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At least 1,027 records · Page 57

SSAGES: Software Suite for Advanced General Ensemble Simulations

Molecular simulation has emerged as an essential tool for modern-day research, but obtaining proper results and making reliable conclusions from simulations requires adequate sampling of the system under consideration. To this end, a variety of methods exist in the literature that can enhance sampling considerably, and increasingly sophisticated, effective algorithms continue to be developed at a rapid pace. Implementation of these techniques, however, can be challenging for experts and non-experts alike. There is a clear need for software that provides rapid, reliable, and easy access to a wide range of advanced sampling methods, and that facilitates implementation of new techniques as they emerge. Here we present SSAGES, a publicly available Software Suite for Advanced General Ensemble Simulations designed to interface with multiple widely used molecular dynamics simulations packages. SSAGES allows facile application of a variety of enhanced sampling techniques—including adaptive biasing force, string methods, and forward flux sampling—that extract meaningful free energy and transition path data from all-atom and coarse grained simulations. A noteworthy feature of SSAGES is a user-friendly framework that facilitates further development and implementation of new methods and collective variables. In this study, the use of SSAGES is illustrated in the context of simple representative applications involving distinct methods and different collective variables that are available in the current release of the suite.

97 MATHEMATICS AND COMPUTING↗

Harnessing the Digital Transformation for Development of Electrified Aircraft Propulsion Control Systems

Hybrid electric aircraft propulsion is an emerging technology that presents a variety of potential benefits along with technical integration challenges. Developing these new propulsion architectures with their complex control systems, and ultimately proving their benefit, is a multistep process. This process includes concept development and analysis, dynamic simulation, hardware-in-the-loop testing, full-scale testing, and so on. This effort is being revolutionized and indeed enabled by new digital tools that support increasing the technology readiness level throughout the maturation process. As part of this Digital Transformation, NASA has developed a suite of publicly available digital tools that facilitate the path from concept to implementation. This paper describes the NASA-developed tools and puts them in the context of control system development for hybrid electric aircraft propulsion. The three MATLAB®-based software packages are the Toolbox for the Modeling and Analysis of Thermodynamic Systems (T-MATS), the Electrical Modeling and Thermal Analysis Toolbox (EMTAT), and the Thermal Systems Analysis Toolbox (TSAT). These tools are interactive, complementary, and compatible with each other. T-MATS is a modular thermodynamic modeling framework designed for creating custom component level models of jet engines. EMTAT is a modeling framework used to simulate a variety of power electronic devices, using both physics-based and power flow calculations. TSAT is a framework for modeling and analysis of dynamic heat transfer. These packages all consist of graphical, drag-and-drop, parameterizable building blocks representing various components of the system to be modeled, e.g., compressors, turbines, motors, energy storage devices, etc. They are designed to enable the user to model and simulate the end-to-end dynamic operation of a hybrid electric gas turbine engine powertrain at the timescale of the turbomachinery, capturing mechanical, electrical, and thermal interactions. This paper demonstrates through multiple examples how these tools have been used successfully in a variety of applications, including several of the early stages of hybrid electric gas turbine engine propulsion system development, from the initial system modeling to real-time interactive pilot-in-the-loop simulation to physical hardware-in-the-loop testing, each step bringing the technology closer to fruition.

hybrid electric propulsion↗

MOGO: Model-Oriented Global Optimization of Petascale Applications

The MOGO project was initiated under in 2008 under the DOE Program Announcement for Software Development Tools for Improved Ease-of-Use on Petascale systems (LAB 08-19). The MOGO team consisted of Oak Ridge National Lab, Argonne National Lab, and the University of Oregon. The overall goal of MOGO was to attack petascale performance analysis by developing a general framework where empirical performance data could be efficiently and accurately compared with performance expectations at various levels of abstraction. This information could then be used to automatically identify and remediate performance problems. MOGO was be based on performance models derived from application knowledge, performance experiments, and symbolic analysis. MOGO was able to make reasonable impact on existing DOE applications and systems. New tools and techniques were developed, which, in turn, were used on important DOE applications on DOE LCF systems to show significant performance improvements.

97 MATHEMATICS AND COMPUTING↗

CaveMan Enterprise version 1.0 Software Validation and Verification.

The U.S. Department of Energy Strategic Petroleum Reserve stores crude oil in caverns solution-mined in salt domes along the Gulf Coast of Louisiana and Texas. The CaveMan software program has been used since the late 1990s as one tool to analyze pressure mea- surements monitored at each cavern. The purpose of this monitoring is to catch potential cavern integrity issues as soon as possible. The CaveMan software was written in Microsoft Visual Basic, and embedded in a Microsoft Excel workbook; this method of running the CaveMan software is no longer sustainable. As such, a new version called CaveMan Enter- prise has been developed. CaveMan Enterprise version 1.0 does not have any changes to the CaveMan numerical models. CaveMan Enterprise represents, instead, a change from desktop-managed work- books to an enterprise framework, moving data management into coordinated databases and porting the numerical modeling codes into the Python programming language. This document provides a report of the code validation and verification testing.

Hart, David↗

YADA: Yet Another Distributed Architecture for Real-Time Robotic Control Systems

This paper presents YADA, a new software architecture for real-time robotic control systems that is minimal, modular, and fully transparent. YADA divides control software into decoupled behavior, user-interface, and hardware-level bus modules. This decoupling at the module level is accomplished by auto-generating human-readable message types that are tailored to the hardware topology oft he current system. These message types provide modules with a common framework for exchanging state information and relaying commands to devices while being agnostic to the communication protocol itself. We also detail how to structure behavior and bus modules to facilitate modularity and flexibility with third party software. YADA has been used with success on several technology development testbeds at JPL, an example of which is given in this paper, and has proven to provide developers a light-weight and highly reconfigurable system for efficient debugging and practical code sharing

Godart, Peter↗

TPSAS-NF1676L-14964-DND

Radiation models and methods (software) have been developed by researchers for 35+ years. Few had access to the software and it was very difficult to combine, maintain, and update. OLTARIS – On-Line Tool for the Assessment of Radiation in Space: - Web portal created to supply the “best practices” in radiation shielding models, methods, and algorithms to the community - Rigorously developed in a modular framework that is easily maintained and updated - Easily accessible by NASA’s customers and collaborators

Chris A Sandridge↗

pyCRTM: A Python Interface for the Community Radiative Transfer Model

The Community Radiative Transfer Model (CRTM) is a powerful and versatile scalar radiative transfer model for satellite data assimilation and remote sensing applications. It is implemented as an object-oriented Fortran library, enabling flexible code development and optimal runtime performance on clusters. The downsides of the Fortran interface are a steep learning curve for students and the reduced productivity of users that is typical for static compiled languages, in contrast to dynamic interpreted languages like Python. pyCRTM is a new software framework that directly interfaces the CRTM Fortran data structures and procedures in Python, leveraging both the simplicity and ease of use of Python syntax as well as the flexibility arising from the vast contemporary Python ecosystem. The goal of pyCRTM is to lower the barrier of entry for university students to learn and use the CRTM and to boost the productivity of researchers seeking to create new methods in radiative transfer and data assimilation, or seeking to apply the CRTM to study atmospheric phenomena without having to go through the pre-existing complexity of the CRTM Fortran interface.

Python↗

The Psyche Planning Software Subsystem: Creating a Robust Toolset for a Discovery-class Mission

Psyche is a Discovery-class mission to the small metal-rich asteroid (16) Psyche, and is slated to launch in 2022. Psyche, like many missions, requires low-cost activity planning and sequence generation that serves as the backbone to overall uplink design. Such tools must be maintainable over long periods of operations, and powerful enough to solve complex issues that deep-space one-off missions encounter. In this paper we introduce cost-effective solutions that leverage inner- and open-source principles to meet a variety of common and novel use cases.The uplink process that was designed to meet these challenges is presented, as well as the data-flow through the high-level architecture of the planning software subsystem. The user-facing planning tools are described, particularly the Science Opportunity Analyzer, the Plan Editor, Psyche’s planning automation in the Blackbird framework, and Psyche Simulation Reports. All these applications are either new or have been substantially revamped to meet Psyche’s concept of operations. In particular, ensuring the entire toolchain can correctly process epoch-relative activities is discussed. Underlying the main applications are a common set of dependencies developed and maintained by a new cross-mission association of planning developers. In this way, Psyche can inherit well-tested functionality which saves effort and ensures its developers can focus on solving domain challenges. Quality control of the applications and libraries is ensured with a code-review and unit-test based novel ‘CM lite’ process. Collaboration with international industry and academia using the open-source modules is already occurring.The planning and scheduling software is designed to maximize operator awareness of the integrated plan at every step of the process and use common interfaces and file formats to easily transfer information. Design choices plus the team’s test-driven development process enables more expansive capabilities compared to the decentralized planning and sequence generation functions typical of Discovery-class orbiters without significant development cost increases. Benefits and drawbacks of Psyche’s approach are discussed, including comparison to other missions and tools where appropriate.

Ramanathan, Keshav↗

Visualization at exascale: Making it all work with VTK-m

The VTK-m software library enables scientific visualization on exascale-class supercomputers. Exascale machines are particularly challenging for software development in part because they use GPU accelerators to provide the vast majority of their computational throughput. Algorithmic designs for GPUs and GPU-centric computing often deviate from those that worked well on previous generations of high-performance computers that relied on traditional CPUs. Fortunately, VTK-m provides scientific visualization algorithms for GPUs and other accelerators. VTK-m also provides a framework that simplifies the implementation of new algorithms and adds a porting layer to work across multiple processor types. This paper describes the main challenges encountered when making scientific visualization available at exascale. Here, we document the surprises and obstacles faced when moving from pre-exascale platforms to the final exascale designs and the performance on those systems including scaling studies on Frontier, an exascale machine with over 37,000 AMD GPUs. We also report on the integration of VTK-m with other exascale software technologies. Finally, we show how VTK-m helps scientific discovery for applications such as fusion and particle acceleration that leverage an exascale supercomputer.

97 MATHEMATICS AND COMPUTING↗

A Scientific Data Processing Framework for Time Series NetCDF Data

ARM Data Integrator (ADI) is a framework to streamline the development of scientific algorithms that analyze time-series NetCDF data, and to improve the content and consistency of the output data products produced by these algorithms. ADI achieves these goals by automating the process of retrieving and preparing data for analysis, supporting the definition of output data products through a graphical interface, and providing a modular, flexible software development architecture. The input data, preprocessing, and output data specifications are defined through a graphical interface and stored in a database. ADI also includes a workflow for data integration, a library of software modules to support the workflow, and a source code generator that produces C, IDL and Python templates. Data preparation support includes automated retrieval of data from input files, merging the retrieved data into appropriately sized chunks, and transformation of the data onto a common coordinate system grid. Through the graphical interface, users can view the details of both their data products and those in the ARM catalog. The variable and attribute definitions of the existing data products can be used to build new output data products. In addition, the rules that make up the ARM archive’s data standards are laid on top of the view of the new data product providing the user with a visual cue indicating where their output violates an archive standard. The necessary configurations are stored in a database that is accessed by the ADI libraries. This paper discusses the ADI framework, its supporting components, and how ADI can significantly decrease the time and cost of implementing scientific algorithms while improving the ability of scientists to disseminate their results.

Atmospheric Science↗

A Framework for Lattice QCD Calculations on GPUs

Efficient calculation of the greatest common divisor (GCD) for big integers each whose number of bits is greater than or equal to 1024 has drawn a considerable amount of attention because it can be used to detect a weakness of the RSA security infrastructure. This paper presents a parallel binary GCD algorithm and its implementation for big integers on the Intel Xeon Phi coprocessor. This algorithm is capable of computing GCDs efficiently on many pairs of big integers in parallel by utilizing all cores on a Xeon Phi coprocessor as well as taking advantage of all vector processing units of the coprocessor to speed up critical integer operations within the algorithm. Using 240 threads on a Xeon Phi coprocessor to carry out GCD calculations for a large amount of 2048-bit integers, the implementation achieves the speedup of 30 times over a sequential binary GCD algorithm implementation on a single CPU core, and it delivers twice amount of performance in comparison to the same sequential binary GCD implementation running on 240 threads of the Xeon Phi.

Winter, F. T.↗

Invited: Software defined accelerators from learning tools environment

Next generation systems, such as edge devices, will need to provide efficient processing of machine learning (ML) algorithms along several metrics, including energy, performance, area, and latency. However, the quickly evolving field of ML makes it extremely difficult to generate accelerators able to support a wide variety of algorithms. At the same time, designing accelerators in hardware description languages (HDLs) by hand is hard and time consuming, and does not allow quick exploration of the design space. In this paper we present the Software Defined Accelerators From Learning Tools Environment (SODALITE), an automated open source high-level ML framework-to-verilog compiler targeting ML Application-Specific Integrated Circuits (ASICs) chiplets. The SODALITE approach will implement optimal designs by seamlessly combining custom components generated through high-level synthesis (HLS) with templated and fully tunable Intellectural Properties (IPs) and macros, integrated in an extendable resource library. Through a closed loop design space exploration engine, developers will be able to quickly explore their hardware designs along different dimensions.

High-Level Synthesis, Accelerators, Hardware-Softw↗

A Software Architecture for Intelligent Synthesis Environments

The NASA's Intelligent Synthesis Environment (ISE) program is a grand attempt to develop a system to transform the way complex artifacts are engineered. This paper discusses a "middleware" architecture for enabling the development of ISE. Desirable elements of such an Intelligent Synthesis Architecture (ISA) include remote invocation; plug-and-play applications; scripting of applications; management of design artifacts, tools, and artifact and tool attributes; common system services; system management; and systematic enforcement of policies. This paper argues that the ISA extend conventional distributed object technology (DOT) such as CORBA and Product Data Managers with flexible repositories of product and tool annotations and "plug-and-play" mechanisms for inserting "ility" or orthogonal concerns into the system. I describe the Object Infrastructure Framework, an Aspect Oriented Programming (AOP) environment for developing distributed systems that provides utility insertion and enables consistent annotation maintenance. This technology can be used to enforce policies such as maintaining the annotations of artifacts, particularly the provenance and access control rules of artifacts-, performing automatic datatype transformations between representations; supplying alternative servers of the same service; reporting on the status of jobs and the system; conveying privileges throughout an application; supporting long-lived transactions; maintaining version consistency; and providing software redundancy and mobility.

Filman, Robert E.↗

Prospective implementation of a software application for pre-disposal L/ILW waste management activities in Romania

Romania is actively engaged to update the Medium and Long Term National Strategy for Safe Management of Radioactive Waste and to approve the Road Map for Geological Repository Development. Considering relevant documents to be further updated, about 122,000 m{sup 3} SL-LILW are to be disposed in a near surface facility that will have room, also, for quantities of VLLW. Planned date for commissioning is under revision. Taking into account that in this moment there are initiated several actions for the improvement of the technical capability for LILW treatment and conditioning, several steps for the possible use of SAFRAN software were considered. In view of specific data for Romanian radioactive waste inventory, authors are trying to highlight the expected limitations and unknown data related with the implementation of SAFRAN software for the foreseen pre-disposal waste management activities. There are challenges that have to be faced in the near future related with clear definition of the properties of each room, area and waste management activity. This work has the aim to address several LILW management issues in accordance with national and international regulatory framework for the assurance of nuclear safety. Also, authors intend to develop their institutional capability for the safety demonstration of the existent and future radioactive waste management facilities and activities. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Griffin: A Moose-based Reactor Multiphysics Application For Radiation Transport And Depletion Simulations

Griffin is a MOOSE-based reactor multiphysics application that streamlines the analysis of a variety of nuclear multiphysics applications, including steady-state and transient radiation transport, core performance, fuel depletion, criticality and decay heat calculations, reprocessing and post-irradiation examination. This streamlining is accomplished via enhanced flexibility of the tools, uniform syntax in the MOOSE framework, dynamic linking of all relevant physics and a single point of execution. The design for flexible multi-physics, multi-radiation, multi-scheme tasks demands and ultimately makes Griffin a highly extendable code system. A software quality assurance (SQA) procedure is enforced during Griffin development.

DeHart, MarkD.↗

A Compute Capable SSD Architecture for Next-Generation Non-volatile Memories

Existing storage technologies (e.g., disks and ash) are failing to cope with the processor and main memory speed and are limiting the overall perfor- mance of many large scale I/O or data-intensive applications. Emerging fast byte-addressable non-volatile memory (NVM) technologies, such as phase-change memory (PCM), spin-transfer torque memory (STTM) and memristor are very promising and are approaching DRAM-like performance with lower power con- sumption and higher density as process technology scales. These new memories are narrowing down the performance gap between the storage and the main mem- ory and are putting forward challenging problems on existing SSD architecture, I/O interface (e.g, SATA, PCIe) and software. This dissertation addresses those challenges and presents a novel SSD architecture called XSSD. XSSD o oads com- putation in storage to exploit fast NVMs and reduce the redundant data tra c across the I/O bus. XSSD o ers a exible RPC-based programming framework that developers can use for application development on SSD without dealing with the complication of the underlying architecture and communication management. We have built a prototype of XSSD on the BEE3 FPGA prototyping system. We implement various data-intensive applications and achieve speedup and energy ef- ciency of 1.5-8.9 and 1.7-10.27 respectively. This dissertation also compares XSSD with previous work on intelligent storage and intelligent memory. The existing ecosystem and these new enabling technologies make this system more viable than earlier ones.

97 MATHEMATICS AND COMPUTING↗

A Polyhedral Transformation Framework for Compiler Optimization (Final Project Report)

The project developed the polyhedral compiler transformation module PolyOpt/Fortran in the ROSE compiler framework. PolyOpt/Fortran performs automated transformation of affine loop nests within FORTRAN programs for enhanced data locality and parallel execution. A FORTAN version of the Polybench library was also developed by the project. A third development was a dynamic analysis approach to gauge vectorization potential within loops of programs; software (DDVec) for automated instrumentation and dynamic analysis of programs was developed.

97 MATHEMATICS AND COMPUTING↗

AEDAM: Whole Program Adaptive Error Detection and Mitigation (Final Report)

The overall goals of the AEDAM project were to fundamentally transform software transient-error detection through the design of configurable specialized detectors, quantitative characterization of hardware resilience and software vulnerabilities, and composition of the specialized detectors to most efficiently protect the whole program. Within this scope, UT Austin's research contribution related to enabling and studying the composition of detectors and possible different hardware errors, specifically: (1) developed the Hamartia open-source error injection framework that is designed to make composition studies simple, and (2) develop the methodology and demonstrate the potential benefits of error detector composition.

97 MATHEMATICS AND COMPUTING↗