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Analysis of X-ray images and spectra (aXis2000): A toolkit for the analysis of X-ray spectromicroscopy data

Spectromicroscopy refers to analytical methods that combine imaging and spectroscopy to provide detailed, spatially resolved analytical information about a sample, such as the type and quantitative spatial distributions of chemical components, geometric or magnetic alignment information, crystal structure, etc. The analysis of X-ray images and spectra (aXis2000) software described in this work provides a set of routines within a single, integrated, graphical-oriented package to read, display, manipulate and analyze spectromicroscopy data, with particular focus on soft X-ray spectromicroscopy methods such as scanning transmission X-ray microscopy (STXM), X-ray photoemission electron microscopy (XPEEM), scanning photoelectron X-ray microscopy (SPEM) and transmission X-ray microscopy (TXM). Here, this free software is described and compared to other software that can provide similar or complementary capabilities. Examples of spectromicroscopic analyses using advanced features of aXis2000 are provided.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Multi-technique characterization of iron reduction by an Antarctic Shewanella : an analog system for putative Martian biosignature identification

ABSTRACT Microbes from terrestrial extreme environments enable testing of biosignature production in conditions relevant to astrobiological targets. Mars, which was likely more conducive to life during early warmer and wetter epochs, has inspired missions that search for signs of early life in the surficial rock record, including mineral or organic biosignatures. Microbial iron reduction is a common and ancient metabolism that may have also operated on other rocky celestial bodies. To investigate biosignature production during iron reduction, aShewanellasp. (strain BF02_Schw) isolated from a subglacial discharge known as Blood Falls, Antarctica, was incubated with the electron acceptor ferrihydrite (Fh). Biosignatures associated with Fh reduction were identified using a suite of techniques currently utilized or proposed for Mars missions, including X-ray diffraction and infrared, Mössbauer, and Raman spectroscopy. The biotic origin of features was validated by transcriptional changes observed between treatments with and without Fh and comparison to killed controls. In live treatments, Fh was reduced to magnetite and goethite, both detected in Martian lacustrine basins. Several soluble and volatile metabolites were also detected, including riboflavin and dimethyl sulfide (DMS), which could be astrobiological indicators of active microbial processes. While none of the identified biosignatures individually would serve as definitive proof of life (past or present), detecting concomitant features associated with known terrestrial biotic processes would provide compelling rationale for more targeted life detection missions. Terrestrial extremophiles can support the exploration of astrobiologically relevant microbial processes, validation of life detection instrumentation, and potentially the discovery of new biomarkers. IMPORTANCE Culture-based experiments with terrestrial extremophiles can elucidate biosignatures that may be analogous to those produced under extraterrestrial conditions, and thus inform sampling and technology strategies for future missions. Here, we demonstrate the production of several biosignatures under iron-reducing conditions byShewanellasp. BF02_Schw, originally isolated from an Antarctic analog feature. These biosignatures could be detectable using flight-ready instrumentation. Growth experiments with terrestrial extremophiles can identify biosignatures measurable by current methodologies and inform the development and optimization of techniques for detecting extant or extinct life on other worlds.

Biotechnology & Applied Microbiology↗

Editorial: Resolving atmospheric flow in complex environments: recent experiments in terrain and forest canopies

The characterization of atmospheric flows in complex environments, which may include steep terrain slopes and heterogeneous vegetation and/or forest cover, is a long-standing challenge in boundary-layer meteorology. Atmospheric observations are complicated by the presence of transient, terrain-induced flow features, forest-canopy-atmosphere interactions, and atmospheric stability effects, not to mention the logistical hurdles involved with instrument deployment, data analysis, and quality control. Furthermore, challenges in atmospheric modeling arise due to numerical errors associated with complex terrain flows, as well as reliance on simplified parameterizations for unresolved processes such as turbulent mixing and land-surface or forest-canopy-atmosphere interactions. These modeling challenges are exacerbated in the so-called “gray zone,” wherein features of interest have length scales that are similar to the model grid spacing, or when the principal flow layer is smaller than the grid spacing (e.g., slope flows).

54 ENVIRONMENTAL SCIENCES↗

Technical Note: SABRS-3 ZEP D3 Periodicities

This technical note documents an investigation of periodic structure in SABRS ZEP D3 detector data spanning February 2022 through April 2026. The analysis was motivated by reports from the co-located NRL SIRI-2 instrument of a 5-minute periodicity beginning in 2026. This report presents null results for the 5-minute search and documents an ambiguous 18.6-hour spectral feature for future reference.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Experiments at Jefferson Lab

This chapter presents experiments conducted at Thomas Jefferson National Accelerator Facility (Jefferson Lab), a U.S. Department of Energy national laboratory in Newport News, Virginia. There, physicists exploring the nature of matter make use of the Continuous Electron Beam Accelerator Facility (CEBAF), a DOE Office of Science user facility that enables the research of more than 1,650 scientists worldwide. CEBAF’s precise electron beams can reach energies up to 12 billion electron-volts and exhibit high degrees of polarization. Jefferson Lab’s first experiment began taking data in 1995. Since then, the facility has become a world leader in the study of quantum chromodynamics. Today, experiments are carried out simultaneously in four experimental halls, each with specialized capabilities. The primary instruments in use are focusing or large-acceptance magnetic spectrometers, many of which feature superconducting elements. Jefferson Lab’s physics program provides unprecedented insight into the particles and forces that shape the visible universe.

Achenbach, Patrick [Thomas Jefferson National Acce↗

Conceptual Design of a Scintillator-Based Fast-Ion Loss Detector for the Wendelstein 7-X Stellarator

Here, a conceptual design of a scintillator-based fast-ion loss detector (FILD) has been developed for the Wendelstein 7-X stellarator (W7-X). Simulations using the Monte Carlo codes ASCOT5 and BEAMS3D have been performed to calculate the expected flux of neutral beam injection (NBI)-generated fast hydrogen ions onto the conceptual detector probe head. These fast-ion loss fluxes have been calculated for several magnetic field configurations as well as probe insertion positions. At the maximum insertion position, both co-and counter-going losses with high incident pitch angles are observed; however, at retracted positions, only co-going fast ions reach the probe head. The FILDSIM code has been used to optimize the geometry of the detector entrance and collimating elements to achieve a wide velocity space coverage as well as a high velocity–space resolution. A synthetic FILD signal is calculated for the expected loss distribution via forward modeling using the instrument response function. The synthetic signal is found to largely retain the velocity space features of the loss distribution.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Nuclear Safety [Vol. 33, No. 4, October-December 1992]

Nuclear Safety is a review journal that covers significant developments in the field of nuclear safety. Its scope includes the analysis and control of hazards associated with nuclear energy, operations involving fissionable materials, and the products of nuclear fission and their effects on the environment. Primary emphasis is on safety in reactor design, construction, and operation; however, the safety aspects of the entire fuel cycle, including fuel fabrication, spent-fuel processing, nuclear waste disposal, handling of radioisotopes, and environmental effects of these operations, are also treated. Table of Contents for this issue follows. GENERAL SAFETY CONSIDERATIONS: 499 Technical Note: Nuclear Regulatory Commission’s Examination Question Bank System, C. L Jensen and N. L. Skinner; 506 Report on the Specialists’ Meeting on Passive and Active Safety Features of Liquid-Metal Fast Breeder Reactors Organized by the International Atomic Energy Agency at Oarai Engineering Centre of Power Reactor and Nuclear Development Corporation, Japan, November 5-7,1991, S. R. Paranjpe; ACCIDENT ANALYSIS: 514 A Review of Hydrogen Production During Melt/Water Interaction in LWRs, D. F. Fletcher, B. D. Turland, and S. P. A. Lawrence; 535 A Review of the U 3 0 8 -Al Reaction as a Potential Heat Source in Research and Test Reactor Accidents, J. L. Snelgrove; CONTROL AND INSTRUMENTATION: 543 Multilevel Interfaces for Power Plant Control Rooms II: A Preliminary Design Space, K. J. Vicente; DESIGN FEATURES: 549 Twenty-Second DOE/NRC Nuclear Air Cleaning and Treatment Conference, R. R. Bellamy, D. W. Moeller, and M. W. First; 562 Book Review: Safety Assessment of Unit 5 (WWER-440/W-213) of the Greifswald Nuclear Power Station, M. H. Fontana; WASTE AND SPENT FUEL MANAGEMENT: 576 Activities Related to Waste and Spent Fuel Management, M. D. Muhlheim and E. G. Silver; OPERATING EXPERIENCES: 586 Analysis of Corrective Actions Applied to Nuclear Power Plant Operations, A. E. Cross; 593 Reactor Shutdown Experience, Compiled by J. W. Cletcher; 596 Operating U.S. Power Reactors, Compiled by M. D. Muhlheim and E. G. Silver; 609 Non-Commercial Power Operating Experience; 614 World Nuclear Performance, Compiled by M. D. Muhlheim; RECENT DEVELOPMENTS: 623 General Administrative Activities, Compiled by M. D. Muhlheim and E. G. Silver; 635 Reports, Standards, and Safety Guides, D. S. Queener; 639 Proposed Rule Changes as of June 30, 1992; ANNOUNCEMENTS: 513 Fourth International Conference on Nuclear Fuel Reprocessing and Waste Management RECOD '94; 585 International Topical Meeting on Advanced Reactors Safety; 622 International Workshop on Implementation of ALARA at Nuclear Power Plants; 648 Short Course on Nuclear Criticality Safety; 648 8th Topical Meeting on Problems in Reactor Physics MEPhi-VOLGA-93; 643 The Authors; 646 Reviewers of Nuclear Safety, Vol. 33

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Validation of the DESI 2024 Lyman alpha forest BAL masking strategy

Broad absorption line quasars (BALs) exhibit blueshifted absorption relative to a number of their prominent broad emission features. These absorption features can contribute to quasar redshift errors and add absorption to the Lyman-α (Lyα) forest that is unrelated to large-scale structure. We present a detailed analysis of the impact of BALs on the Baryon Acoustic Oscillation (BAO) results with the Lyα forest from the first year of data from the Dark Energy Spectroscopic Instrument (DESI). The baseline strategy for the first year analysis is to mask all pixels associated with all BAL absorption features that fall within the wavelength region used to measure the forest. We explore a range of alternate masking strategies and demonstrate that these changes have minimal impact on the BAO measurements with both DESI data and synthetic data. This includes when we mask the BAL features associated with emission lines outside of the forest region to minimize their contribution to redshift errors. We identify differences in the properties of BALs in the synthetic datasets relative to the observational data, as well as use the synthetic observations to characterize the completeness of the BAL identification algorithm, and demonstrate that incompleteness and differences in the BALs between real and synthetic data also do not impact the BAO results for the Lyα forest.

Lyman alpha forest↗

TListSpectrum

TListSpectrum is a C++ class developed inside the CERN high-energy physics analysis C++ framework ROOT. This class structure was developed to assist in the processing, visualization, and analysis of list-mode or time-stamped radiation spectroscopy data. The class structure currently contains parsing and functionality to synthesize list-mode data from CAEN and Mirion Lynx radiation spectroscopy digital acquisition systems along with feature functionality to post-process data sets and build coincident data sets from the instrument.

Pierson, Bruce↗

Fabrication and Testing of Two Passively Actuated Creep-Fatigue Surveillance Test Articles

This report describes the fabrication, testing, and analysis of two families of passively-actuated creep-fatigue test articles. These test articles induce cyclic mechanical load in a test section actuated solely through a mismatch in the thermal expansion coefficient of two materials and driven by a change in the specimen temperature. Test articles of this type could provide material degradation data for a materials surveillance program in future operating molten salt reactors, where variations in the reactor temperature caused by normal or upset cycles would provide the temperature change in the sample. The purpose of the current experimental campaign is to demonstrate the feasibility of fabricating realistically-sized test articles, test the articles under repeated thermal cycling to assess their robustness, particularly the reliability of the bimetallic welds, and collect strain data from instrumented samples to validate the methods used to size the test articles to match key features of the mechanical response of operating reactor components. The thermal cycling tests are ongoing but the test data to date suggests the current test article design is viable, robust, and can be successfully designed to match a target mechanical response. Finally, the report describes preliminary work on welding refractory alloys to 316H stainless steel. Replacing the test article driver material, currently Alloy 617, with a refractory would increase the coefficient of thermal expansion mismatch and support further miniaturization of the test articles.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

Adversarial Binaries: AI-guided Instrumentation Methods for Malware Detection Evasion

Adversarial binaries are executable files that have been altered without loss of function by an AI agent in order to deceive malware detection systems. Progress in this emergent vein of research has been constrained by the complex and rigid structure of executable files. Although prior work has demonstrated that these binaries deceive a variety of malware classification models which rely on disparate feature sets, a consensus as to the best approach has not been reached, either in terms of the optimization algorithms or the instrumentation methods. Furthermore, although inconsistencies in the data sets, target classifiers, and functionality verification methods make head-to-head comparisons difficult, here we extract lessons learned and make recommendations for future research.

malware obfuscation↗

Analysis of the impact of broad absorption lines on quasar redshift measurements with synthetic observations

ABSTRACT Accurate quasar classifications and redshift measurements are increasingly important to precision cosmology experiments. Broad absorption line (BAL) features are present in 15–20 per cent of all quasars, and these features can introduce systematic redshift errors, and in extreme cases produce misclassifications. We quantitatively investigate the impact of BAL features on quasar classifications and redshift measurements with synthetic spectra that were designed to match observations by the Dark Energy Spectroscopic Instrument (DESI) survey. Over the course of 5 yr, DESI aims to measure spectra for 40 million galaxies and quasars, including nearly three million quasars. Our synthetic quasar spectra match the signal-to-noise ratio and redshift distributions of the first year of DESI observations, and include the same synthetic quasar spectra both with and without BAL features. We demonstrate that masking the locations of the BAL features decreases the redshift errors by about 1 per cent and reduces the number of catastrophic redshift errors by about 80 per cent. We conclude that identifying and masking BAL troughs should be a standard part of the redshift determination step for DESI and other large-scale spectroscopic surveys of quasars.

(galaxies:) quasars: absorption↗

TRACER-Coastal Urban Boundary-Layer Interactions with Convection (TRACER-CUBIC) Field Campaign Report

To better understand the complicated web of processes governing convective cloud life cycle and aerosol-convection interactions, the U.S. Department of Energy (DOE)’s Atmospheric Radiation Measurement (ARM) user facility supported deployment of a variety of advanced atmospheric measurement systems to the greater Houston, Texas, area from 1 October 2021 to 30 September 2022 as part of the Tracking Aerosol Convection Interactions Experiment (TRACER). Houston was selected as a study area because isolated convection and a variety of aerosol conditions are common in this region. This one-year ARM Mobile Facility (AMF) deployment featured a four-month intensive operational period (IOP) during summer 2022 (1 June–30 September). The ARM instrumentation was deployed at three sites along an east-west transect from La Porte, Texas to an ancillary site in a less-polluted rural region southwest of downtown Houston (Figure 1). At the La Porte Site, which is located near the Houston ship channel in an area that experiences significant pollution, the first ARM Mobile Facility (AMF1) was deployed. During the IOP, the ARM tethered balloon system (TBS) operated at the ancillary site. The second-generation C-Band Scanning ARM Precipitation Radar (CSAPR) operated near Pearland, Texas, roughly halfway between the Laporte and ancillary sites. As part of the TRACER- Coastal Urban Boundary-Layer Interactions with Convection (CUBIC) project, three boundary-layer profiling systems) were deployed along a north-south transect spanning from the University of Houston Coastal Center to the Aldine site north of downtown Houston (also blue dot in Figure 1) during the TRACER IOP. These systems included the National Oceanic and Atmospheric Administration (NOAA) National Severe Storms Laboratory CLAMPS2 (C2), which was deployed at the UHCC, the University of Wisconsin SPARC, which was deployed at the ARM CSAPR site near Pearland (orange diamond in middle of map in Figure 1), and the University of Oklahoma CLAMPS1 (C1), which was deployed at Aldine. These three systems have been successfully operated in various field campaigns, providing data sets that collectively offer new insights into atmospheric-boundary-layer (ABL) processes, sea-breeze (SB) circulations, and convection initiation (CI). For the TRACER IOP window, these systems ran continuously between 1 June and 26 September, 2022. Due to commitments to NOAA projects, the Doppler lidar at the UHCC site was not available until 24 June 2022. The CLAMPS and SPARC profiling systems are self-contained platforms that have benefited from several years of development and deployment. Instruments and data processing were maintained remotely, which made the 4-month deployment for the TRACER-CUBIC IOP period possible. The same basic instrument configuration comprises each system: a scanning Doppler wind lidar for flow characterization and passive profiler(s) for characterizing planetary-boundary-layer (PBL) thermodynamic properties. Each platform includes a Halo Streamline Doppler wind lidar, an Atmospheric Emitted Radiance Interferometer (AERI), and a surface meteorology station. CLAMPS1 and CLAMPS2 each also include a microwave radiometer (MWR, Figure 1d). The TRACER-CUBIC hypotheses included (i) Interactions of SB and urban circulations and how they affect the PBL structure in the Houston environment, causing spatially (horizontally and vertically) and temporally highly variable flow patterns, (ii) heat, moisture, and aerosol transport and mixing depend on these flow dynamics, and (iii) an improved understanding of the flow patterns and PBL structure are critical for investigating the processes leading to CI. To test these hypotheses, the project aimed at (i) characterizing SB circulations and their impacts on the diurnal evolution of the structure of the ABL, (ii) studying the evolution of Houston’s complex urban boundary layer, and (iii) identifying effects of urban-induced circulations on pre-convective environments. TRACER-CUBIC observations generally provide good coverage during the summer IOP. Initial screening of the data indicates a good number of cases with bay-breeze (BB) and/or SB signatures, local CI, and interesting boundary-layer features such as strong nocturnal low-level jets (LLJs, Table 1). The numbers listed in rows 3-5 in this table will be further updated as part of ongoing in-depth analyses and systematic identification of local circulations and CI events. More detailed information about the data availability and quality for each instrument is provided in the “readme” files that were submitted to the ARM Data Center along with each archived data sets. These “readme” files also provide instrument descriptions, information about the data collection and processing procedures, data formats, and any additional information relevant for further data analysis.

54 ENVIRONMENTAL SCIENCES↗

SAR Geolocation Using Range-Only Multilateration

Radar is by its basic nature a ranging instrument. If radar range measurements from multiple directions can be made and assembled, then multilateration allows locating a feature common to the set of Synthetic Aperture Radar (SAR) images to an accurate 3-D coordinate. The ability to employ effective multilateration algorithms is highly dependent on the geometry of the data collections, and the accuracy with which relative range measurements can be made. The problem can be cast as a least-squares exercise, and the concept of Dilution of Precision can describe the accuracy and precision with which a 3-D location can be made.

47 OTHER INSTRUMENTATION↗

Evolution of LIBS technology to mobile instrumentation for expediting firearm-related investigations at the laboratory and the crime scene

Gunshot residue (GSR) is one of the few forensic disciplines that lack accurate screening techniques. This study proposes using a mobile LIBS instrument to detect inorganic GSR and compares performance to a previously validated laboratory instrument. The mobile LIBS is designed with advanced configurations specifically for on-site GSR analysis, including a CMOS detector and a sampling chamber that holds up to six typical GSR collection devices with separate gas flow ports to prevent cross-contamination. A significant novelty of the portable instrument is its image magnification, which allows quick searching and visualization of GSR particle morphology. The single-particle imaging and elemental composition capability is one of a kind and offers superior confirmatory features for GSR. The mobile LIBS performance was evaluated for residues collected from the hands of shooters (100 samples) and non-shooters (200 background samples), analyzed sequentially by the mobile instrument and then the laboratory instrument. Accuracies better than 98.8% were obtained by both instruments, demonstrating their suitability for trace IGSR detection from skin specimens. Implementation of this methodology is anticipated to drastically speed up response times (i.e., from several hours per sample by standard SEM-EDS practice to a few minutes by LIBS). The screening methods can be easily incorporated into workflows to improve decision-making processes at the crime scene and laboratory settings, reduce backlogs, and improve case management.

47 OTHER INSTRUMENTATION↗

Constellation: The autonomous control and data acquisition system for dynamic experimental setups

The operation of instruments and detectors in laboratory or beamline environments presents a complex challenge, requiring stable operation of multiple concurrent devices, often controlled by separate hardware and software solutions. These environments frequently undergo modifications, such as the inclusion of different auxiliary devices depending on the experiment or facility, adding further complexity. The successful management of such dynamic configurations demands a flexible and robust system capable of controlling data acquisition, monitoring experimental setups, enabling seamless reconfiguration, and integrating new devices with limited effort. This paper presents Constellation, a flexible and network-distributed control and data acquisition software framework tailored to laboratory and beamline environments, that addresses the limitations of existing solutions. The framework is designed with a focus on extensibility, providing a streamlined interface for instrument integration. It supports efficient system setup via network discovery mechanisms, promotes stability through autonomous operational features, and provides comprehensive documentation and supporting tools for operators and application developers such as controllers and logging interfaces. At the core of the architectural design is the autonomy of the individual components, called satellites, which can make independent decisions about their operation and communicate these decisions to other components. This paper introduces the design principles and framework architecture of Constellation, presents the available graphical user interfaces, shares insights from initial successful deployments, and provides an outlook on future developments and applications.

Autonomy↗

Fast wide-field upconversion luminescence lifetime thermometry enabled by single-shot compressed ultrahigh-speed imaging

Photoluminescence lifetime imaging of upconverting nanoparticles is increasingly featured in recent progress in optical thermometry. Despite remarkable advances in photoluminescent temperature indicators, existing optical instruments lack the ability of wide-field photoluminescence lifetime imaging in real time, thus falling short in dynamic temperature mapping. Here, we report video-rate upconversion temperature sensing in wide field using single-shot photoluminescence lifetime imaging thermometry (SPLIT). Developed from a compressed-sensing ultrahigh-speed imaging paradigm, SPLIT first records wide-field luminescence intensity decay compressively in two views in a single exposure. Then, an algorithm, built upon the plug-and-play alternating direction method of multipliers, is used to reconstruct the video, from which the extracted lifetime distribution is converted to a temperature map. Using the core/shell NaGdF 4 :Er 3+ ,Yb 3+ /NaGdF 4 upconverting nanoparticles as the lifetime-based temperature indicators, we apply SPLIT in longitudinal wide-field temperature monitoring beneath a thin scattering medium. SPLIT also enables video-rate temperature mapping of a moving biological sample at single-cell resolution.

47 OTHER INSTRUMENTATION↗

Analysis of Hybrid Gas–Dust Outbursts Observed at 67P/Churyumov–Gerasimenko

Cometary outbursts offer a valuable window into the composition of comet nuclei with their forceful ejection of dust and volatiles in explosive events, revealing the interior components of the comet. Understanding how different types of outbursts influence the dust properties and volatile abundances, to better interpret what signatures can be attributed to primordial composition and what features are the result of processing, is an important task best undertaken with a multi-instrument approach. The European Space Agency Rosetta mission to 67P/Churyumov–Gerasimenko carried a suite of instruments capable of carrying out this task in the near-nucleus coma with unprecedented spatial and spectral resolution. In this work, we discuss two outbursts that occurred 2015 November 7 and were observed by three instruments on board: the Alice ultraviolet spectrograph, the Visual Infrared and Thermal Imaging Spectrometer, and the Optical, Spectroscopic, and Infrared Remote Imaging System. Together, the observations show that mixed gas and dust outbursts can have different spectral signatures representative of their initiating mechanisms, with the first outburst showing indicators of a cliff collapse origin and the second more representative of fresh volatiles being exposed via a deepening fracture. This analysis opens up the possibility of remote spectral classification of cometary outbursts with future work.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗