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At least 1,171 records · Page 65

FAIR for AI: An interdisciplinary and international community building perspective

A foundational set of findable, accessible, interoperable, and reusable (FAIR) principles were proposed in 2016 as prerequisites for proper data management and stewardship, with the goal of enabling the reusability of scholarly data. The principles were also meant to apply to other digital assets, at a high level, and over time, the FAIR guiding principles have been re-interpreted or extended to include the software, tools, algorithms, and workflows that produce data. FAIR principles are now being adapted in the context of AI models and datasets. Here, we present the perspectives, vision, and experiences of researchers from different countries, disciplines, and backgrounds who are leading the definition and adoption of FAIR principles in their communities of practice, and discuss outcomes that may result from pursuing and incentivizing FAIR AI research. The material for this report builds on the FAIR for AI Workshop held at Argonne National Laboratory on June 7, 2022.

97 MATHEMATICS AND COMPUTING↗

Evaluation of System-Integrated Smart Grid Devices using Software- and Hardware-in-the-Loop

This paper presents a concise description of state-of-the-art real-time simulation-based testing methods and demonstrates how they can be used independently and/or in combination as an integrated development and validation approach for smart grid DERs and systems. A three-part case study demonstrating the application of this integrated approach at the different stages of development and validation of a system-integrated smart photovoltaic (PV) inverter is also presented. Laboratory testing results and perspectives from two international research laboratories are included in the case study.

14 SOLAR ENERGY↗

LaRIS: Targeting Portability and Productivity for LAPACK Codes on Extreme Heterogeneous Systems by Using IRIS

In keeping with the trend of heterogeneity in high-performance computing, hardware manufacturers and vendors are developing new architectures and associated software stacks (e.g., libraries) to harness the best possible performance from commonly used kernels (e.g., linear algebra kernels). However, kernels tuned for one architecture are not portable to others. Moreover, the coexistence of different architectures in a single node makes orchestration difficult. To address these challenges, we introduce LaRIS, a portable framework for LAPACK functionalities. LaRIS ensures a separation between linear algebra algorithms and vendor-library kernels by using the IRIS run time and IRIS-BLAS library. Such abstraction at the algorithm level makes the implementation completely agnostic to the vendor library and architecture. LaRIS uses the IRIS run time to dynamically select the vendor-library kernel and suitable processor architecture at run time. Through LU factorization, we demonstrate that LaRIS can fully utilize different heterogeneous systems by launching and orchestrating different vendor-library kernels without any change in the source code.

Monil, M. A. H.↗

Multi-Scenario Use Case based Demonstration of Buildings Cybersecurity Framework Webtool

The purpose of this paper is to demonstrate the cybersecurity and software capabilities of Buildings Cybersecurity Framework (BCF) webtool. The webtool is designed based on BCF document and existing NIST standards. It’s capabilities and features are depicted through a building usecase with four different investment scenarios geared towards improving the cybersecurity posture of the building. BCF webtool also facilitates implementation of the goals outlined in Presidential Executive Order (EO) on Strengthening the Cybersecurity of Federal Networks and Critical Infrastructure (May 2017. In realization of the EO goals, BCF includes five core elements: Identify, Protect, Detect, Respond, and Recover, to help determine various policy and process level vulnerabilities and provide mitigation strategies. With the BCF webtool, an organization can perform a cybersecurity self-assessment; determine the current cybersecurity posture; define investment based goals to achieve a target state; connect the cybersecurity posture with business processes, functions, and continuity; and finally, develop plans to answer critical organizational cybersecurity questions. In this paper, the webtool and its core capabilities are depicted by performing an extensive comparative assessment over four different scenarios.

Gourisetti, Sri Nikhil G.↗

SU-E-T-490: Independent Three-Dimensional (3D) Dose Verification of VMAT/SBRT Using EPID and Cloud Computing

Purpose: Dosimetric verification of VMAT/SBRT is currently performed on one or two planes in a phantom with either film or array detectors. A robust and easy-to-use 3D dosimetric tool has been sought since the advent of conformal radiation therapy. Here we present such a strategy for independent 3D VMAT/SBRT plan verification system by a combined use of EPID and cloud-based Monte Carlo (MC) dose calculation. Methods: The 3D dosimetric verification proceeds in two steps. First, the plan was delivered with a high resolution portable EPID mounted on the gantry, and the EPID-captured gantry-angle-resolved VMAT/SBRT field images were converted into fluence by using the EPID pixel response function derived from MC simulations. The fluence was resampled and used as the input for an in-house developed Amazon cloud-based MC software to reconstruct the 3D dose distribution. The accuracy of the developed 3D dosimetric tool was assessed using a Delta4 phantom with various field sizes (square, circular, rectangular, and irregular MLC fields) and different patient cases. The method was applied to validate VMAT/SBRT plans using WFF and FFF photon beams (Varian TrueBeam STX). Results: It was found that the proposed method yielded results consistent with the Delta4 measurements. For points on the two detector planes, a good agreement within 1.5% were found for all the testing fields. Patient VMAT/SBRT plan studies revealed similar level of accuracy: an average γ-index passing rate of 99.2± 0.6% (3mm/3%), 97.4± 2.4% (2mm/2%), and 72.6± 8.4 % ( 1mm/1%). Conclusion: A valuable 3D dosimetric verification strategy has been developed for VMAT/SBRT plan validation. The technique provides a viable solution for a number of intractable dosimetry problems, such as small fields and plans with high dose gradient.

60 APPLIED LIFE SCIENCES↗

SU-E-T-749: Thorough Calibration of MOSFET Dosimeters

Purpose: To improve the accuracy of the MOSFET calibration procedure by performing the measurement several times and calculating the average value of the calibration factor for various photon and electron energies. Methods: The output of three photon and six electron beams of Varian Trilogy linear accelerator SN 5878 was calibrated. Five reinforced standard sensitivity MOSFET dosimeters were placed in the calibration jig and connected to the Reader Module. As the backscatter material was used 7 cm of Virtual Water. The MOSFET dosimeters were covered with 1.5 cm thick bolus for the regular and SRS 6 MV beams, 3 cm bolus for 15 MV beam, 1.5 cm bolus for 6 MeV electron beam, and 2 cm bolus for the electron energies of 9, 12, 15, 18, and 22 MeV. The dosimeters were exposed to 100 MU, and the calibration factor was determined using the mobileMOSFET software. To improve the accuracy of calibration, this procedure was repeated ten times and the calibration factors were averaged. Results: As the number of calibrations was increasing the variability of calibration factors of different dosimeters was decreasing. After ten calibrations, the calibration factors for all five dosimeters were within 1% of one another for all energies, except 6 MV SRS photons and 6 MeV electrons, for which the variability was 2%. Conclusions: The described process results in calibration factors which are almost independent of modality or energy. Once calibrated, the dosimeters may be used for in-vivo dosimetry or for daily verification of the beam output. Measurement of the radiation dose under bolus and scatter to the eye are examples of frequent use of calibrated MOSFET dosimeters. The calibration factor determined for full build-up is used under these circumstances. To the best of our knowledge, such thorough procedure for calibrating MOSFET dosimeters has not been reported previously. Best Medical Canada provided MOSFET dosimeters for this project.

60 APPLIED LIFE SCIENCES↗

Thermal safety of ultrasound-enhanced ocular drug delivery: A modeling study

Purpose: Delivery of sufficient amounts of therapeutic drugs into the eye for treatment of various ocular diseases is often a challenging task. Ultrasound was shown to be effective in enhancing ocular drug delivery in the authors’ previous in vitro and in vivo studies. Methods: The study reported here was designed to investigate the safety of ultrasound application and its potential thermal effects in the eye using PZFlex modeling software. The safety limit in this study was set as a temperature increase of no more than 1.5 °C based on regulatory recommendations and previous experimental safety studies. Acoustic and thermal specifications of different human eye tissues were obtained from the published literature. The tissues of particular interest in this modeling safety study were cornea, lens, and the location of optic nerve in the posterior eye. Ultrasound application was modeled at frequencies of 400 kHz–1 MHz, intensities of 0.3–1 W/cm{sup 2}, and exposure duration of 5 min, which were the parameters used in the authors’ previous drug delivery experiments. The baseline eye temperature was 37 °C. Results: The authors’ results showed that the maximal tissue temperatures after 5 min of ultrasound application were 38, 39, 39.5, and 40 °C in the cornea, 39.5, 40, 42, and 43 °C in the center of the lens, and 37.5, 38.5, and 39 °C in the back of the eye (at the optic nerve location) at frequencies of 400, 600, 800 kHz, and 1 MHz, respectively. Conclusions: The ocular temperatures reached at higher frequencies were considered unsafe based on current recommendations. At a frequency of 400 kHz and intensity of 0.8 W/cm{sup 2} (parameters shown in the authors’ previous in vivo studies to be optimal for ocular drug delivery), the temperature increase was small enough to be considered safe inside different ocular tissues. However, the impact of orbital bone and tissue perfusion should be included in future modeling efforts to determine the safety of this method in the whole orbit especially regarding potential adverse optic nerve heating at the location of the bone.

60 APPLIED LIFE SCIENCES↗

Description of the atomic disorder (local order) in crystals by the mixed-symmetry method

An approach to the description of local atomic disorder (short-range order) in single crystals by the mixed-symmetry method based on Bragg scattering data is proposed, and the corresponding software is developed. In defect-containing crystals, each atom in the unit cell can be described by its own symmetry space group. The expression for the calculated structural factor includes summation over different sets of symmetry operations for different atoms. To facilitate the search for new symmetry elements, an “atomic disorder expert” was developed, which estimates the significance of tested models. It is shown that the symmetry lowering for some atoms correlates with the existence of phase transitions (in langasite family crystals) and the anisotropy of physical properties (in rare-earth dodecaborides RB{sub 12}).

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

TRuML

Kappa and BioNetGen (BNGL) are prominent rule-based modeling languages for representing complex biochemical reaction networks. Each language is distributed with a distinct software suite and modelers may wish to take advantage of both toolsets. This application, TRuML, translates models written in either Kappa or BNGL into the other language. While similar in many respects, key differences between the two languages makes translation sufficiently complex that automation becomes a useful tool. TRuML accommodates the languages' complexities and produces a semantically equivalent model in the alternate language of the input model when possible, and an approximate model in certain other cases.

Hlavacek, William↗

Seismic H2: Version 1.0

Seismic-H2 is an integrated software package for geological hydrogen reservoir simulation, optimization, and leakage monitoring. The package includes multiple components: (1) code used for modeling seismic wave propagation in 3D heterogeneous elastic media based on finite-difference method to support detection of geological hydrogen storage reservoir leakage; (2) 3D reservoir simulations of leaks from an underground reservoir and 3D simulations of saline aquifers and depleted gas reservoirs; (3) seismic monitoring costs of passive and active seismic monitoring required for UHS; (4) rock physics calculations and interpolations for converting the reservoir simulations from part (2) into the elastic media models in part (1); (5) pre-processing seismic data; and lastly (6), a GUI interface that combines these different components.

Creasy, Neala↗

flowVS: channel-specific variance stabilization in flow cytometry

Abstract Background Comparing phenotypes of heterogeneous cell populations from multiple biological conditions is at the heart of scientific discovery based on flow cytometry (FC). When the biological signal is measured by the average expression of a biomarker, standard statistical methods require that variance be approximately stabilized in populations to be compared. Since the mean and variance of a cell population are often correlated in fluorescence-based FC measurements, a preprocessing step is needed to stabilize the within-population variances. Results We present a variance-stabilization algorithm, called flowVS, that removes the mean-variance correlations from cell populations identified in each fluorescence channel. flowVS transforms each channel from all samples of a data set by the inverse hyperbolic sine (asinh) transformation. For each channel, the parameters of the transformation are optimally selected by Bartlett’s likelihood-ratio test so that the populations attain homogeneous variances. The optimum parameters are then used to transform the corresponding channels in every sample. flowVS is therefore an explicit variance-stabilization method that stabilizes within-population variances in each channel by evaluating the homoskedasticity of clusters with a likelihood-ratio test. With two publicly available datasets, we show that flowVS removes the mean-variance dependence from raw FC data and makes the within-population variance relatively homogeneous. We demonstrate that alternative transformation techniques such as flowTrans, flowScape, logicle, and FCSTrans might not stabilize variance. Besides flow cytometry, flowVS can also be applied to stabilize variance in microarray data. With a publicly available data set we demonstrate that flowVS performs as well as the VSN software, a state-of-the-art approach developed for microarrays. Conclusions The homogeneity of variance in cell populations across FC samples is desirable when extracting features uniformly and comparing cell populations with different levels of marker expressions. The newly developed flowVS algorithm solves the variance-stabilization problem in FC and microarrays by optimally transforming data with the help of Bartlett’s likelihood-ratio test. On two publicly available FC datasets, flowVS stabilizes within-population variances more evenly than the available transformation and normalization techniques. flowVS-based variance stabilization can help in performing comparison and alignment of phenotypically identical cell populations across different samples. flowVS and the datasets used in this paper are publicly available in Bioconductor.

60 APPLIED LIFE SCIENCES↗

Development of a high-fidelity multi-cycle model of the NuScale small modular reactor using VERA

With growing renewables penetration, there is increased interest in flexible power operation for nuclear reactors. For multi-unit SMRs, in particular the NuScale SMR, which is an integral pressurized water reactor, there are opportunities to optimize flexible power operation across multiple units to limit the degradation of structural and control components. Here, we focus on degradation of in-core components, specifically the control rods and reactor pressure vessel. To perform these studies a high-fidelity, multi-cycle representation of the NuScale SMR is required, with a detailed representation of the structural and control components. To this end, the NuScale SMR has been modelled using the Virtual Environment for Reactor Applications (VERA) software. The entire transition to equilibrium is simulated, from Cycle 1 through to the equilibrium cycle. The equilibrium cycle model shows a good agreement with the NuScale design certification application (DCA) results, with differences attributable to a combination of using public domain data for the present study, and methodological differences. K-effective, power distributions, reactivity coefficients, and boron letdown curves are compared and all found to closely match. This shows that the VERA model is suitable for further studies. (authors)

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

A scalable framework for the global offline community land model ensemble simulation

Current earth system models have a large range of uncertainty, owing to differences in the simulation of feedbacks and insufficient information to constrain model parameters. Parameter disturbance experiment provides a straightforward method to quantify the variation (uncertainty) outputs caused by model inputs. Owing to the software complexity and computational intensity of earth system models, a large-scale simulation framework is needed to support ensemble simulation required by parameter disturbance experiment. This paper presents a parallel framework for the community land model ensemble simulation. After a software structure review of the community land model simulation, a single factor parameter disturbance experiment of a reference computational experiment design is used to demonstrate the software design principles, computational characteristics of individual application, parallel ensemble simulation implementation, as well as the weak scalability of this simulation framework on a high-end computer. Lastly, the paper discusses some preliminary diagnostic analysis results of the single factor parameter disturbance experiments. The framework design considerations and implementation details described in this paper can be beneficial to many other research programmes involving large scale, legacy modelling system.

58 GEOSCIENCES↗

Pathway Aggregation in the Risk Assessment of Proliferation Resistance and Physical Protection (PR&PP) of Nuclear Energy Systems

The framework for Proliferation Resistance and Physical Protection (PR & PP) evaluation is to define a set of challenges, to obtain the system responses, and to assess the outcomes. The assessment of outcomes heavily relies on pathways, defined as sequences of events or actions that could potentially be followed by a State or a group of individuals in order to achieve a proliferation objective, with the defined threats as initiating events. There may be large number of segments connecting pathway stages (e.g. acquisition, processing, and fabrication for PR) which can lead to even larger number of pathways or scenarios through possible different combinations of segment connections, each with associated probabilities contributing to the overall risk. Clustering of these scenarios in specified stage attribute intervals is important for their tractable analysis and outcome assessment. A software tool for scenario generation and clustering (OSUPR) is developed that utilizes the PRCALC code developed at the Brookhaven National Laboratory for scenario generation and the K- means, mean shift and adaptive mean shift algorithms as possible clustering schemes. The results of the study using the Example Sodium Fast Breeder as an example system show that clustering facilitates the probabilistic or deterministic analysis of scenarios to identify system vulnerabilities and communication of the major risk contributors to stakeholders. The results of the study also show that the mean shift algorithm has the most potential for assisting the analysis of the scenarios generated by PRCALC.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

Implementation of High Temperature and Pressure fluid property interpolation tables

This document describes the use of module property_interpolate by John Doherty (Doherty,2006). The document “Fast Lookup of CO 2 Properties” describes the numerical details associated with lookup table. Rajeh Pawar modified property_interpolate for easier implementation in the FEHM code. George Zyvoloski modified the package to produce tables for water and air at very high temperatures and pressures. He also modified the auxiliary codes(drivers) to use newer datasets from the National Institute of Standards and Technology. We note here that within the files associated with FEHM there three property_interpolate modules. They are interpolate_2a.f90 (water), interpolate_2b.f90 (air) , and interpolate_2c.f90(CO 2 ). The interpolate_2c module is different than the earlier module produced by Rajeh Pawar in that it includes high temperature and pressure data. While FEHM has a number of fluid physics modules, this document will describe only the software and algorithms associated with water, water vapor, and heat (WH).

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Novel Solar Panel Defect Detection Hardware and Defect Analysis Software (CRADA Final Report)

The CRADA work involved 1) the development of a machine learning software architecture to automatically detect defects within Electroluminescence images of solar panels, and 2) demonstrations of the usefulness of UV Fluorescence (UVF) defect detection for a wide variety of defect types across many different solar panel technologies with different field or environmental chamber histories.

14 SOLAR ENERGY↗

Novel Solar Panel Defect Detection Hardware and Defect Analysis Software (CRADA Final Report)

The CRADA work involved 1) the development of a machine learning software architecture to automatically detect defects within Electroluminescence images of solar panels, and 2) demonstrations of the usefulness of UV Fluorescence (UVF) defect detection for a wide variety of defect types across many different solar panel technologies with different field or environmental chamber histories.

14 SOLAR ENERGY↗

Online Interactive Platform for COVID-19 Literature Visual Analytics: Platform Development Study

Background Papers on COVID-19 are being published at a high rate and concern many different topics. Innovative tools are needed to aid researchers to find patterns in this vast amount of literature to identify subsets of interest in an automated fashion. Objective We present a new online software resource with a friendly user interface that allows users to query and interact with visual representations of relationships between publications. Methods We publicly released an application called PLATIPUS (Publication Literature Analysis and Text Interaction Platform for User Studies) that allows researchers to interact with literature supplied by COVIDScholar via a visual analytics platform. This tool contains standard filtering capabilities based on authors, journals, high-level categories, and various research-specific details via natural language processing and dozens of customizable visualizations that dynamically update from a researcher’s query. Results PLATIPUS is available online and currently links to over 100,000 publications and is still growing. This application has the potential to transform how COVID-19 researchers use public literature to enable their research. Conclusions The PLATIPUS application provides the end user with a variety of ways to search, filter, and visualize over 100,00 COVID-19 publications.</:p>

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗