Corresponding Delivered Heart Dose in Voluntary Deep Inhalation Breath Hold for Left Breast Cancer Patients Treated With External Beam Radiotherapy

Purpose: Voluntary deep inhalation breath hold (VDIBH) reduces heart dose during left breast irradiation. We present results of the first study performed to quantify reproducibility of breath hold using bony anatomy, heart position, and heart dose for VDIBH patients at treatment table. Methods and Materials: Data from 10 left breast cancer patients undergoing VDIBH whole-breast irradiation were analyzed. Two computed tomography (CT) scans, free breathing (FB) and VDIBH, were acquired to compare dose to critical structures. Pretreatment weekly kV orthogonal images and tangential ports were acquired. The displacement difference from spinal cord to sternum across the isocenter between coregistered planning Digitally Reconstructed Radiographs (DRRs) and kV imaging of bony thorax is a measure of breath hold reproducibility. The difference between bony coregistration and heart coregistration was the measured heart shift if the patient is aligned to bony anatomy. Results: Percentage of dose reductions from FB to VDIBH: mean heart dose (48%, SD 19%, p = 0.002), mean LAD dose (43%, SD 19%, p = 0.008), and maximum left anterior descending (LAD) dose (60%, SD 22%, p = 0.008). Average breath hold reproducibility using bony anatomy across the isocenter along the anteroposterior (AP) plane from planning to treatment is 1 (range, 0-3; SD, 1) mm. Average heart shifts with respect to bony anatomy between different breath holds are 2 {+-} 3 mm inferior, 1 {+-} 2 mm right, and 1 {+-} 3 mm posterior. Percentage dose changes from planning to delivery: mean heart dose (7%, SD 6%); mean LAD dose, ((9%, SD 7%)S, and maximum LAD dose, (11%, SD 11%) SD 11%, p = 0.008). Conclusion: We observed excellent three-dimensional bony registration between planning and pretreatment imaging. Reduced delivered dose to heart and LAD is maintained throughout VDIBH treatment.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

NASA NTRS2015

Low-Altitude Satellite Measurements of Pulsating Auroral Electrons

We present observations from the Defense Meteorological Satellite Program and Reimei satellites, where common-volume high-resolution ground-based auroral imaging data are available. These satellite overpasses of ground-based all-sky imagers reveal the specific features of the electron populations responsible for different types of pulsating aurora modulations. The energies causing the pulsating aurora mostly range from 3 keV to 20 keV but can at times extend up to 30 keV. The secondary, low-energy electrons (<1 keV) are diminished from the precipitating distribution when there are strong temporal variations in auroral intensity. There are often persistent spatial structures present inside regions of pulsating aurora, and in these regions there are secondary electrons in the precipitating populations. The reduction of secondary electrons is consistent with the strongly temporally varying pulsating aurora being associated with field-aligned currents and hence parallel potential drops of up to 1 kV.

imaging↗

NASA NTRS2020

OSA Spotlight Summary: Designing Miniature X-ray Optics for the SmallSat Lunar Science Mission Concept CubeX

The scientific demand for extended field X-Ray remote sensing for mapping of planetary bodies has produced the CubeSat X-ray Telescope (CubeX) lunar mission concept. Orbiting the Moon at 6,000 km for 1 year sometime during the mid-decade solar maximum, the primary objectives of CubeX are to map lunar surface elemental abundances and to assess feasibility of x-ray pulsar timing navigation. CubeX’s Miniature X-ray Optics (MiXO) design builds on heritage of existing X-ray imaging designs using new electroformed NiCo alloy replication (ENR) to create shells of 1 mm thickness. MiXO will provide 1 arcmin resolution X-Ray imaging for an extended instantaneous field of view, at various energy range sensitivities. Based on the classic Wolter-Type I design (using a paraboloid/hyperboloid grazing mirror pair), mirror parameters were expanded to allow both shell length and focal-plane offsets to vary independently. The design was optimized with a merit function that factored together four sub-merits: PSF sharpness (measured as half-power diameter), consistency across the field, minimized scattering, and maximized effective area. Monte Carlo analysis was used to predict final performance, including surface scatter effects. The demonstrated configurations include a compact 34 shell design with a diameter of 105 mm more efficient at higher energies, and a larger 130 mm/24 shell version with a larger overall effective area at lower energies. The compact design carries more expensive fabrication and assembly cost (with more shells) as well as a more challenging alignment (with denser packing). Both have overall resolution <1’ up to 26’ off-axis and <1.5’ up to 33’ off-axis, whereas a conventional design’s image quality degrades quickly beyond 15’ off-axis. This opens up new possibilities for future SmallSat missions that could use two different configurations for wide energy ranges or midsized instruments using multiple identical modules for larger collecting area.

x-ray↗

DOE OSTI2022

Confined Growth of DNA-Assembled Superlattice Films

Here, we study the assembly of DNA-functionalized nanocubes under lateral confinement in microscale square trenches on a DNA-functionalized substrate. Microfocus small-angle X-ray scattering (SAXS) and scanning electron microscopy (SEM) are used to characterize the superlattices (SLs). The results indicate that nanocubes form simple-cubic SLs with square-prism morphology and a (100) out-of-plane orientation to maximize DNA bonding. In-plane, SLs align with the template, exposing their {100} side facets, and the degree of alignment depends on trench size. Interestingly, the distribution of in-plane orientations determined from SAXS and SEM do not agree, indicating that the internal and external structures of the SLs differ. To understand this discrepancy, X-ray ptychography is employed to image the internal structures of the SLs, revealing that SLs which appear to be single-crystalline in SEM may have subsurface grain boundaries, depending on trench size. SEM reveals that the SLs grow via nucleation and growth of randomly oriented domains, which then coalesce; this mechanism explains the observed dependence of alignment and defect structure on size. Interestingly, crystallization occurs via an unusual growth mode, whereby continuous SL layers grow on top of several misoriented islands. Overall, this work elucidates the effect of lateral confinement on the crystallization of DNA-functionalized nanoparticles and shows how X-ray ptychography can be used to gain insight into nanoparticle crystallization.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗