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Absorption Correction for Reliable Pair Distribution Functions from Low Energy X-ray Sources

This paper explores the development and testing of a simple absorption correction model for processing powder X-ray diffraction data from Debye−Scherrer geometry laboratory X-ray experiments. This may be used as a preprocessing step before using PDFGETX3 to obtain reliable pair distribution functions (PDFs). Various experimental and theoretical methods for estimating μR were explored, and the most appropriate μR values for correction were identified for different capillary diameters and X-ray beam sizes. We identify operational ranges of μR where a reasonable signal-to-noise ratio is possible after correction. A user-friendly software package, DIFFPY.LABPDFPROC, is presented that can help estimate μR and perform absorption corrections with a rapid calculation for efficient processing.

Absorption↗

Surface Energy Dynamics and Canopy Structural Properties in Intact and Disturbed Forests in the Southern Amazon

The Brazilian Amazon has been a focus of land development with large swaths of forests converted to agriculture. Forest degradation by selective logging and fires has accompanied the agricultural frontier and has resulted in significant impacts on Amazonian ecosystems. Changes in forest structure resulting from forest disturbances have large impacts on the surface energy balance, including on land surface temperature (LST) and evapotranspiration (ET). This study's objective is to assess the effects of forest disturbances on water fluxes and forest structure in a transitional forest site in the Southern Amazon. We used ET and LST products from MODIS and Landsat 8 and GEDI-derived forest structure data to address our research questions. We found that disturbances induced seasonal water stress, more pronounced in croplands/pastures than in forests (differences up to 20% in the dry season), and more pronounced in second-growth and recently burned areas than in logged and intact forests (differences up to 12% in the dry season). Moreover, ET and LST were negatively related, with more consistent relationships across disturbance classes in the dry season (R 2 : 0.41–0.87) than in the wet season (R 2 : 0.18–0.49). Forest and cropland or pasture classes showed contrasting relationships in the dry season. Finally, we found that forest structure exhibited stronger relationships with ET and LST in the most disturbed forests (R 2 : 0.01–0.43) than in the least disturbed forests (R 2 < 0.05). Our findings help to elucidate degraded forests functioning under a changing climate and to improve estimates of water and energy fluxes in Amazonian degraded forests.

54 ENVIRONMENTAL SCIENCES↗

Real-Time Selective Sequencing with RUBRIC: Read Until with Basecall and Reference-Informed Criteria

Abstract The Oxford MinION, the first commercial nanopore sequencer, is also the first to implement molecule-by-molecule real-time selective sequencing or “Read Until”. As DNA transits a MinION nanopore, real-time pore current data can be accessed and analyzed to provide active feedback to that pore. Fragments of interest are sequenced by default, while DNA deemed non-informative is rejected by reversing the pore bias to eject the strand, providing a novel means of background depletion and/or target enrichment. In contrast to the previously published pattern-matching Read Until approach, our RUBRIC method is the first example of real-time selective sequencing where on-line basecalling enables alignment against conventional nucleic acid references to provide the basis for sequence/reject decisions. We evaluate RUBRIC performance across a range of optimizable parameters, apply it to mixed human/bacteria and CRISPR/Cas9-cut samples, and present a generalized model for estimating real-time selection performance as a function of sample composition and computing configuration.

59 BASIC BIOLOGICAL SCIENCES↗

Mid- to long-wave infrared computational spectroscopy with a graphene metasurface modulator

In recent years there has been much interest concerning the development of modulators in the mid- to long-wave infrared, based on emerging materials such as graphene. These have been frequently pursued for optical communications, though also for other specialized applications such as infrared scene projectors. Here we investigate a new application for graphene modulators in the mid- to long-wave infrared. We demonstrate, for the first time, computational spectroscopy in the mid- to long-wave infrared using a graphene-based metasurface modulator. Furthermore, our metasurface device operates at low gate voltage. To demonstrate computational spectroscopy, we provide our algorithm with the measured reflection spectra of the modulator at different gate voltages. We also provide it with the measured reflected light power as a function of the gate voltage. The algorithm then estimates the input spectrum. We show that the reconstructed spectrum is in good agreement with that measured directly by a Fourier transform infrared spectrometer, with a normalized mean-absolute-error (NMAE) of 0.021.

36 MATERIALS SCIENCE↗

Predicting Total Dissolved Gas Travel Time in Hydropower Reservoirs

Large spills at hydropower facilities can produce environmentally unfavorable supersaturated total dissolved gas (TDG) conditions. Enhanced coordination between adjacent hydropower facilities is required when a large, brief spill creates a pulse of TDG that is transported into a downstream reservoir. A premium is placed on quick and simple methods and relationships that can support short-term decision making under dynamic conditions. This paper presents an empirically-based methodology to quantify and assess the relationship between mean hourly river flow and TDG travel time between an upstream hydropower spillway and a downstream dam. The analysis is conducted for reservoirs in the mid-Columbia River system and is limited to summer months when spill events that create high TDG are most common. A two-step filter and cross-correlation procedure is used to isolate high strength TDG events and characterize the time delay between when the TDG event is initiated upstream and when it is detected downstream. Spill flow, powerhouse flow, and TDG measurements are used to develop a bulk parameter estimation of mean TDG time delay as a function of mean river flow. The approach reveals an inverse power law relationship between mean river flow and mean TDG travel time. The relationship provides hydropower operators with a new, simplified decision support tool. In conclusion, the generalized methodology could be applied to other reservoir systems where TDG minimization is a critical management objective.

54 ENVIRONMENTAL SCIENCES↗

Analysis of the stochastic excitability in the flow chemical reactor

A dynamic model of the thermochemical process in the flow reactor is considered. We study an influence of the random disturbances on the stationary regime of this model. A phenomenon of noise-induced excitability is demonstrated. For the analysis of this phenomenon, a constructive technique based on the stochastic sensitivity functions and confidence domains is applied. It is shown how elaborated technique can be used for the probabilistic analysis of the generation of mixed-mode stochastic oscillations in the flow chemical reactor.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Ionization equilibrium at the transition from valence-band to acceptor-band migration of holes in boron-doped diamond

A quasi-classical model of ionization equilibrium in the p-type diamond between hydrogen-like acceptors (boron atoms which substitute carbon atoms in the crystal lattice) and holes in the valence band (v-band) is proposed. The model is applicable on the insulator side of the insulator–metal concentration phase transition (Mott transition) in p-Dia:B crystals. The densities of the spatial distributions of impurity atoms (acceptors and donors) and of holes in the crystal are considered to be Poissonian, and the fluctuations of their electrostatic potential energy are considered to be Gaussian. The model accounts for the decrease in thermal ionization energy of boron atoms with increasing concentration, as well as for electrostatic fluctuations due to the Coulomb interaction limited to two nearest point charges (impurity ions and holes). The mobility edge of holes in the v-band is assumed to be equal to the sum of the threshold energy for diffusion percolation and the exchange energy of the holes. On the basis of the virial theorem, the temperature T{sub j} is determined, in the vicinity of which the dc band-like conductivity of holes in the v-band is approximately equal to the hopping conductivity of holes via the boron atoms. For compensation ratio (hydrogen-like donor to acceptor concentration ratio) K ≈ 0.15 and temperature T{sub j}, the concentration of “free” holes in the v-band and their jumping (turbulent) drift mobility are calculated. Dependence of the differential energy of thermal ionization of boron atoms (at the temperature 3T{sub j}/2) as a function of their concentration N is calculated. The estimates of the extrapolated into the temperature region close to T{sub j} hopping drift mobility of holes hopping from the boron atoms in the charge states (0) to the boron atoms in the charge states (−1) are given. Calculations based on the model show good agreement with electrical conductivity and Hall effect measurements for p-type diamond with boron atom concentrations in the range from 3 × 10{sup 17} to 3 × 10{sup 20 }cm{sup −3}, i.e., up to the Mott transition. The model uses no fitting parameters.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

JET LUMINOSITY OF GAMMA-RAY BURSTS: THE BLANDFORD–ZNAJEK MECHANISM VERSUS THE NEUTRINO ANNIHILATION PROCESS

A neutrino-dominated accretion flow (NDAF) around a rotating stellar-mass black hole (BH) is one of the plausible candidates for the central engine of gamma-ray bursts (GRBs). Two mechanisms, i.e., the Blandford–Znajek (BZ) mechanism and the neutrino annihilation process, are generally considered to power GRBs. Using the analytic solutions from Xue et al. and ignoring the effects of the magnetic field configuration, we estimate the BZ and neutrino annihilation luminosities as functions of the disk masses and BH spin parameters to contrast the observational jet luminosities of GRBs. Our results show that although the neutrino annihilation processes could account for most GRBs, the BZ mechanism is more effective, especially for long-duration GRBs. Actually, if the energy of the afterglows and flares of GRBs is included, then the distinction between these two mechanisms is more significant. Furthermore, massive disk mass and high BH spin are beneficial for powering the high luminosities of GRBs. Finally, we discuss possible physical mechanisms that could enhance the disk mass or neutrino emission rate of NDAFs and the relevant difference between these two mechanisms.

79 ASTRONOMY AND ASTROPHYSICS↗

Determining the anisotropy and exchange parameters of polycrystalline spin-1 magnets

Abstract Although low-dimensional S = 1 antiferromagnets remain of great interest, difficulty in obtaining high-quality single crystals of the newest materials hinders experimental research in this area. Polycrystalline samples are more readily produced, but there are inherent problems in extracting the magnetic properties of anisotropic systems from powder data. Following a discussion of the effect of powder-averaging on various measurement techniques, we present a methodology to overcome this issue using thermodynamic measurements. In particular we focus on whether it is possible to characterise the magnetic properties of polycrystalline, anisotropic samples using readily available laboratory equipment. We test the efficacy of our method using the magnets [Ni(H 2 O) 2 (3,5-lutidine) 4 ](BF 4 ) 2 and Ni(H 2 O) 2 (acetate) 2 (4-picoline) 2 , which have negligible exchange interactions, as well as the antiferromagnet [Ni(H 2 O) 2 (pyrazine) 2 ](BF 4 ) 2 , and show that we are able to extract the anisotropy parameters in each case. The results obtained from the thermodynamic measurements are checked against electron-spin resonance and neutron diffraction. We also present a density functional method, which incorporates spin–orbit coupling to estimate the size of the anisotropy in [Ni(H 2 O) 2 (pyrazine) 2 ](BF 4 ) 2 .

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Fine-scale vegetation composition and structure shape spatiotemporal variation in surface albedo across a low Arctic tundra landscape

The unprecedented rate of warming in the Arctic is driving changes in the structure and composition of tundra vegetation. Increases in deciduous tall shrub cover, height, and density are of particular concern, as these changes alter local surface albedo in ways that could amplify effects on the regional surface energy budget (SEB). Despite this importance, significant uncertainties remain in understanding the interplay between fine-scale vegetation patterns and emergent albedo dynamics across space and time. Here, we address these uncertainties by (1) quantifying spatiotemporal variation in surface shortwave albedo and (2) determining the relative influence of fine-scale vegetation composition, structure, and environmental conditions on albedo across a representative low-Arctic tundra landscape on Alaska’s Seward Peninsula. To do this, we synthesized multi-scale, multi-platform remote sensing observations, including a novel Landsat-derived albedo time series, a fine-scale map of Arctic plant functional type (PFT) fractional cover, and airborne LiDAR estimates of canopy height and topography. We show that there are substantial reductions in winter albedo for pixels dominated by tall, woody PFTs (28.13%) relative to pixels dominated by non-woody vegetation, but almost no change in summer albedo (3% increase). Further, we identified a unimodal trend in the relationship between canopy height and the timing of the springtime transition from high (snowy) to low (leafy) albedo (peak at 5.5 m), possibly because of competing ‘snow-fence’ and ‘protrusion’ snow-shrub interactions. To explore the primary drivers of albedo, we constructed a random forest model and found that canopy height and the fractional cover of woody PFTs were as- or more important predictors of winter albedo than topographic features. These findings provide strong evidence for the impacts of local vegetation characteristics on regional surface albedo, highlighting the need for better quantification of snow-shrub interactions to accurately predict the Arctic’s SEB under future environmental change.

Arctic↗

Ionizing radiation from AGNs at z > 3.3 with the Subaru Hyper Suprime-Cam Survey and the CFHT Large Area U-band Deep Survey (CLAUDS)

ABSTRACT We use deep and wide imaging data from the CFHT Large Area U-band Deep Survey (CLAUDS) and the Hyper Suprime-Cam Subaru Strategic Program (HSC-SSP) to constrain the ionizing radiation (Lyman Continuum, LyC) escape fraction from active galactic nuclei (AGNs) at z ∼ 3–4. For 94 AGNs with spectroscopic redshifts at 3.3 < z < 4.0, we use their U/i-band flux ratios to estimate LyC transmission of individual AGNs. The distribution of their LyC transmission shows values lower than the range of LyC transmission values for IGM of the same redshift range, which suggests that LyC escape fraction of AGNs at z > 3.3 is considerably lower than unity in most cases. We do not find any trend in LyC transmission values depending on their UV luminosities. Based on the photometry of stacked images we find the average flux ratio of LyC and non-ionizing UV photons escaping from the objects (fLyC/fUV)out = 0.182 ± 0.043 for AGNs at 3.3 < z < 3.6, which corresponds to LyC escape fraction fesc = 0.303 ± 0.072 if we assume a fiducial intrinsic SED of AGN. Based on the estimated LyC escape fraction and the UV luminosity function (UVLF) of AGNs, we argue that UV-selected AGNs’ contribution to the LyC emissivity at the epoch is minor, although the size of their contribution largely depends on the shape of the UVLF.

79 ASTRONOMY AND ASTROPHYSICS↗

Non-local contribution from small scales in galaxy–galaxy lensing: comparison of mitigation schemes

ABSTRACT Recent cosmological analyses with large-scale structure and weak lensing measurements, usually referred to as 3 × 2pt, had to discard a lot of signal to noise from small scales due to our inability to accurately model non-linearities and baryonic effects. Galaxy–galaxy lensing, or the position–shear correlation between lens and source galaxies, is one of the three two-point correlation functions that are included in such analyses, usually estimated with the mean tangential shear. However, tangential shear measurements at a given angular scale θ or physical scale R carry information from all scales below that, forcing the scale cuts applied in real data to be significantly larger than the scale at which theoretical uncertainties become problematic. Recently, there have been a few independent efforts that aim to mitigate the non-locality of the galaxy–galaxy lensing signal. Here, we perform a comparison of the different methods, including the Y-transformation, the point-mass marginalization methodology, and the annular differential surface density statistic. We do the comparison at the cosmological constraints level in a combined galaxy clustering and galaxy–galaxy lensing analysis. We find that all the estimators yield equivalent cosmological results assuming a simulated Rubin Observatory Legacy Survey of Space and Time (LSST) Year 1 like set-up and also when applied to DES Y3 data. With the LSST Y1 set-up, we find that the mitigation schemes yield ∼1.3 times more constraining S8 results than applying larger scale cuts without using any mitigation scheme.

79 ASTRONOMY AND ASTROPHYSICS↗

Constraining primordial non-Gaussianity from the large scale structure two-point and three-point correlation functions

Surveys of cosmological large-scale structure (LSS) are sensitive to the presence of local primordial non-Gaussianity (PNG), and may be used to constrain models of inflation. Local PNG, characterized by f NL ⁠, the amplitude of the quadratic correction to the potential of a Gaussian random field, is traditionally measured from LSS two-point and three-point clustering via the power spectrum and bi-spectrum. We propose a framework to measure f NL using the configuration space two-point correlation function (2pcf) monopole and three-point correlation function (3pcf) monopole of survey tracers. Our model estimates the effect of the scale-dependent bias induced by the presence of PNG on the 2pcf and 3pcf from the clustering of simulated dark matter haloes. We describe how this effect may be scaled to an arbitrary tracer of the cosmological matter density. The 2pcf and 3pcf of this tracer are measured to constrain the value of f NL ⁠. In LSS surveys, the effect of imaging systematics on two-point statistics is often degenerate with the PNG signal. Our proposed model employs three-point statistics primarily to break this degeneracy. Using simulations of luminous red galaxies observed by the Dark Energy Spectroscopic Instrument (DESI), we demonstrate the accuracy and constraining power of our method. Our forecast indicates the ability to constrain f NL to a precision of σf NL ≈ 22 with one year of DESI survey data, as well as the ability to constrain the imaging systematic weights in situ.

early Universe↗

Likelihood non-Gaussianity in large-scale structure analyses

The standard present-day large-scale structure (LSS) analyses make a major assumption in their Bayesian parameter inference – that the likelihood has a Gaussian form. For summary statistics currently used in LSS, this assumption, even if the underlying density field is Gaussian, cannot be correct in detail. We investigate the impact of this assumption on two recent LSS analyses: the Beutler et al. power spectrum multipole ($P_ℓ$) analysis and the Sinha et al. group multiplicity function ($ζ$) analysis. Using non-parametric divergence estimators on mock catalogues originally constructed for covariance matrix estimation, we identify significant non-Gaussianity in both the $P_ℓ$ and $ζ$ likelihoods. We then use Gaussian mixture density estimation and independent component analysis on the same mocks to construct likelihood estimates that approximate the true likelihood better than the Gaussian pseudo-likelihood. Using these likelihood estimates, we accurately estimate the true posterior probability distribution of the Beutler et al. and Sinha et al. parameters. Likelihood non-Gaussianity shifts the fσ8 constraint by -0.44σ, but otherwise does not significantly impact the overall parameter constraints of Beutler et al. For the $ζ$ analysis, using the pseudo-likelihood significantly underestimates the uncertainties and biases the constraints of the Sinha et al. halo occupation parameters. For log $M_1$ and α, the posteriors are shifted by +0.43σ and -0.51σ and broadened by 42 per cent and 66 per cent, respectively. The divergence and likelihood estimation methods we present provide a straightforward framework for quantifying the impact of likelihood non-Gaussianity and deriving more accurate parameter constraints.

79 ASTRONOMY AND ASTROPHYSICS↗

Mass functions, luminosity functions, and completeness measurements from clustering redshifts

Abstract This paper presents stellar mass functions and i-band luminosity functions for Sloan Digital Sky Survey (SDSS) galaxies with i < 21 using clustering redshifts. From these measurements, we also compute targeting completeness measurements for the Baryon Oscillation Spectroscopic Survey (BOSS). Clustering redshifts is a method of obtaining the redshift distribution of a sample of galaxies with only photometric information by measuring the angular cross-correlation with a spectroscopic sample in different redshift bins. We construct a spectroscopic sample containing data from the BOSS + eBOSS surveys, allowing us to recover redshift distributions from photometric data out to z ≃ 2.5. We produce k-corrected i-band luminosity functions and stellar mass functions by applying clustering redshifts to SDSS DR8 galaxies in small bins of colour and magnitude. There is little evolution in the mass function between 0.2 < z < 0.8, implying that the most massive galaxies form most of their mass before z = 0.8. These mass functions are used to produce stellar mass completeness estimates for the BOSS, giving a stellar mass completeness of $80{{\ \rm per\ cent}}$ above M⋆ > 1011.4 between 0.2 < z < 0.7, with completeness falling significantly at redshifts higher than 0.7, and at lower masses. Large photometric data sets will be available in the near future (DECaLS, DES, Euclid), so this and similar techniques will become increasingly useful in order to fully utilize these data.

Bates, Dominic J.↗

Magnetic ground state and perturbations of the distorted kagome Ising metal TmAgGe

Here, we present the magnetic orders and excitations of the distorted kagome intermetallic magnet TmAgGe. Using neutron single crystal diffraction we identify the propagation vectors k = ($\frac{1}{2}$ 0 0) and k = (0 0 0) and determine the magnetic structures of the zero-field and magnetic field-induced phases for H along the $\mathcal{a}$ and [–110] crystal directions. We determine the experimental magnetic field- temperature (H, T)-phase diagram and reproduce it by Monte Carlo simulations of an effective spin exchange Hamiltonian for one distorted kagome layer. Our model includes a strong axial single-ion anisotropy and significantly smaller exchange couplings, which span up to the third-nearest neighbors within the layer. Single crystal inelastic neutron scattering (INS) measurements reveal an almost flat, only weakly dispersive mode around 7 meV that we use alongside bulk magnetization data to deduce the crystal-electric field (CEF) scheme for the Tm 3+ ions. Random phase approximation (RPA) calculations based on the determined CEF wave functions of the two lowest quasidoublets enable an estimation of the interlayer coupling that is compatible with the experimental INS spectra. No evidence for low-energy spin waves associated to the magnetic order was found, which is consistent with the strongly Ising nature of the ground state.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Lateral cracks during sliding indentation on various optical materials

A series of static and sliding indentation (ie, scratching) was performed and characterized on a wide range of optical workpiece materials [single crystals of Al 2 O 3 (sapphire), SiC, Y 3 Al 5 O 12 (YAG), CaF 2 , and LiB 3 O 5 (LBO); a SiO 2 –Al 2 O 3 –P 2 O 5 –Li 2 O glass ceramic (Zerodur); and glasses of SiO 2 :TiO 2 (ULE), SiO 2 (fused silica), and P 2 O 5 –Al 2 O 3 –K 2 O–BaO (Phosphate)] at various applied loads using various indenters (Vickers, 10 µm conical, and 200 µm conical). Despite having different load dependencies, the lateral crack depth formed during sliding indentation quantitatively scales with that formed during static indentation, explaining why static indentation has been historically effective in describing various grinding parameters. Depending on the indenter geometry, the amount of residual trench damage (plastic deformation and local fracturing) during sliding indentation was often enhanced by more than an order of magnitude compared with static indentation. A simple ploughing scratch model, which considers both tangential and normal stresses (where the tangential stress is amplified by relatively small tangential contact area), explains this enhancement and other observed trends. Accounting for the high correlation between residual trench depth and volumetric fracturing, the model is extended to estimate the amount of fracture damage as a function of the material properties of the workpiece, indenter geometry, and applied load. Such a model has utility in the design of optimized grinding processes, particularly the abrasive geometry. Finally, at higher loads (>1 N), lateral cracks were often observed to preferentially propagate in the forward scratching direction, as opposed to perpendicular to the scratch as typically observed. High-speed imaging of the scratch process confirms that these cracks propagate ahead of the sliding indenter during the scratching event. Finite element stress analysis suggests the ploughing frictional forces increase the mode I tensile stresses at the leading edge of the sliding indenter explaining the direction of crack propagation of such cracks.

36 MATERIALS SCIENCE↗

WE-G-204-01: BEST IN PHYSICS (IMAGING): Effect of Image Processing Parameters On Nodule Detectability in Chest Radiography

Purpose: To investigate the effect of varying system image processing parameters on lung nodule detectability in digital radiography. Methods: An anthropomorphic chest phantom was imaged in the posterior-anterior position using a GE Discovery XR656 digital radiography system. To simulate lung nodules, a polystyrene board with 6.35mm diameter PMMA spheres was placed adjacent to the phantom (into the x-ray path). Due to magnification, the projected simulated nodules had a diameter in the radiographs of approximately 7.5 mm. The images were processed using one of GE’s default chest settings (Factory3) and reprocessed by varying the “Edge” and “Tissue Contrast” processing parameters, which were the two user-configurable parameters for a single edge and contrast enhancement algorithm. For each parameter setting, the nodule signals were calculated by subtracting the chest-only image from the image with simulated nodules. Twenty nodule signals were averaged, Gaussian filtered, and radially averaged in order to generate an approximately noiseless signal. For each processing parameter setting, this noise-free signal and 180 background samples from across the lung were used to estimate ideal observer performance in a signal-known-exactly detection task. Performance was estimated using a channelized Hotelling observer with 10 Laguerre-Gauss channel functions. Results: The “Edge” and “Tissue Contrast” parameters each had an effect on the detectability as calculated by the model observer. The CHO-estimated signal detectability ranged from 2.36 to 2.93 and was highest for “Edge” = 4 and “Tissue Contrast” = −0.15. In general, detectability tended to decrease as “Edge” was increased and as “Tissue Contrast” was increased. A human observer study should be performed to validate the relation to human detection performance. Conclusion: Image processing parameters can affect lung nodule detection performance in radiography. While validation with a human observer study is needed, model observer detectability for common tasks could provide a means for optimizing image processing parameters.

60 APPLIED LIFE SCIENCES↗