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Trick Simulation Environment 07

The Trick Simulation Environment is a generic simulation toolkit used for constructing and running simulations. This release includes a Monte Carlo analysis simulation framework and a data analysis package. It produces all auto documentation in XML. Also, the software is capable of inserting a malfunction at any point during the simulation. Trick 07 adds variable server output options and error messaging and is capable of using and manipulating wide characters for international support. Wide character strings are available as a fundamental type for variables processed by Trick. A Trick Monte Carlo simulation uses a statistically generated, or predetermined, set of inputs to iteratively drive the simulation. Also, there is a framework in place for optimization and solution finding where developers may iteratively modify the inputs per run based on some analysis of the outputs. The data analysis package is capable of reading data from external simulation packages such as MATLAB and Octave, as well as the common comma-separated values (CSV) format used by Excel, without the use of external converters. The file formats for MATLAB and Octave were obtained from their documentation sets, and Trick maintains generic file readers for each format. XML tags store the fields in the Trick header comments. For header files, XML tags for structures and enumerations, and the members within are stored in the auto documentation. For source code files, XML tags for each function and the calling arguments are stored in the auto documentation. When a simulation is built, a top level XML file, which includes all of the header and source code XML auto documentation files, is created in the simulation directory. Trick 07 provides an XML to TeX converter. The converter reads in header and source code XML documentation files and converts the data to TeX labels and tables suitable for inclusion in TeX documents. A malfunction insertion capability allows users to override the value of any simulation variable, or call a malfunction job, at any time during the simulation. Users may specify conditions, use the return value of a malfunction trigger job, or manually activate a malfunction. The malfunction action may consist of executing a block of input file statements in an action block, setting simulation variable values, call a malfunction job, or turn on/off simulation jobs.

Lin, Alexander S.↗

Improvements to Bison Validation Base for LWR Fuel

The Bison fuel performance code is being developed by Idaho National Laboratory (INL) to analyze a wide range of fuel forms and operating conditions with the flexibility to conduct simulations in 1D through 3D geometries. Bison plays an important role in the development of advanced fuel with improved accident tolerance for existing light water reactors (LWRs), the improved understanding of mechanisms in fuel designs in a wider range of operating conditions, and the facilitation of future development of fuel for advanced reactor designs. Additionally, industry interest in advanced fuels has also driven Bison development for advanced fuels in the last few years. All of these factors combine to create a potential increase of new Bison users. These new users will potentially be interested in the Bison LWR validation base for examples of Bison's capabilities and how to use Bison. Current users also rely on the Bison validation base as a demonstration of the best practices settings and material behavioral models. Bison, both through direct updates to the Bison source code and to the nearly daily changes and improvements in the underlying MOOSE framework source code, undergoes nearly continuous changes. It is necessary that these source code changes are reflected with updated input files in the Bison validation base. Periodic updates of the validation case input files should also be accompanied by a review and revision of the validation case documentation on which our users rely. Therefore our efforts under this milestone were guided by two objectives: (1) Update the Bison LWR validation input files to use current Bison simulation settings, and (2) Enhance the ease-of-use for Bison through improved documentation These objectives build on the goals identified FY18 CASL milestone reports. During FY18 we addressed issues with the robustness of Bison and identified a need to migrate the assessment suite to the more reliable tensor mechanics module system and set a goal of standardizing the Bison input files. The FY18 CASL milestone report on updates to the Bison documentation system listed continued development of user-focused guides and examples along with revisions to the validation case documentation as future development goals. During FY19 we have separated these two objectives into four different focus areas for our work on this milestone. Our first two focus areas target the existing Bison validation suite: update the existing LWR validation cases and the accompanying documentation. The second two focus areas center on adding new capabilities: a new Bison LWR validation case and expansion of user support documentation. In the following report each of these four focus areas are discussed as a separate section. We conclude the report with a summary of potential future work to build on the efforts of this year.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Preproduction Using Automated Process Design

A new approach to the computer-assisted design (CAD) of machining processes is outlined. Mathematical apparatus for the solution of standard problems is proposed, and the source code for its implementation is developed. The source code for an experimental CAD system is developed. An interactive graphical input is used for dimensional data.

42 ENGINEERING↗

Using NASA's Worldview to Convey Scientific Finding

NASA Worldview is an interactive interface for browsing full-resolution, global satellite imagery. The application can show single or multiple layers of satellite imagery with over 700 layers available. Each layer has options such as opacity and color palettes which can be adjusted to differentiate layers or underlying data values. The timeline feature allows end-users to study historical events: changes over time can be visualized using the animation tool and exported to animated GIFs. Users can even compare two separate days using the A|B comparison feature. Every time the state of the application changes, it is saved in the URL making it easy to share findings with others.The application is accessible online for anyone to use at any time and the source code is available on GitHub.com. The Worldview source code was designed to be customizable allowing end users to turn on/off features and brand the application for their specific use case. Worldview has code contributors and end-users from all over the world who use the official tool and create personal instances to test and convey their own data.From a team of scientists studying weather over the Philippines, to a group in France studying high environmental risks, Worldview's features and portability allows end-users all over the World to gain valuable earth science insights in a multitude of ways. This presentation will emphasis how end-users are using Worldview to convey their findings.

Rice, Zachary↗

The BELLFLOW system

The BELLFLOW flowcharting system was developed to meet certain Bell System standards of documentation. There are three modes of operation with the BELLFLOW system: source mode, comment mode, and mixed mode. In the source mode, all of the flowcharting information is derived directly from the source code. In the comment mode, BELLFLOW ignores the source code completely and derives the entire flowchart purely from comments imbedded in the program. In the mixed mode, the source and comment mode are combined. The mixed mode is unique to BELLFLOW and was designed to provide a self-documenting program source deck. Other features of BELLFLOW include: automatic placement, automatic line routing, paging, and generation of on and off sheet connectors.

Pardee, S.↗

STOMP-W

Fortran 90 source code, example problems, and output conversion scripts for the STOMP-W simulator. STOMP-W is a numerical simulator written in Fortran 90 for solving problems involving fluid flow and solute/species transport in variably saturated geologic media. The zipped file contains five directories: 1) src (the source code), 2) scripts (output conversion scripts written in perl, 3) prb-w-1 (example problem 1), 4) prb-w-2 (example problem 2), and 5) prb-w-3 (example problem 3). After downloading and unzipping the file, the user must create an executable from the files stored in the src directory. Generic instructions for compiling the source code is shown below as a UNIX/Linux command line, with f90 representing the user's Fortran 90 compiler.

White, Mark↗

Palm: Easing the Burden of Analytical Performance Modeling

Analytical (predictive) application performance models are critical for diagnosing performance-limiting resources, optimizing systems, and designing machines. Creating models, however, is difficult because they must be both accurate and concise. To ease the burden of performance modeling, we developed Palm, a modeling tool that combines top-down (human-provided) semantic insight with bottom-up static and dynamic analysis. To express insight, Palm defines a source code modeling annotation language. By coordinating models and source code, Palm's models are `first-class' and reproducible. Unlike prior work, Palm formally links models, functions, and measurements. As a result, Palm (a) uses functions to either abstract or express complexity (b) generates hierarchical models (representing an application's static and dynamic structure); and (c) automatically incorporates measurements to focus attention, represent constant behavior, and validate models. We discuss generating models for three different applications.

annotation languages↗

NPTFit: A Code Package for Non-Poissonian Template Fitting

We present NPTFit, an open-source code package, written in Python and Cython, for performing non-Poissonian template fits (NPTFs). The NPTF is a recently developed statistical procedure for characterizing the contribution of unresolved point sources (PSs) to astrophysical data sets. The NPTF was first applied to Fermi gamma-ray data to provide evidence that the excess of ∼GeV gamma-rays observed in the inner regions of the Milky Way likely arises from a population of sub-threshold point sources, and the NPTF has since found additional applications studying sub-threshold extragalactic sources at high Galactic latitudes. The NPTF generalizes traditional astrophysical template fits to allow for the ability to search for populations of unresolved PSs that may follow a given spatial distribution. NPTFit builds upon the framework of the fluctuation analyses developed in X-ray astronomy, thus it likely has applications beyond those demonstrated with gamma-ray data. The NPTFit package utilizes novel computational methods to perform the NPTF efficiently. The code is available at http://github.com/bsafdi/NPTFit and up-to-date and extensive documentation may be found at http://nptfit.readthedocs.io.

79 ASTRONOMY AND ASTROPHYSICS↗

MatLib-1.2: Nuclear Material Properties Library

The U.S. Nuclear Regulatory Commission (NRC) uses the computer code Fuel Analysis under Steady-state and Transients (FAST) to model steady-state and transient fuel behavior to support regulatory decisions. FAST relies on a material properties library (MatLib) that contains the thermal and mechanical properties of the nuclear materials and coolants of interest to support the US commercial nuclear industry. MatLib contains properties for a variety of nuclear fuels, cladding and other structural materials, gases, and coolants. In this document, material property correlations for the materials contained within MatLib are presented and discussed. When available, comparisons are made between the material property correlations and available data. Additionally, uncertainties are quantified on the material proper- ties, which is then used by the NRC to support uncertainty quantification for best-estimate plus uncertainty safety evaluation reviews. This document describes MatLib-1.2, which was updated from MatLib-1.1 to include cleanup of the code for streamlined calls to MatLib from the main FAST source code, and to enable easier readability of the code by developers that maintain and enhance the FAST code. The results of MatLib did not change between MatLib-1.1 and MatLib-1.2; however, the source code changes warranted incrementing the minor numbering of the software version number. The changes may result in faster execution times of FAST-1.2 as compared to FAST-1.1. This document is one of a series of documents on FAST; the other documents detail the models used by FAST as well as its integral assessment to experiments and commercial data.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Software to model AXAF image quality

This draft final report describes the work performed under this delivery order from May 1992 through June 1993. The purpose of this contract was to enhance and develop an integrated optical performance modeling software for complex x-ray optical systems such as AXAF. The GRAZTRACE program developed by the MSFC Optical Systems Branch for modeling VETA-I was used as the starting baseline program. The original program was a large single file program and, therefore, could not be modified very efficiently. The original source code has been reorganized, and a 'Make Utility' has been written to update the original program. The new version of the source code consists of 36 small source files to make it easier for the code developer to manage and modify the program. A user library has also been built and a 'Makelib' utility has been furnished to update the library. With the user library, the users can easily access the GRAZTRACE source files and build a custom library. A user manual for the new version of GRAZTRACE has been compiled. The plotting capability for the 3-D point spread functions and contour plots has been provided in the GRAZTRACE using the graphics package DISPLAY. The Graphics emulator over the network has been set up for programming the graphics routine. The point spread function and the contour plot routines have also been modified to display the plot centroid, and to allow the user to specify the plot range, and the viewing angle options. A Command Mode version of GRAZTRACE has also been developed. More than 60 commands have been implemented in a Code-V like format. The functions covered in this version include data manipulation, performance evaluation, and inquiry and setting of internal parameters. The user manual for these commands has been formatted as in Code-V, showing the command syntax, synopsis, and options. An interactive on-line help system for the command mode has also been accomplished to allow the user to find valid commands, command syntax, and command function. A translation program has been written to convert FEA output from structural analysis to GRAZTRACE surface deformation file (.dfm file). The program can accept standard output files and list files from COSMOS/M and NASTRAN finite analysis programs. Some interactive options are also provided, such as Cartesian or cylindrical coordinate transformation, coordinate shift and scale, and axial length change. A computerized database for technical documents relating to the AXAF project has been established. Over 5000 technical documents have been entered into the master database. A user can now rapidly retrieve the desired documents relating to the AXAF project. The summary of the work performed under this contract is shown.

Ahmad, Anees↗

WEC-SIM Phase 1 Validation Testing -- Numerical Modeling of Experiments: Preprint

The Wave Energy Converter Simulator (WEC-Sim) is an open-source code jointly developed by Sandia National Laboratories and the National Renewable Energy Laboratory. It is used to model wave energy converters subjected to operational and extreme waves. In order for the WEC-Sim code to be beneficial to the wave energy community, code verification and physical model validation is necessary. This paper describes numerical modeling of the wave tank testing for the 1:33-scale experimental testing of the floating oscillating surge wave energy converter. The comparison between WEC-Sim and the Phase 1 experimental data set serves as code validation. This paper is a follow-up to the WEC-Sim paper on experimental testing, and describes the WEC-Sim numerical simulations for the floating oscillating surge wave energy converter.

16 TIDAL AND WAVE POWER↗

[Random Variable Read Me File]

Readme for the Random Variable Toolbox usable manner. is a Web-based Git version control repository hosting service. It is mostly used for computer code. It offers all of the distributed version control and source code management (SCM) functionality of Git as well as adding its own features. It provides access control and several collaboration features such as bug tracking, feature requests, task management, and wikis for every project.[3] GitHub offers both plans for private and free repositories on the same account[4] which are commonly used to host open-source software projects.[5] As of April 2017, GitHub reports having almost 20 million users and 57 million repositories,[6] making it the largest host of source code in the world.[7] GitHub has a mascot called Octocat, a cat with five tentacles and a human-like face

Teubert, Christopher↗

A Measurement and Simulation Based Methodology for Cache Performance Modeling and Tuning

We present a cache performance modeling methodology that facilitates the tuning of uniprocessor cache performance for applications executing on shared memory multiprocessors by accurately predicting the effects of source code level modifications. Measurements on a single processor are initially used for identifying parts of code where cache utilization improvements may significantly impact the overall performance. Cache simulation based on trace-driven techniques can be carried out without gathering detailed address traces. Minimal runtime information for modeling cache performance of a selected code block includes: base virtual addresses of arrays, virtual addresses of variables, and loop bounds for that code block. Rest of the information is obtained from the source code. We show that the cache performance predictions are as reliable as those obtained through trace-driven simulations. This technique is particularly helpful to the exploration of various "what-if' scenarios regarding the cache performance impact for alternative code structures. We explain and validate this methodology using a simple matrix-matrix multiplication program. We then apply this methodology to predict and tune the cache performance of two realistic scientific applications taken from the Computational Fluid Dynamics (CFD) domain.

Waheed, Abdul↗

Modeling and Simulation of Membrane-Based Dehumidification and Energy Recovery Process

This paper introduces a first-order physics-based model that accounts for the fundamental heat and mass transfer between a humid-air vapor stream on feed side to another flow stream on permeate side. The model comprises a few optional submodels for membrane mass transport; and it adopts a segment-by-segment method for discretizing heat and mass transfer governing equations for flow streams on feed and permeate sides. The model is able to simulate both dehumidifiers and energy recovery ventilators in parallel-flow, cross-flow, and counter-flow configurations. The predicted tresults are compared reasonably well with the measurements. The open-source codes are written in C++. The model and open-source codes are expected to become a fundament tool for the analysis of membrane-based dehumidification in the future.

Gao, Zhiming↗

A large-scale analysis of bioinformatics code on GitHub

In recent years, the explosion of genomic data and bioinformatic tools has been accompanied by a growing conversation around reproducibility of results and usability of software. However, the actual state of the body of bioinformatics software remains largely unknown. Here, the purpose of this paper is to investigate the state of source code in the bioinformatics community, specifically looking at relationships between code properties, development activity, developer communities, and software impact. To investigate these issues, we curated a list of 1,720 bioinformatics repositories on GitHub through their mention in peer-reviewed bioinformatics articles. Additionally, we included 23 high-profile repositories identified by their popularity in an online bioinformatics forum. We analyzed repository metadata, source code, development activity, and team dynamics using data made available publicly through the GitHub API, as well as article metadata. We found key relationships within our dataset, including: certain scientific topics are associated with more active code development and higher community interest in the repository; most of the code in the main dataset is written in dynamically typed languages, while most of the code in the high-profile set is statically typed; developer team size is associated with community engagement and high-profile repositories have larger teams; the proportion of female contributors decreases for high-profile repositories and with seniority level in author lists; and, multiple measures of project impact are associated with the simple variable of whether the code was modified at all after paper publication. In addition to providing the first large-scale analysis of bioinformatics code to our knowledge, our work will enable future analysis through publicly available data, code, and methods.

97 MATHEMATICS AND COMPUTING↗

System and method for investigating sub-surface features of a rock formation with acoustic sources generating coded signals

A system and a method for investigating rock formations includes generating, by a first acoustic source, a first acoustic signal comprising a first plurality of pulses, each pulse including a first modulated signal at a central frequency; and generating, by a second acoustic source, a second acoustic signal comprising a second plurality of pulses. A receiver arranged within the borehole receives a detected signal including a signal being generated by a non-linear mixing process from the first-and-second acoustic signal in a non-linear mixing zone within the intersection volume. The method also includes-processing the received signal to extract the signal generated by the non-linear mixing process over noise or over signals generated by a linear interaction process, or both.

47 OTHER INSTRUMENTATION↗

Ice Load Project Final Technical Report

As interest and investment in offshore wind projects increase worldwide, some turbines will be installed in locations where ice of significant thickness forms on the water surface. This ice moves under the driving forces of wind, current, and thermal effects and may result in substantial forces on bottom-fixed support structures. The North and Baltic Seas in Europe have begun to see significant wind energy development and the Great Lakes of the United States and Canada may host wind energy development in the near future. Design of the support structures for these projects is best performed through the use of an integrated tool that can calculate the cumulative effects of forces due to turbine operations, wind, waves, and floating ice. The dynamic nature of ice forces requires that these forces be included in the design simulations, rather than added as static forces to simulation results. The International Electrotechnical Commission (IEC) standard[2] for offshore wind turbine design and the International Organization for Standardization (ISO) standard[3] for offshore structures provide requirements and algorithms for the calculation of forces induced by surface ice; however, currently none of the major wind turbine dynamic simulation codes provides the ability to model ice loads. The scope of work of the project described in this report includes the development of a suite of subroutines, collectively named IceFloe, that meet the requirements of the IEC and ISO standards and couples with four of the major wind turbine dynamic simulation codes. The mechanisms by which ice forces impinge on offshore structures generally include the forces required for crushing of the ice against vertical-sided structures and the forces required to fracture the ice as it rides up on conical-sided structures. Within these two broad categories, the dynamic character of the forces with respect to time is also dependent on other factors such as the velocity and thickness of the moving ice and the response of the structure. In some cases, the dynamic effects are random and in other cases they are deterministic, such as the effect of structural resonance and coupling of the ice forces with the defection of the support structure. The initial versions of the IceFloe routines incorporate modules that address these varied force and dynamic phenomena with seven alternative algorithms that can be specified by the user. The IceFloe routines have been linked and tested with four major wind turbine aeroelastic simulation codes: FAST, a tool developed under the management of the National Renewable Energy Laboratory (NREL) and available free of charge from its web site; Bladed[4], a widely-used commercial package available from DNV GL; ADAMS[5], a general purpose multi-body simulation code used in the wind industry and available from MSC Software; and HAWC2[6], a code developed by and available for purchase from Danmarks Tekniske Universitet (DTU). Interface routines have been developed and tested with full wind turbine simulations for each of these codes and the source code and example inputs and outputs are available from the NREL website.

17 WIND ENERGY↗

The Land Analysis System (LAS) - A general purpose system for multispectral image processing

The present, general-purpose Land Analysis System (LAS) for image processing furnishes a comprehensive set of functions for the manipulation of MSS data; the initial version has more than 240 functions and utilities ranging from pixel manipulation to complex classification. A LAS user's guide describes each such function in terms of purpose, input parameters, illustrative examples, algorithms, error messages, and user codes. The LAS source code is so distributed as to simplify system maintenance; the Transportable Application Executive is employed as the user interface, thereby accommodating both expert and novice users by means of menus and tutored prompting.

Wharton, Stephen W.↗