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At least 1,045 records · Page 58

K-space algorithmic reconstruction (KAREN): a robust statistical methodology to separate Bragg and diffuse scattering

Diffuse scattering occurring in the Bragg diffraction pattern of a long-range-ordered structure represents local deviation from the governing regular lattice. However, interpreting the real-space structure from the diffraction pattern presents a significant challenge because of the dramatic difference in intensity between the Bragg and diffuse components of the total scattering function. In contrast to the sharp Bragg diffraction, the diffuse signal has generally been considered to be a weak expansive or continuous background signal. In this paper, using 1D and 2D models, it is demonstrated that diffuse scattering in fact consists of a complex array of high-frequency features that must not be averaged into a low-frequency background signal. To evaluate the actual diffuse scattering effectively, an algorithm has been developed that uses robust statistics and traditional signal processing techniques to identify Bragg peaks as signal outliers which can be removed from the overall scattering data and then replaced by statistically valid fill values. This method, described as a 'K-space algorithmic reconstruction' (KAREN), can identify Bragg reflections independent of prior knowledge of a system's unit cell. KAREN does not alter any data other than that in the immediate vicinity of the Bragg reflections, and reconstructs the diffuse component surrounding the Bragg peaks without introducing discontinuities which induce Fourier ripples or artifacts from underfilling `punched' voids. The KAREN algorithm for reconstructing diffuse scattering provides demonstrably better resolution than can be obtained from previously described punch-and-fill methods. The superior structural resolution obtained using the KAREN method is demonstrated by evaluating the complex ordered diffuse scattering observed from the neutron diffraction of a single plastic crystal of CBr 4 using pair distribution function analysis.

36 MATERIALS SCIENCE↗

Multilevel atomic structural model for interstratified opal materials

The structure of opal has long fascinated scientists. It occurs in a number of structural states, ranging from amorphous to exhibiting features of stacking disorder. Opal-CT, where C and T signify cristobalite- and tridymite-like interstratification, represents an important link in the length scales between amorphous and crystalline states. However, details about local atomic (dis)order and arrangements extending to long-range stacking faults in opal polymorphs remain incompletely understood. Here, a multilevel modeling approach is reported that considers stacking states in correlation with the abundance of C and T segments as a high-level structural parameter (i.e. not each atom). Optimization accounting for inter-tetrahedral bond lengths and angles and the regularity of the silicate tetrahedra is included as lower levels of structural parameters. Together, a set of parameters with both coarse-grained and atomistic features for different levels of structural details is refined. Structural disorder at the ~10–100 Å distance scale is evaluated using experimental pair distribution function and diffraction datasets, comparing peak intensities, widths and asymmetry. Here this work presents a complete multilevel structural description of natural opal-CT and explains many of the unusual features observed in X-ray powder diffraction patterns. This modeling approach can be adopted generally for analyzing layered materials and their assembly into 3D structures.

36 MATERIALS SCIENCE↗

BioXTAS RAW 2 : new developments for a free open-source program for small-angle scattering data reduction and analysis

BioXTAS RAW is a free open-source program for reduction, analysis and modelling of biological small-angle scattering data. Here, the new developments in RAW version 2 are described. These include improved data reduction using pyFAI ; updated automated Guinier fitting and D max finding algorithms; automated series ( e.g. size-exclusion chromatography coupled small-angle X-ray scattering or SEC-SAXS) buffer- and sample-region finding algorithms; linear and integral baseline correction for series; deconvolution of series data using regularized alternating least squares ( REGALS ); creation of electron-density reconstructions using electron density via solution scattering ( DENSS ); a comparison window showing residuals, ratios and statistical comparisons between profiles; and generation of PDF reports with summary plots and tables for all analysis. Furthermore, there is now a RAW API, which can be used without the graphical user interface (GUI), providing full access to all of the functionality found in the GUI. In addition to these new capabilities, RAW has undergone significant technical updates, such as adding Python 3 compatibility, and has entirely new documentation available both online and in the program.

97 MATHEMATICS AND COMPUTING↗

Analytical desmearing of Bonse–Hart ultra-small-angle neutron scattering data via truncated Abel inversion

A non-iterative analytical framework based on the truncated Abel inversion is developed for desmearing Bonse–Hart ultra-small-angle neutron scattering (USANS) data. The method directly inverts the slit-averaged intensity without empirical extrapolation or iterative regularization, establishing a closed-form relationship between the measured and intrinsic scattering profiles. Numerical benchmarks on representative models, including a rigid-line form factor, a Lorentzian function and a fractal structural model, demonstrate quantitative recovery of the ground-truth intensity across the full Q range. Application to a deuterated polystyrene/poly(2-vinylpyridine) blend further confirms that the approach yields smooth continuous profiles consistent with companion small-angle neutron scattering data. The truncated Abel inversion thus provides a stable, model-independent and physically transparent route for accurate desmearing of Bonse–Hart USANS measurements.

Huang, Guan-Rong [National Tsing Hua University, T↗

An automated approach to the alignment of compound refractive lenses

Compound refractive lenses (CRLs) are established X-ray focusing optics, and are used to focus the beam or image the sample in many beamlines at X-ray facilities. While CRLs are quite established, the stack of single lens elements affords a very small numerical aperture because of the thick lens profile, making them far more difficult to align than classical optical lenses that obey the thin-lens approximation. This means that the alignment must be very precise and is highly sensitive to changes to the incident beam, often requiring regular readjustments. Some groups circumvent the full realignment procedure by using engineering controls ( e.g. mounting optics) that sacrifice some of the beam's focusing precision, i.e. spot size, or resolution. While these choices minimize setup time, there are clear disadvantages. This work presents a new automated approach to align CRLs using a simple alignment apparatus that is easy to adapt and install at different types of X-ray experiments or facilities. This approach builds on recent CRL modeling efforts, using an approach based on the Stochastic Nelder–Mead (SNM) simplex method. This method is outlined and its efficacy is demonstrated with numerical simulation that is tested in real experiments conducted at the Advanced Photon Source to confirm its performance with a synchrotron beam. This work provides an opportunity to automate key instrumentation at X-ray facilities.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Nano-laminography with a transmission X-ray microscope

Nano-laminography combines the penetrating power of hard X-rays with a tilted rotational geometry to deliver high-resolution, three-dimensional images of laterally extended, flat specimens that are otherwise incompatible with, or difficult to image using, conventional nano-tomography. In this work, we demonstrate a full-field, X-ray nano-laminography system implemented with the transmission X-ray microscope at beamline 32-ID of the upgraded Advanced Photon Source at Argonne National Laboratory, USA. By rotating the sample around an axis inclined by 20° to the incident beam, the technique minimizes the long optical path lengths that would otherwise generate excessive artifacts when planar samples are imaged edge-on. The efficiency of the technique is demonstrated with 50 nm spatial resolution and minute-scale temporal resolution 3D imaging of a planar integrated circuit sample and targeted imaging of an individual particle within a powder sample, where mounting procedures are typically challenging in regular nano-tomography. The sample mounting strategy, data acquisition, and reconstruction method will also be discussed.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Structure of ice VII with Hirshfeld atom refinement

In the refinement of the crystal structures of ice, the best results obtained so far have been with neutron diffraction because the most troublemaking aspects are the hydrogen atoms. In nine out of twenty ice structures, the hydrogen atoms are disordered, which makes proper refinement more difficult. In our previous paper describing the structure of ice VI we proved that, using Hirshfeld atom refinement (HAR) based on synchrotron X-ray data, it is possible to obtain results comparable with those from neutron experiments. In this work, we investigate another structure of high-pressure disordered ice, cubo-ice (ice VII). Single crystals of cubo-ice were grown under pressure in diamond anvil cells. X-ray diffraction measurements were conducted at a synchrotron source facility (APS, University of Chicago, USA) as well as on our regular in-house laboratory diffractometer with Ag radiation. The data collected were further refined with HAR. Comparison of the structural parameters obtained with those derived from neutron diffraction showed very good agreement in terms of bond lengths and fairly good agreement in terms of hydrogen atom ADPs. We were also able to perform unconstrained refinements with various split-atom models.

Chemistry↗

Universal parameters of bulk-solvent masks

The bulk solvent is a major component of biomacromolecular crystals that contributes significantly to the observed diffraction intensities. Accurate modelling of the bulk solvent has been recognized as important for many crystallographic calculations. Owing to its simplicity and modelling power, the flat (mask-based) bulk-solvent model is used by most modern crystallographic software packages to account for disordered solvent. In this model, the bulk-solvent contribution is defined by a binary mask and a scale (scattering) function. The mask is calculated on a regular grid using the atomic model coordinates and their chemical types. The grid step and two radii, solvent and shrinkage, are the three parameters that govern the mask calculation. They are highly correlated and their choice is a compromise between the computer time needed to calculate the mask and the accuracy of the mask. It is demonstrated here that this choice can be optimized using a unique value of 0.6 Å for the grid step irrespective of the data resolution, and the radii values adjusted correspondingly. The improved values were tested on a large sample of Protein Data Bank entries derived from X-ray diffraction data and are now used in the computational crystallography toolbox ( CCTBX ) and in Phenix as the default choice.

36 MATERIALS SCIENCE↗

Arginine off-kilter: guanidinium is not as planar as restraints denote

Crystallographic refinement of macromolecular structures relies on stereochemical restraints to mitigate the typically poor data-to-parameter ratio. For proteins, each amino acid has a unique set of geometry restraints which represent stereochemical information such as bond lengths, valence angles, torsion angles, dihedrals and planes. It has been shown that the geometry in refined structures can differ significantly from that present in libraries; for example, it was recently reported that the guanidinium moiety in arginine is not symmetric. In this work, the asymmetry of the N ∊ —C ζ —N η1 and N ∊ —C ζ —N η2 valence angles in the guanidinium moiety is confirmed. In addition, it was found that the C δ atom can deviate significantly (more than 20°) from the guanidinium plane. This requires the relaxation of the planar restraint for the C δ atom, as it otherwise causes the other atoms in the group to compensate by distorting the guanidinium core plane. A new set of restraints for the arginine side chain have therefore been formulated, and are available in the software package Phenix , that take into account the asymmetry of the group and the planar deviation of the C δ atom. This is an example of the need to regularly revisit the geometric restraint libraries used in macromolecular refinement so that they reflect the best knowledge of the structural chemistry of their components available at the time.

59 BASIC BIOLOGICAL SCIENCES↗

Polyphase Rotary Transformer for Field Excitation of Electric Machines

This paper presents the magnetic design of a high-frequency three-phase rotary transformer for Wound Rotor Synchronous Motors (WRSM). The traditional DC field excitation of the WRSM is highly challenging as it relies on the brushed connection. The brush/slipring-based connections need cooling, sealing and prone to wear and tear requiring regular maintenance. The proposed three-phase rotary transformer replaces the traditional brushed excitation by a high-power density polyphase wireless excitation. Furthermore, compared to a traditional single-phase rotary transformer, the proposed three-phase rotary transformer significantly enhances the power density, and reduces the eddy current losses and the output voltage ripples.

Aydin, Emrullah↗

Alternatives to Contour Visualizations for Power Systems Data

Electrical grids are geographical and topological structures whose voltage states are challenging to represent accurately and efficiently for visual analysis. The current common practice is to use colored contour maps, yet these can misrepresent the data. We examine the suitability of four alternative visualization methods for depicting voltage data in a geographically dense distribution system - Voronoi polygons, H3 tessellations, S2 tessellations, and a network-weighted contour map. We find that Voronoi tessellations and network-weighted contour maps more accurately represent the statistical distribution of the data than regular contour maps.

MATHEMATICS AND COMPUTING,POWER TRANSMISSION AND D↗

Dynamic Power Network State Estimation with Asynchronous Measurements

The operation of distribution networks is becoming increasingly volatile, due to fast variations of renewables and, hence, net-loading conditions. To perform a reliable state estimation under these conditions, this paper considers the case where measurements from meters, phasor measurement units, and distributed energy resources are collected and processed in real time to produce estimates of the state at a fast time scale. Streams of measurements collected in real time and at heterogenous rates render the underlying processing asynchronous, and poses severe strains on workhorse state estimation algorithms. In this work, a real-time state estimation algorithm is proposed, where data are processed on the fly. Starting from a regularized least-squares model, and leveraging appropriate linear models, the proposed scheme boils down to a linear dynamical system where the state is updated based on the previous estimate and on the measurement gathered from a few available sensors. The estimation error is shown to be always bounded under mild condition. Numerical simulations are provided to corroborate the analytical findings.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Identifying Light-Duty Vehicle Travel from Large-Scale Multimodal Wearable GPS Data with Novelty Detection Algorithms

Identifying travel mode within travel survey data sets, especially light-duty vehicle (LDV) travel, is foundational, though nontrivial, to travel behavior analysis and fuel consumption estimation. Current travel mode detection approaches require well-sampled and balanced data sets with ground truth travel mode labels. They are rarely applied and validated on large-scale, real-world data sets, which may not satisfy the data requirements. This paper proposes an LDV travel mode detection model as a supplement to current travel mode detection methods, for the case when the training set is highly (and/or completely) unbalanced, to the extent that classical machine-learning approaches become difficult or impossible to deploy. The proposed model uses a novelty detection technique-one-class support vector machines (OCSVMs)-and a novel exhaustive feature extraction (EFE) technique on continuous time series data (i.e., Global Positioning System [GPS] speed profiles) for single-mode trip trajectories. Training and validation of the model are conducted on a large-scale, real-world data set. The proposed method accurately identifies LDV trips from a broad set of multimodal trips by leveraging a wealth of preexisting in-vehicle GPS travel data. Additional sensitivity analysis sheds light on the optimal training size, which will benefit applications limited by highly imbalanced data. The paper also discusses performance comparison with regular machine-learning approaches, the model's robustness, and the potential to extend the proposed model to multimodal prediction.

47 OTHER INSTRUMENTATION↗

GCoD: Graph Convolutional Network Acceleration via Dedicated Algorithm and Accelerator Co-Design

Graph Convolutional Networks (GCNs) have emerged as the state-of-the-art graph learning model. However, it remains notoriously challenging to inference GCNs over large graph datasets, limiting their application to large real-world graphs and hindering the exploration of deeper and more sophisticated GCN graphs. This is because real-world graphs can be extremely large and sparse. Furthermore, the node degree of GCNs tends to follow the power-law distribution and therefore have highly irregular adjacency matrices, resulting in prohibitive inefficiencies in both data processing and movement and thus substantially limiting the achievable GCN acceleration efficiency. To this end, this paper proposes the first GCN algorithm and accelerator Co-Design framework dubbed GCoD which can largely alleviate the aforementioned GCN irregularity and boost GCNs' inference efficiency. Specifically, on the algorithm level, GCoD integrates a divide and conquer GCN training strategy that polarizes the graphs to be either denser or sparser in local neighborhoods without compromising the model accuracy, resulting in graph adjacency matrices that (mostly) have merely two levels of workload and enjoys largely enhanced regularity and thus ease of acceleration. On the hardware level, we further develop a dedicated two-pronged accelerator with a separated engine to process each of the aforementioned workloads, further boosting the overall utilization and acceleration efficiency. Extensive experiments and ablation studies validate that our GCoD consistently outperforms state-of-the-art designs in terms of accelerator efficiency while maintaining or even improving the task accuracy. Additionally, we visualize GCoD trained graph adjacency matrices to better understand its advantages. All codes and pre-trained models will be released upon acceptance.

You, Haoran↗

Towards Automatic Mapping of Vulnerabilities to Attack Patterns using Large Language Models

With the advent of new devices and applications, cyber attack surface is continuously evolving due to the emergence of new attack techniques and vulnerabilities. Hence, security management tool must assess the cyber risk of an enterprise at regular interval basis through comprehensively identifying associations among attack techniques, weakness, and vulnerabilities. However, existing repositories providing such associations are incomplete (i.e., missing associations), inducing the likelihood of undermining the risk of particular set of attack techniques. Moreover, such associations still rely on manual interpretation, which is slow compared to attack speed and ineffective for the increasing list of vulnerabilities and attack actions. Therefore, there is an urge to develop methodologies for automatically associating vulnerabilities to all relevant attack techniques. In this paper, we present a framework, named VWC-MAP, that can automatically identify all relevant attack techniques of a vulnerability via weakness based on their text descriptions, applying natural language process (NLP) techniques. To achieve that, we present a novel two-tiered classification approach, where the first tier classifies vulnerabilities to weakness, and the second tier classifies weakness to attack techniques. This research has improved the scalability of the current state-of-the-art tool to make vulnerability to weakness mapping significantly faster. Moreover, this paper presents two novel approaches for weakness to attack technique mapping applying Text-to-Text and link prediction techniques. Our experiment results cross-validated through cyber-security experts show that VWC-MAP can associate vulnerabilities to weakness types with 87% accuracy and to new attack patterns with 80% accuracy.

Das, Siddhartha Shankar↗

Glassoformer: A Query-Sparse Transformer for Post-Fault Power Grid Voltage Prediction

Here, we propose GLassoformer, a novel and efficient transformer architecture leveraging group Lasso regularization to reduce the number of queries of the standard self-attention mechanism. Due to the sparsified queries, GLassoformer is more computationally efficient than the standard transformers. On the power grid post-fault voltage prediction task, GLasso-former shows remarkably better prediction than many existing benchmark algorithms in terms of accuracy and stability.

24 POWER TRANSMISSION AND DISTRIBUTION↗

An Edge Alignment-Based Orientation Selection Method for Neutron Tomography

Neutron computed tomography (nCT) is a 3D char-acterization technique used to image the internal morphology or chemical composition of samples in biology and materials sciences. A typical workflow involves placing the sample in the path of a neutron beam, acquiring projection data at a predefined set of orientations, and processing the resulting data using an analytic reconstruction algorithm. Typical nCT scans require hours to days to complete and are then processed using conventional filtered back-projection (FBP), which performs poorly with sparse views or noisy data. Hence, the main methods in order to reduce overall acquisition time are the use of an improved sampling strategy combined with the use of advanced reconstruction methods such as model-based iterative reconstruction (MBIR). In this paper, we propose an adaptive orientation selection method in which an MBIR reconstruction on previously-acquired measurements is used to define an objective function on orientations that balances a data-fitting term promoting edge alignment and a regularization term promoting orientation diversity. Using simulated and experimental data, we demonstrate that our method produces high-quality reconstructions using significantly fewer total measurements than the conventional approach.

Yang, Diyu↗

Multivariate Time Series Anomaly Detection with Few Positive Samples

Given the scarcity of anomalies in real-world applications, the majority of literature has been focusing on modeling normality. The learned representations enable anomaly detection as the normality model is trained to capture certain key underlying data regularities under normal circumstances. In practical settings, particularly industrial time series anomaly detection, we often encounter situations where a large amount of normal operation data is available along with a small number of anomaly events collected over time. This practical situation calls for methodologies to leverage these small number of anomaly events to create a better anomaly detector. In this paper, we introduce two methodologies to address the needs of this practical situation and compared them with recently developed state of the art techniques. Our proposed methods anchor on representative learning of normal operation with autoregressive (AR) model along with loss components to encourage representations that separate normal versus few positive examples. We applied the proposed methods to two industrial anomaly detection datasets and demonstrated effective performance in comparison with approaches from literature. Our study also points out additional challenges with adopting such methods in practical applications.

Xue, Feng↗