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DOE OSTI2022

Automated quantum error mitigation based on probabilistic error reduction

Current quantum computers suffer from a level of noise that prohibits extracting useful results directly from longer computations. The figure of merit in many near-term quantum algorithms is an expectation value measured at the end of the computation, which experiences a bias in the presence of hardware noise. A systematic way to remove such bias is probabilistic error cancellation (PEC). PEC requires a full characterization of the noise and introduces a sampling overhead that increases exponentially with circuit depth, prohibiting high-depth circuits at realistic noise levels. Probabilistic error reduction (PER) is a related quantum error mitigation method that systematically reduces the sampling overhead at the cost of reintroducing bias. In combination with zero-noise extrapolation, PER can yield expectation values with an accuracy comparable to PEC.Noise reduction through PER is broadly applicable to near-term algorithms, and the automated implementation of PER is thus desirable for facilitating its widespread use. To this end, we present an automated quantum error mitigation software framework that includes noise tomography and application of PER to user-specified circuits. We provide a multi-platform Python package that implements a recently developed Pauli noise tomography (PNT) technique for learning a sparse Pauli noise model and exploits a Pauli noise scaling method to carry out PER.We also provide software tools that leverage a previously developed toolchain, employing PyGSTi for gate set tomography and providing a functionality to use the software Mitiq for PER and zero-noise extrapolation to obtain error-mitigated expectation values on a user-defined circuit.

McDonough, Benjamin↗

DOE OSTI2021

R3IT, Rapid Rural Resilient Interconnection Toolkit, Final Technical Report

Utilities nationwide are beginning to experience multiple solar interconnection requests per day. This request volume will soon overwhelm utility engineers, especially at smaller utilities which serve the majority of the landmass of the United States. In this project, we developed open-source software tool that automates the interconnection approval process and removes 80% of the time required to approve an interconnection and hence allow more solar to be quickly and safely integrated with the grid. This software is accompanied by a guidebook detailing interconnection best practices and utility lessons learned. Competing solar interconnection software is extremely expensive at ten times the cost of typical distribution engineering tools, it’s closed source which makes it hard to integrate into utility workflows, and it doesn’t address the hardest power flow modeling challenges of interconnection screening. Our solution was built built with our utility partners who are already experiencing multiple interconnection requests per day and integrates best practices from our past work with DOE and the cooperative community on solar integration. The resulting free and open-source solution has been disseminated through our media channels and conferences that engage over 1,900 utilities nationwide.

14 SOLAR ENERGY↗

DOE OSTI2022

Improving Residential Building Simulations Through Large-Scale Empirical Validation

Residential building energy simulations are increasingly used for energy-efficient building design, codes and standards analysis, home certifications and ratings, utility programs, and technology assessments. Various software tools exist to perform residential building simulations, and these tools often use different models, inputs, and assumptions. This leads to inconsistencies that can undermine confidence in the predicted results. Validation of these tools can increase confidence by ensuring their accuracy and consistency. One way to validate simulation tools is through empirical testing, which compares predicted energy usage to measured utility billing data. This paper describes the process of data collection, data standardization, and empirical validation, and illustrates its use with our residential EnergyPlus (R)-based software. The data and process can be extended to other simulation tools and contribute to improving residential building simulations more broadly.

empirical validation↗

DOE OSTI2014

MO-PIS-Exhibit Hall-01: Tools for TG-142 Linac Imaging QA I

Partners in Solutions is an exciting new program in which AAPM partners with our vendors to present practical “hands-on” information about the equipment and software systems that we use in our clinics. The therapy topic this year is solutions for TG-142 recommendations for linear accelerator imaging QA. Note that the sessions are being held in a special purpose room built on the Exhibit Hall Floor, to encourage further interaction with the vendors. Automated Imaging QA for TG-142 with RIT Presentation Time: 2:45 – 3:15 PM This presentation will discuss software tools for automated imaging QA and phantom analysis for TG-142. All modalities used in radiation oncology will be discussed, including CBCT, planar kV imaging, planar MV imaging, and imaging and treatment coordinate coincidence. Vendor supplied phantoms as well as a variety of third-party phantoms will be shown, along with appropriate analyses, proper phantom setup procedures and scanning settings, and a discussion of image quality metrics. Tools for process automation will be discussed which include: RIT Cognition (machine learning for phantom image identification), RIT Cerberus (automated file system monitoring and searching), and RunQueueC (batch processing of multiple images). In addition to phantom analysis, tools for statistical tracking, trending, and reporting will be discussed. This discussion will include an introduction to statistical process control, a valuable tool in analyzing data and determining appropriate tolerances. An Introduction to TG-142 Imaging QA Using Standard Imaging Products Presentation Time: 3:15 – 3:45 PM Medical Physicists want to understand the logic behind TG-142 Imaging QA. What is often missing is a firm understanding of the connections between the EPID and OBI phantom imaging, the software “algorithms” that calculate the QA metrics, the establishment of baselines, and the analysis and interpretation of the results. The goal of our brief presentation will be to establish and solidify these connections. Our talk will be motivated by the Standard Imaging, Inc. phantom and software solutions. We will present and explain each of the image quality metrics in TG-142 in terms of the theory, mathematics, and algorithms used to implement them in the Standard Imaging PIPSpro software. In the process, we will identify the regions of phantom images that are analyzed by each algorithm. We then will discuss the process of the creation of baselines and typical ranges of acceptable values for each imaging quality metric.

07 ISOTOPE AND RADIATION SOURCES↗

DOE OSTI2018

LIQUID

LIQUID is a software tool for identifying lipids in LC-MS/MS-based lipidomics data. It is described in publication LIQUID: an-open source software for identifying lipids in LC-MS/MS-based lipidomics data (doi: 10.1093/bioinformatics/btx046). LIQUID provides users with the capability to process high throughput data and contains a customizable target library and scoring model per project needs. The graphical user interface provides visualization of multiple lines of spectral evidence for each lipid identification, allowing rapid examination of data for making confident identifications of lipid molecular species.

Payne, Sam↗

DOE OSTI2026

Block Island Acoustic Propagation Modeling Data

This dataset contains acoustic propagation model outputs, computational subroutines, and analysis tools for underwater sound propagation in the Block Island region, including parabolic equation (PE) model results, visualization products, and comprehensive modeling software tools.

17 WIND ENERGY↗

DOE OSTI2015

PyPWA: A Partial-Wave/Amplitude Analysis Software Framework

The PyPWA project aims to develop a software framework for Partial Wave and Amplitude Analysis of data; providing the user with software tools to identify resonances from multi-particle final states in photoproduction. Most of the code is written in Python. The software is divided into two main branches: one general-shell where amplitude's parameters (or any parametric model) are to be estimated from the data. This branch also includes software to produce simulated data-sets using the fitted amplitudes. A second branch contains a specific realization of the isobar model (with room to include Deck-type and other isobar model extensions) to perform PWA with an interface into the computer resources at Jefferson Lab. We are currently implementing parallelism and vectorization using the Intel's Xeon Phi family of coprocessors.

Salgado, Carlos↗

DOE OSTI2018

OpenMSI Arrayed Analysis Tools (OMAAT) v2.0

Mass spectrometry (MS) is an analytical technique that enables all chemical species within a complex mixture to be resolved and identified based on their mass:charge ratio. MS is an increasingly important tool in life science research and development because it can resolve or separate small molecules, peptides, lipids, proteins, biopolymers and fragments of all of these structures. Unfortunately, the use of MS has been limited for lack of software tools to visualize, manipulate, store and transfer MS data. Ben Bowen, Oliver Ruebel and colleagues made a huge advance on the resolution of these limitations with the invention of "OpenMSI" (#2013-004), a computational method that makes the handling of these very large files (up to 50 Tb) much easier, especially for scientists with limited background in bioinformatics or sophisticated software applications of the type needed to handle such data files. With the OpenMSI Arrayed Analysis Tool (OMAAT, #2016-188) invention, the authors take MS data analysis one step further by providing tolls for automatic sample position optimization and ion selection. Even though sample deposition technologies have improved greatly, there is always the chance of encountering outliers in a predefined roster, especially in very large sample sets. Manual curation of the data would be extremely time consuming, so the inventors have included an algorithm that automatically finds the outliers. OMAAT is written in Python with accompanying Jupyter (formerly iPython) notebook and is fully integrated with OpenMSI.

Bowen, Benjamin↗

DOE OSTI2015

The future of RADCALC- the radioactive material and waste transportation software program - 15154

This paper provides a thorough review of RADCALC, the U.S. Department of Energy (DOE)-developed software tool to assist DOE sites in making radioactive material and waste packaging and transportation determinations in compliance with applicable Federal regulations and DOE Orders and Standards. There are more than 400 registered users of the RADCALC tool across the DOE complex. DOE has also authorized a limited number of users from certain universities and foreign countries. DOE periodically upgrades the software consistent with changing domestic and international requirements, as well as needs unique to DOE. Due to recent changes in regulatory requirements by the Department of Transportation (DOT), it is necessary that the current version of RADCALC should be updated in a timely manner. Prior to investing funds in software upgrades, DOE decided to evaluate the nature of changes required and level of operational support and looked for alternatives for meeting sites' operational needs. DOE formed a joint review team consisting of experts from Energy Facility Contractors Group (EFCOG) sites, commercial waste treatment facilities and the National Laboratories. This team evaluated the RADCALC software, commercially available software packages, and internal DOE site-developed programs against an established set of criteria. The team also reviewed and prioritized regulatory changes and user-recommended enhancements. Based on extensive review, the team recommended that DOE continue to support RADCALC noting that RADCALC is a cost-effective, technically robust tool that can perform complicated radioactive material shipping determinations. The tool promotes accuracy, consistency, and completeness between shipments by a single shipper, between shippers at a given site, and between sites. The isotopic coverage, decay algorithm and the range of calculations are without compare either within DOE or in industry in a tool of this kind. The team also recommended that DOE should actively promote RADCALC use throughout the DOE complex and consider cooperative arrangements with the Department of Defense or other government entities that may have similar needs. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2017

LinkShop v.1.0.0

LinkShop is a software tool for applying the method of Linkography to the analysis time-sequence data. LinkShop provides command line, web, and application programming interfaces (API) for input and processing of time-sequence data, abstraction models, and ontologies. The software creates graph representations of the abstraction model, ontology, and derived linkograph. Finally, the tool allows the user to perform statistical measurements of the linkograph and refine the ontology through direct manipulation of the linkograph.

Jarocki, JohnCharles↗

DOE OSTI2017

Characterization of topology optimized Ti-6Al-4V components using electron beam powder bed fusion

The use of manufacturing to generate topology optimized components shows promise for designers. However, designers who assume that additive manufacturing follows traditional manufacturing techniques may be misled due to the nuances in specific techniques. Since commercial topology optimization software tools are neither designed to consider orientation of the parts nor large variations in properties, the goal of this research is to evaluate the limitations of an existing commercial topology optimization software (i.e. Inspire®) using electron beam powder bed fusion (i.e. Arcam®) to produce optimized Ti-6Al-4V alloy components. Emerging qualification tools from Oak Ridge National Laboratory including in-situ near-infrared imaging and log file data analysis were used to rationalize the final performance of components. While the weight savings of each optimized part exceeded the initial criteria, the failure loads and locations proved instrumental in providing insight to additive manufacturing with topology optimization. In conclusion, this research has shown the need for a comprehensive understanding of correlations between geometry, additive manufacturing processing conditions, defect generation, and microstructure for characterization of complex components such as those designed by topology optimization.

42 ENGINEERING↗

DOE OSTI2022

Market Research Study: Applications of ASCR HPC Software

The Department of Energy (DOE)’s Advanced Scientific Computing Research (ASCR) program has developed hundreds of software tools for high performance computing (HPC). Although many HPC hardware advances have permeated the market, such as CPUs, GPUs, TPUs and ASICs, the software developed by DOE for different HPC applications has not necessarily been mined. The DOE is interested in making its HPC software portfolio available to the public in order to maximize the value of what has been developed.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2022

Automatic Differentiation of C++ Codes on Emerging Manycore Architectures with Sacado

Automatic differentiation (AD) is a well-known technique for evaluating analytic derivatives of calculations implemented on a computer, with numerous software tools available for incorporating AD technology into complex applications. However, a growing challenge for AD is the efficient differentiation of parallel computations implemented on emerging manycore computing architectures such as multicore CPUs, GPUs, and accelerators as these devices become more pervasive. In this work, we explore forward mode, operator overloading-based differentiation of C++ codes on these architectures using the widely available Sacado AD software package. In particular, we leverage Kokkos, a C++ tool providing APIs for implementing parallel computations that is portable to a wide variety of emerging architectures. Here we describe the challenges that arise when differentiating code for these architectures using Kokkos, and two approaches for overcoming them that ensure optimal memory access patterns as well as expose additional dimensions of fine-grained parallelism in the derivative calculation. We describe the results of several computational experiments that demonstrate the performance of the approach on a few contemporary CPU and GPU architectures. We then conclude with applications of these techniques to the simulation of discretized systems of partial differential equations.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2013

Timing is everything :

People save for retirement throughout their career because it is virtually impossible to save all you ll need in retirement the year before you retire. Similarly, without installing incremental amounts of clean fossil, renewable or transformative energy technologies throughout the coming decades, a radical and immediate change will be near impossible the year before a policy goal is set to be in place. Therefore, our research question is, To meet our desired technical and policy goals, what are the factors that affect the rate we must install technology to achieve these goals in the coming decades? Existing models do not include full regulatory constraints due to their often complex, and inflexible approaches to solve for optimal engineering instead of robust and multidisciplinary solutions. This project outlines the theory and then develops an applied software tool to model the laboratory-to-market transition using the traditional technology readiness level (TRL) framework, but develops subsequent and a novel regulatory readiness level (RRL) and market readiness level (MRL). This tool uses the ideally-suited system dynamics framework to incorporate feedbacks and time delays. Future energy-economic-environment models, regardless of their programming platform, may adapt this software model component framework or module to further vet the likelihood of new or innovative technology moving through the laboratory, regulatory and market space. The prototype analytical framework and tool, called the Technology, Regulatory and Market Readiness Level simulation model (TRMsim) illustrates the interaction between technology research, application, policy and market dynamics as they relate to a new or innovative technology moving from the theoretical stage to full market deployment. The initial results that illustrate the model s capabilities indicate for a hypothetical technology, that increasing the key driver behind each of the TRL, RRL and MRL components individually decreases the time required for the technology to progress through each component by 63, 68 and 64%, respectively. Therefore, under the current working assumptions, to decrease the time it may take for a technology to move from the conceptual stage to full scale market adoption one might consider expending additional effort to secure regulatory approval and reducing the uncertainty of the technology s demand in the marketplace.

Kobos, Peter Holmes↗

DOE OSTI2013

Management of the decommissioning of the Thetis reactor

The Thetis research reactor on the site of the Nuclear Sciences Institute of the Ghent University has been in operation from 1967 until December 2003. This light-water moderated graphite-reflected low-enriched uranium pool-type reactor has been used for various purposes e.g. the production of radioisotopes and activation analyses. During the first years its core power was 15 kW. In the early '70, a core enlargement allowed for operation at typically 150 kW, while the maximum was allowed to be 250 kW In September 2007, Ghent University entrusted to SCK-CEN the management of the back-end of the spent fuel and the decommissioning of the reactor. In 2010, the spent fuel was removed from the reactor and transported to Belgoprocess for cementation in 400 l drums and interim storage awaiting final disposal. This activity allows tackling the decommissioning of the reactor. The objective is to complete its decommissioning by the end of 2014. In the framework of the decommissioning of the Thetis reactor, SCK-CEN set-up the final decommissioning plan and the decommissioning licensing file. These documents include among others a radiological inventory of the reactor. The graphite moderator blocks, the control and the safety pates, the liner of the pool were modeled to assess the activation products (isotopic vector and intensity). At the end of the unloading of the reactor in 2010 a brief mapping of the equipment's and internals of the reactor pool was performed. In 2012, we realized a more detailed mapping. These results confirmed those performed earlier and allowed to confirm the assumptions made in the final decommissioning plan. We set-up the terms of reference for the first decommissioning phase of the reactor namely the dismantling of the reactor i.e. reactor pool, circuits and rabbit system, equipment's and ventilation ducts. The removal of asbestos is also included into this phase. We conducted the selection process and the awarding of this decommissioning job. We gained the decommissioning license in May 2012. We also prepared the software tool allowing managing the decommissioning project by updating the inventory and recording the progress, the characterization measurements and the material and waste production. This software allows also to trace all the material streams and to report to the Authorities. This software is a simplified release of the ones developed by SCK-CEN in the framework of other decommissioning projects like BR3 and Belgonucleaire. The dismantling of the reactor i.e. reactor pool, circuits and rabbit system, will be performed in 2013. In 2014, it is planned to map all the surfaces of the infrastructure to highlight residual contamination of floor, walls and ceiling. The contaminated surfaces will be decontaminated and controlled. The objective is to reach the free release of the reactor building and laboratories by the end of 2014. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2015

SU-F-BRA-12: End-User Oriented Tools and Procedures for Testing Brachytherapy TPSs Employing MBDCAs

Purpose: To develop user-oriented tools for commissioning and dosimetry testing of {sup 192}Ir brachytherapy treatment planning systems (TPSs) employing model based dose calculation algorithms (MBDCAs). Methods: A software tool (BrachyGuide) has been developed for the automatic generation of MCNP6 input files from any CT based plan exported in DICOM RT format from Elekta and Varian TPSs. BrachyGuide also facilitates the evaluation of imported Monte Carlo (MC) and TPS dose distributions in terms of % dose differences and gamma index (CT overlaid colormaps or relative frequency plots) as well as DVHs and related indices. For users not equipped to perform MC, a set of computational models was prepared in DICOM format, accompanied by treatment plans and corresponding MCNP6 generated reference data. BrachyGuide can then be used to compare institutional and reference data as per TG186. The model set includes a water sphere with the MBDCA WG {sup 192}Ir source placed centrically and in two eccentric positions, a water sphere with cubic bone and lung inhomogeneities and a five source dwells plan, and a patient equivalent model with an Accelerated Partial Breast Irradiation (APBI) plan. Results: The tools developed were used for the dosimetry testing of the Acuros and ACE MBDCAs implemented in BrachyVision v.13 and Oncentra Brachy v.4.5, respectively. Findings were consistent with previous results in the literature. Besides points close to the source dwells, Acuros was found to agree within type A uncertainties with the reference MC results. Differences greater than MC type A uncertainty were observed for ACE at distances >5cm from the source dwells and in bone. Conclusion: The tools developed are efficient for brachytherapy MBDCA planning commissioning and testing. Since they are appropriate for distribution over the web, they will be put at the AAPM WG MBDCA’s disposal. Research co-financed by the ESF and Greek funds. NSRF operational Program: Education and Lifelong Learning Investing in Knowledge Society-Aristeia. Varian Medical Systems and Nucletron, an Elekta company provided access to TPSs for research purposes. Miss Peppa was supported by IKY-fellowships of excellence for postgraduate studies in Greece,Siemens Program.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2016

An online x-ray based position validation system for prostate hypofractionated radiotherapy

Purpose: Accurate positioning of the target volume during treatment is paramount for stereotactic body radiation therapy (SBRT). In this work, the authors present the development of an in-house software tool to verify target position with an Elekta-Synergy linear accelerator using kV planar images acquired during treatment delivery. Methods: In-house software, SeedTracker, was developed in MATLAB to perform the following three functions: 1. predict intended seed positions in a planar view perpendicular to any gantry angle, simulating a portal imaging device, from the 3D seed co-ordinates derived from the treatment planning system; 2. autosegment seed positions in kV planar images; and 3. report the position shift based on the seed positions in the projection images. The performance of SeedTracker was verified using a CIRS humanoid phantom (CIRS, VA, USA) implanted with three Civco gold seed markers (Civco, IA, USA) in the prostate. The true positive rate of autosegmentation (TPR{sub seg}) and the accuracy of the software in alerting the user when the isocenter position was outside the tolerance (TPR{sub trig}) were studied. Two-dimensional and 3D static position offsets introduced to the humanoid phantom and 3D dynamic offsets introduced to a gel phantom containing gold seeds were used for evaluation of the system. Results: SeedTracker showed a TPR{sub seg} of 100% in the humanoid phantom for projection images acquired at all angles except in the ranges of 80°–100° and 260°–280° where seeds are obscured by anatomy. This resulted in a TPR{sub trig} of 88% over the entire treatment range for considered 3D static offsets introduced to the phantom. For 2D static offsets where the position offsets were only introduced in the anterior–posterior and lateral directions, the TPR{sub trig} of SeedTracker was limited by both seed detectability and positional offset. SeedTracker showed a false positive trigger in the projection angle range between 130°–170° and 310°–350° (a maximum of 24% of treatment time) due to limited information that can be derived from monoscopic images. The system accurately determined the dynamic trajectory of the isocenter position in the superior and inferior direction for the studied dynamic offset scenarios based on the seed position in monoscopic images. Conclusions: The developed software has been shown to accurately autosegment the seed positions in kV planar images except for two 20° arcs where seeds are obscured by anatomical structures. The isocenter trajectories determined by the system, based on the monoscopic images, provide useful information for monitoring the prostate position. The developed system has potential application for monitoring prostate position during treatment delivery in linear accelerator based SBRT.

61 RADIATION PROTECTION AND DOSIMETRY↗

DOE OSTI2021

NRIC Digital Engineering Ecosystem

The NRIC Digital Engineering Ecosystem is a software suite designed to eliminate procedural failures in the engineering lifecycle of complex projects. It focuses on improving the flow of scheduling data, safety information, engineering requirements, and CAD files among stakeholders of complex engineering projects. The project comprises software adapters that move engineering data from disparate software tools in and out of a central database. The ecosystem is designed to efficiently incorporate data sources from many different engineering toolsets, making it software agnostic, and adaptable to many different engineering applications.

Harris, BrennanK↗