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At least 703 records · Page 39

Development of a mobile toolmark characterization/comparison system [Development of a mobile, automated toolmark characterization/comparison system]

Since the development of the striagraph, various attempts have been made to enhance forensic investigation through the use of measuring and imaging equipment. This study describes the development of a prototype system employing an easy-to-use software interface designed to provide forensic examiners with the ability to measure topography of a toolmarked surface and then conduct various comparisons using a statistical algorithm. Acquisition of the data is carried out using a portable 3D optical profilometer, and comparison of the resulting data files is made using software named “MANTIS” (Mark and Tool Inspection Suite). The system has been tested on laboratory-produced markings that include fully striated marks (e.g., screwdriver markings), quasistriated markings produced by shear-cut pliers, impression marks left by chisels, rifling marks on bullets, and cut marks produced by knives. Using the system, an examiner has the potential to (i) visually compare two toolmarked surfaces in a manner similar to a comparison microscope and (ii) use the quantitative information embedded within the acquired data to obtain an objective statistical comparison of the data files. Finally, this study shows that, based on the results from laboratory samples, the system has great potential for aiding examiners in conducting comparisons of toolmarks.

47 OTHER INSTRUMENTATION↗

TX$^2$: Transformer eXplainability and eXploration

The Transformer eXplainability and eXploration (Martindale & Stewart, 2021), or TX 2 software package, is a library designed for artificial intelligence researchers to better understand the performance of transformer models (Vaswani et al., 2017) used for sequence classification. The tool is capable of integrating with a trained transformer model and a dataset split into training and testing populations to produce an ipywidget (Project Jupyter Contributors, 2021) dashboard with a number of visualizations to understand model performance with an emphasis on explainability and interpretability. The TX 2 package is primarily intended to integrate into a workflow centered around Jupyter Notebooks (Kluyver et al., 2016), and currently assumes the use of PyTorch (Paszke et al., 2019) and Hugging Face transformers library (Wolf et al., 2020). The dashboard includes visualization and data exploration features to aid researchers, including an interactive UMAP embedding graph (McInnes et al., 2018) to understand classification clusters, a word salience map that can be updated as researchers alter textual entries in near real time, a set of tools to understand word frequency and importance based on the clusters in the UMAP embedding graph, and a set of traditional confusion matrix analysis tools.

97 MATHEMATICS AND COMPUTING↗

A study on leakage radiation dose at ELV-4 electron accelerator bunker

Shielding is an important aspect in the safety of an accelerator and the most important aspects of a bunker shielding is the door. The bunker’s door should be designed properly to minimize the leakage radiation and shall not exceed the permitted limit of 2.5μSv/hr. In determining the leakage radiation dose that passed through the door and gaps between the door and the wall, 2-dimensional manual calculations are often used. This method is hard to perform because visual 2-dimensional is limited and is also very difficult in the real situation. Therefore estimation values are normally performed. In doing so, the construction cost would be higher because of overestimate or underestimate which require costly modification to the bunker. Therefore in this study, two methods are introduced to overcome the problem such as simulation using MCNPX Version 2.6.0 software and manual calculation using 3-dimensional model from Autodesk Inventor 2010 software. The values from the two methods were eventually compared to the real values from direct measurements using Ludlum Model 3 with Model 44-9 probe survey meter.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

A simplified HTc rf SQUID to analyze the human cardiac magnetic field

We have developed a four-channel high temperature radio-frequency superconducting quantum interference device (HT{sub c} rf SQUID) in a simple magnetically shielded room (MSR) that can be used to analyze the cardiac magnetic field. It is more robust and compact than existing systems. To achieve the high-quality magnetocardiographic signal, we explored new adaptive software gradiometry technology constructed by the first-order axial gradiometer with a baseline of 80mm, which can adjust its performance timely with the surrounding conditions. The magnetic field sensitivity of each channel was less than 100fT/√Hz in the white noise region. Especially, in the analysis of MCG signal data, we proposed the total transient mapping (TTM) technique to visualize current density map (CDM), then we focused to observe the time-varying behavior of excitation propagation and estimated the underlying currents at T wave. According to the clear 3D imaging, isomagnetic field and CDM, the position and distribution of a current source in the heart can be visualized. It is believed that our four-channel HT{sub c} rf SQUID magnetometer based on biomagnetic system is available to detect MCG signals with sufficient signal-to-noise (SNR) ratio. In addition, the CDM showed the macroscopic current activation pattern, in a way, it has established strong underpinnings for researching the cardiac microscopic movement mechanism and opening the way for its use in clinical diagnosis.

36 MATERIALS SCIENCE↗

The 2015 Bioinformatics Open Source Conference (BOSC 2015)

The Bioinformatics Open Source Conference (BOSC) is organized by the Open Bioinformatics Foundation (OBF), a nonprofit group dedicated to promoting the practice and philosophy of open source software development and open science within the biological research community. Since its inception in 2000, BOSC has provided bioinformatics developers with a forum for communicating the results of their latest efforts to the wider research community. BOSC offers a focused environment for developers and users to interact and share ideas about standards; software development practices; practical techniques for solving bioinformatics problems; and approaches that promote open science and sharing of data, results, and software. BOSC is run as a two-day special interest group (SIG) before the annual Intelligent Systems in Molecular Biology (ISMB) conference. BOSC 2015 took place in Dublin, Ireland, and was attended by over 125 people, about half of whom were first-time attendees. Session topics included “Data Science;” “Standards and Interoperability;” “Open Science and Reproducibility;” “Translational Bioinformatics;” “Visualization;” and “Bioinformatics Open Source Project Updates”. In addition to two keynote talks and dozens of shorter talks chosen from submitted abstracts, BOSC 2015 included a panel, titled “Open Source, Open Door: Increasing Diversity in the Bioinformatics Open Source Community,” that provided an opportunity for open discussion about ways to increase the diversity of participants in BOSC in particular, and in open source bioinformatics in general. The complete program of BOSC 2015 is available online at http://www.open-bio.org/wiki/BOSC_2015_Schedule.

59 BASIC BIOLOGICAL SCIENCES↗

SU-C-18C-03: Dual-Energy X-Ray Fluoroscopy Imaging System

Purpose: This work studies the clinical utility of dual energy (DE) subtraction fluoroscopy for fiducial-free tumor tracking in lung radiation therapy (RT). Improvement in tumor visualization and quantification of tumor shift within a breathing cycle were analyzed. Methods: Twenty subjects who were undergoing RT for lung cancer were recruited following institutional review board approval. The subjects had a range of tumor sizes, locations in the lungs, and body sizes. An x-ray imaging system was setup with the following components: (a) x-ray tube (Varian G-242, Varian Medical Systems (VMS), CA) (b) flat panel detector (4030CB, VMS, CA) and (c) x-ray generator (EPS 50RF, EMD, Canada). Firmware and software modifications were made to the generator to allow 10 x-ray pulse pairs with alternating low/high kV, 100 ms apart for ∼4s (one breathing cycle). Images were obtained at 4 angles: 0°, 45°, 90° and 135°. Weighted subtraction of a kV-pair image set was used to create a “bone-free” image of the lungs. The 2D tumor-shift in each subtracted image and the 3D shift during a breathing cycle was calculated using all views. Results: The subjects enrolled had the following statistics: average age 62.3±7.1 years, 5 female/15 male, 11 had tumors on the right and 9 on the left and the average tumor size was ∼31.4±10.8 mm. X-ray imaging conditions for the pulse pairs were: 70/120 kVp, 280/221 mA and 65/8 ms. For views where these parameters were insufficient 80/130 kVp, 280/221 mA and 60/12 ms was used. Tumor visibility improved for 0°, 45°, 90° and 135° in 100%, 55%, 75% and 80% of the cases respectively. Tumor shift during a breathing cycle was: 2.4±1.0 mm AP, 2.7±1.4 mm LR and 7.6±4.8 mm IS. Conclusion: DE subtraction fluoroscopy allowed improved visualization and quantification of movement of tumors in the lungs during a breathing cycle. This study was entirely funded by Varian Medical Systems.

60 APPLIED LIFE SCIENCES↗

Echo™ User Manual

Echo™ is a MATLAB-based software package designed for robust and scalable analysis of complex data workflows. An alternative to tedious, error-prone conventional processes, Echo is based on three transformative principles for data analysis: self-describing data, name-based indexing, and dynamic resource allocation. The software takes an object-oriented approach to data analysis, intimately connecting measurement data with associated metadata. Echo operations in an analysis workflow automatically track and merge metadata and computation parameters to provide a complete history of the process used to generate final results, while automated figure and report generation tools eliminate the potential to mislabel those results. History reporting and visualization methods provide straightforward auditability of analysis processes. Furthermore, name-based indexing on metadata greatly improves code readability for analyst collaboration and reduces opportunities for errors to occur. Echo efficiently manages large data sets using a framework that seamlessly allocates resources such that only the necessary computations to produce a given result are executed. Echo provides a versatile and extensible framework, allowing advanced users to add their own tools and data classes tailored to their own specific needs. Applying these transformative principles and powerful features, Echo greatly improves analyst efficiency and quality of results in many application areas.

97 MATHEMATICS AND COMPUTING↗

Accuracy of UTE-MRI-based patient setup for brain cancer radiation therapy

Purpose: Radiation therapy simulations solely based on MRI have advantages compared to CT-based approaches. One feature readily available from computed tomography (CT) that would need to be reproduced with MR is the ability to compute digitally reconstructed radiographs (DRRs) for comparison against on-board radiographs commonly used for patient positioning. In this study, the authors generate MR-based bone images using a single ultrashort echo time (UTE) pulse sequence and quantify their 3D and 2D image registration accuracy to CT and radiographic images for treatments in the cranium. Methods: Seven brain cancer patients were scanned at 1.5 T using a radial UTE sequence. The sequence acquired two images at two different echo times. The two images were processed using an in-house software to generate the UTE bone images. The resultant bone images were rigidly registered to simulation CT data and the registration error was determined using manually annotated landmarks as references. DRRs were created based on UTE-MRI and registered to simulated on-board images (OBIs) and actual clinical 2D oblique images from ExacTrac™. Results: UTE-MRI resulted in well visualized cranial, facial, and vertebral bones that quantitatively matched the bones in the CT images with geometric measurement errors of less than 1 mm. The registration error between DRRs generated from 3D UTE-MRI and the simulated 2D OBIs or the clinical oblique x-ray images was also less than 1 mm for all patients. Conclusions: UTE-MRI-based DRRs appear to be promising for daily patient setup of brain cancer radiotherapy with kV on-board imaging.

61 RADIATION PROTECTION AND DOSIMETRY↗

BCS (Beamline Control System) v2

The software is a flexible architecture used to integrate motors, analog data, digital signals, and instruments together to control scientific experiments and collect data during an experiment. The architecture supports features needed by scientists to quickly add new hardware to an experiment and to take and view data in a meaningful way. It does not perform analysis of the data, but provides basic visualization needed to evaluate the quality of the data as well as the calibration of the system.

Cornell, Earl↗

Advancing \textit{otsdaq}: Enhancements for Usability, Accuracy, and Robustness

High-energy physics (HEP) experiments require data acquisition (DAQ) systems that can orchestrate complex detector operations, high data throughput, and responsive, real-time feedback to operators. Traditional DAQ stacks, which are often bespoke, command-line driven and highly specific, impose large learning curves on users. The Off-The-Shelf Data Acquisition (\textit{otsdaq}) framework was created to address these issues by offering a highly customizable and scalable browser-based ’desktop’ environment, in which experiment-specific control and monitoring applications can be easily deployed and integrated. Although the initial development of the \textit{otsdaq} software was aimed at the Fermilab Test Beam Facility, \textit{otsdaq} is now being leveraged for broader deployment, including the upcoming Mu2e experiment, where real-time monitoring of field-programmable gate array (FPGA)-based Data Transfer Controllers (DTCs), Clock and Fanout (CFO) boards, and several other subsystems are critical. We contribute a set of targeted improvements to \textit{otsdaq}: bitmap visualization functionality for configured data, improved and corrected delta-based DTC throughput metrics, version control (VC)-backed source navigation for console messages, custom navigation hooks to eliminate disruptive user interface glitches, and copy-to-clipboard support for macro execution history. These changes improve usability, reduce debugging time, and increase accuracy in performance data as Mu2e moves toward commissioning.

Mohammed, A. [Unlisted, US]↗

radkit v1.2

The radkit software suite (python) consists of three primary libraries: stark, trajan, and curie. The trajan library provides the tools to analyze and manipulate data from lidar and inertial measurement unit (IMU) devices as well as trajectories from algorithms such as simultaneous localization and mapping (SLAM). These components allow reading and writing standard data formats, performing rigid affine transformations, discretizing three-dimensional space, and visualizing data products. The curie library comprises a standard set of object-oriented tools for radiation data and analysis in the following modules: (1) listmode and binmode data classes with methods for manipulation, plotting, slicing and file IO; (2) radiological/nuclear source detection/identification analysis results; (3) source encounters of correlated analyses and (4) energy-dependent angular detector response functions. The stark package provides low-level tools that are leveraged by both curie and trajan. The tools are flexible for offline analysis as well as performant for real-time integrations. The radkit libraries have associated Robot Operating System packages for use in real-time and robotic systems.

Joshi, Tenzing↗

Final Report Scalable Analysis Methods and In Situ Infrastructure for Extreme Scale Knowledge Discovery

The primary challenge motivating this project is the widening gap between the ability to compute information and to store it for subsequent analysis. This gap adversely impacts science code teams, who can perform analysis only on a small fraction of the data they calculate, resulting in the substantial likelihood of lost or missed science, when results are computed but not analyzed. Our approach is to perform as much analysis or visualization processing on data while it is still resident in memory, which is known as in situ processing. The idea in situ processing was not new at the time of the start of this effort in 2014, but efforts in that space were largely ad hoc, and there was no concerted effort within the research community that aimed to foster production-quality software tools suitable for use by Department of Energy (DOE) science projects. Our objective was to produce and enable the use of production-quality in situ methods and infrastructure, at scale, on DOE high-performance computing (HPC) facilities, though we expected to have an impact beyond DOE due to the widespread nature of the challenges, which affect virtually all large-scale computational science efforts. To achieve this objective, we engaged in software technology research and development (R&D), in close partnerships with DOE science code teams, to produce software technologies that were shown to run efficiently at scale on DOE HPC platforms.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Final Report to the National Energy Technology Laboratory on FY14- FY15 Cooperative Research with the Consortium for Electric Reliability Technology Solutions

The Power System Engineering Research Center (PSERC) engages in technological, market, and policy research for an efficient, secure, resilient, adaptable, and economic U.S. electric power system. PSERC, as a founding partner of the Consortium for Electric Reliability Technology Solutions (CERTS), conducted a multi-year program of research for U.S. Department of Energy (DOE) Office of Electricity Delivery and Energy Reliability (OE) to develop new methods, tools, and technologies to protect and enhance the reliability and efficiency of the U.S. electric power system as competitive electricity market structures evolve, and as the grid moves toward wide-scale use of decentralized generation (such as renewable energy sources) and demand-response programs. Phase I of OE’s funding for PSERC, under cooperative agreement DE-FC26-09NT43321, started in fiscal year (FY) 2009 and ended in FY2013. It was administered by DOE’s National Energy Technology Laboratory (NETL) through a cooperative agreement with Arizona State University (ASU). ASU provided sub-awards to the participating PSERC universities. This document is PSERC’s final report to NETL on the activities for OE, conducted through CERTS, from September 2015 through September 2017 utilizing FY 2014 to FY 2015 funding under cooperative agreement DE-OE0000670. PSERC is a thirteen-university consortium with over 30 industry members. Since 1996, PSERC has been engaged in research and education efforts with the mission of “empowering minds to engineer the future electric energy system.” Its work is focused on achieving: • An efficient, secure, resilient, adaptable, and economic electric power infrastructure serving society • A new generation of educated technical professionals in electric power • Knowledgeable decision-makers on critical energy policy issues • Sustained, quality university programs in electric power engineering. PSERC core research is funded by industry, with a budget supporting approximately 30 principal investigators and some 70 graduate students and other researchers. Its researchers are multi-disciplinary, conducting research in three principal areas: power systems, power markets and policy, and transmission and distribution technologies. The research is collaborative; each project involves researchers typically at two universities working with industry advisors who have expressed interest in the project. Examples of topics for recent PSERC research projects include grid integration of renewables and energy storage, new tools for taking advantage of increased penetration of real-time system measurements, advanced system protection methods to maintain grid reliability, and risk and reliability assessment of increasingly complex cyber-enabled power systems. A PSERC’s objective is to proactively address the technical and policy challenges of U.S. electric power systems. To achieve this objective, PSERC works with CERTS to conduct technical research on advanced applications and investigate the design of fair and transparent electricity markets; these research topics align with CERTS research areas 1 and 2: Real-time Grid Reliability Management (Area 1), and Reliability and Markets (Area 2). The CERTS research areas overlap with the PSERC research stems: Power Systems, Power Markets, and Transmission and Distribution Technologies, as described on the PSERC website (see http://www.pserc.org/research/research_program.aspx). The performers were with Arizona State University (ASU), Cornell University (CU), University of California at Berkeley (UCB), and University of Illinois at Urbana-Champaign (UIUC). PSERC research activities in the area of reliability and markets focused on electric market and power policy analyses. The resulting studies suggest ways to frame best practices using organized markets for managing U.S. grid assets reliably and to identify highest priority areas for improvement. PSERC research activities in the area of advanced applications focused on mid- to long-term software research and development, with anticipated outcomes that move innovative ideas toward real-world application. Under the CERTS research area of Real-time Grid Reliability Management, PSERC has been focused on Advanced Applications Research and Development (AARD), a subgroup of activities that works to develop advanced applications and tools to more effectively operate the electricity delivery system, by enabling advanced analysis, visualization, monitoring and alarming, and decision support capabilities for grid operators.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Harvesting the low-hanging fruit of high energy savings -- Virtual Occupancy using Wi-Fi Data

Approximately 20% of primary energy consumed in the U.S. is attributed to HVAC use. Ideally, HVAC operation would be driven by actual building occupancy, but lack of reliable occupancy information often results in the use of conservative static schedules. This disparity is even more pronounced in a college campus, where the function of each space differs by building (classrooms, offices, libraries) and the class schedules change frequently -- every semester, day of week, and hour. While several research papers propose the use of counts of the Wi-Fi connections (e.g., phones, computers) as a proxy for occupancy, few real-world implementations exist. This paper describes the development and deployment of an open-source Wi-Fi-to-Occupancy software library in 65 buildings of a college campus, and the planned integration with the building energy management and control system at the building scale. Over a year of Wi-Fi data was gathered into distinct academic periods, including fall and spring semester, academic breaks, and summer sessions. Patterns such as students moving between classrooms, closing laptops before exams, etc., can be visualized from the data. Approximating occupancy from Wi-Fi data presents challenges which we address in this project -- for example, identifying static devices, or estimating the ratio of devices per person. Utilizing real-time occupancy data to inform optimal HVAC schedules and ventilation rates creates the potential to identify and reduce energy waste. Other potential applications include forecasting occupancy, and using Wi-Fi data to predict peak demands. Finally, the paper discusses how to easily scale these tools to other buildings.

Pritoni, Marco↗

SU-E-J-126: Respiratory Gating Quality Assurance: A Simple Method to Achieve Millisecond Temporal Resolution

Purpose: Low temporal latency between a gating on/off signal and a linac beam on/off during respiratory gating is critical for patient safety. Although, a measurement of temporal lag is recommended by AAPM Task Group 142 for commissioning and annual quality assurance, there currently exists no published method. Here we describe a simple, inexpensive, and reliable method to precisely measure gating lag at millisecond resolutions. Methods: A Varian Real-time Position Management™ (RPM) gating simulator with rotating disk was modified with a resistive flex sensor (Spectra Symbol) attached to the gating box platform. A photon diode was placed at machine isocenter. Output signals of the flex sensor and diode were monitored with a multichannel oscilloscope (Tektronix™ DPO3014). Qualitative inspection of the gating window/beam on synchronicity were made by setting the linac to beam on/off at end-expiration, and the oscilloscope's temporal window to 100 ms to visually examine if the on/off timing was within the recommended 100-ms tolerance. Quantitative measurements were made by saving the signal traces and analyzing in MatLab™. The on and off of the beam signal were located and compared to the expected gating window (e.g. 40% to 60%). Four gating cycles were measured and compared. Results: On a Varian TrueBeam™ STx linac with RPM gating software, the average difference in synchronicity at beam on and off for four cycles was 14 ms (3 to 30 ms) and 11 ms (2 to 32 ms), respectively. For a Varian Clinac™ 21EX the average difference at beam on and off was 127 ms (122 to 133 ms) and 46 ms (42 to 49 ms), respectively. The uncertainty in the synchrony difference was estimated at ±6 ms. Conclusion: This new gating QA method is easy to implement and allows for fast qualitative inspection and quantitative measurements for commissioning and TG-142 annual QA measurements.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Urban Deployment Model (UDM) v1.0

The software, called the Urban Deployment Model (UDM), is an integrated set of tools for the simulation and analysis of static and mobile radiation detection systems in complex urban environments. The UDM includes a graphical user interface through which the workflow associated with setting up and executing a simulation may be established. The modular toolsets combine aspects of radiation transport, navigation, graph theory, optimization, and visualization to allow the complete end-to-end simulation of large scale, highly-distributed sensor networks.

Abgrall, Nicolas↗

radkit base v1.6

The radkit (base) software suite (python) consists of three primary libraries: stark, trajan, and curie. The trajan library provides the tools to analyze and manipulate data from lidar and inertial measurement unit (IMU) devices, cameras, as well as trajectories from algorithms such as simultaneous localization and mapping (SLAM). These components allow reading and writing standard data formats, performing rigid affine transformations, discretizing three-dimensional space, and visualizing data products. The curie library comprises a standard set of object-oriented tools for radiation data and analysis in the following modules: (1) listmode and binmode data classes with methods for manipulation, plotting, slicing and file IO; (2) radiological/nuclear source detection/identification analysis results; (3) source encounters of correlated analyses and (4) energy-dependent angular detector response functions. The stark package provides low-level tools that are leveraged by both curie and trajan. The tools are flexible for offline analysis as well as performant for real-time integrations.

Salathe, Marco [Lawrence Berkeley National Laborat↗

A Design Document: Custom Analytical Tools and Automation for the Industrial Hygienist

This report outlines an approach for developing a modular and scalable web-based application suite, Internal Data Access and Visualization (I-DAV), that would be developed to meet the specific analytic requirements for Industrial Hygienist (IH) analysts and tank vapors Subject Matter Expert’s (SME) at the Hanford site. Through interviews and requirements elicitation with IH analyst, and on-site in depth review of workflow patterns and expected outcomes, PNNL has developed a framework for proposed collection of interdependent goal oriented software applications. Commercial off the shelf applications, which require only minimal custom code, were deployed this year as a mechanism of rapid prototyping and providing proof of concept. This report describes these efforts and accomplishments to date, as well as concepts for future applications and general enhancement of the DAV and core concepts for the I-DAV. Additional content was integrated into this report as of March 2019. Updated content was added to reflect the inclusion of I-DAV concepts and ideas, and refined versions of original concepts set forth as the work commenced and continued through the first half of FY19. New and refined concepts have been the product of ongoing weekly meetings, outreach, and elicitation with WRPS.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗