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Solar physics applications of computer graphics and image processing

Computer graphics devices coupled with computers and carefully developed software provide new opportunities to achieve insight into the geometry and time evolution of scalar, vector, and tensor fields and to extract more information quickly and cheaply from the same image data. Two or more different fields which overlay in space can be calculated from the data (and the physics), then displayed from any perspective, and compared visually. The maximum regions of one field can be compared with the gradients of another. Time changing fields can also be compared. Images can be added, subtracted, transformed, noise filtered, frequency filtered, contrast enhanced, color coded, enlarged, compressed, parameterized, and histogrammed, in whole or section by section. Today it is possible to process multiple digital images to reveal spatial and temporal correlations and cross correlations. Data from different observatories taken at different times can be processed, interpolated, and transformed to a common coordinate system.

Altschuler, M. D.

IRAF in the nineties

The Interactive Data Reduction and Analysis Facility (IRAF) data reduction and analysis system has been around since 1981. Today it is a mature system with hundreds of applications, and is supported on all the major platforms. Many institutions, projects, and individuals around the US and around the world have developed software for IRAF. Some of these packages are comparable in size to the IRAF core system itself. IRAF is both a data analysis system, and a programming environment. As a data analysis system it can be easily installed by a user at a remote site and immediately used to view and process data. As a programming environment IRAF contains a wealth of high and low level facilities for developing new applications for interactive and automated processing of astronomical or other data. As important as the applications programs and user interfaces are to the scientist using IRAF, the heart of the IRAF system is the programming environment. The programming environment determines to a large extent the types of applications which can be built within IRAF, what they will look like, and how they will interact with one another and with the user. While applications can be easily added to or removed from a software system, the programming environment must remain fairly stable, with carefully planned evolution and growth, over the lifetime of a system. The IRAF programming environment is the framework on which the rest of the IRAF system is built. The IRAF programming environment as it exists in 1992, and the work currently underway to enhance the environment are discussed. The structure of the programming environment as a class hierarchy is discussed, with emphasis on the work being done on the image data structures, graphics and image display interfaces, and user interfaces. The new technologies which we feel IRAF must deal with successfully over the coming years are discussed. Finally, a preview of what IRAF might look like to the user by the end of the decade is presented.

Tody, D.

What's Happening in the Software Engineering Laboratory?

Since 1976 the Software Engineering Laboratory (SEL) has been dedicated to understanding and improving the way in which one NASA organization the Flight Dynamics Division (FDD) at Goddard Space Flight Center, develops, maintains, and manages complex flight dynamics systems. This paper presents an overview of recent activities and studies in SEL, using as a framework the SEL's organizational goals and experience based software improvement approach. It focuses on two SEL experience areas : (1) the evolution of the measurement program and (2) an analysis of three generations of Cleanroom experiments.

Pajerski, Rose

Implied alignment: a synapomorphy-based multiple-sequence alignment method and its use in cladogram search

A method to align sequence data based on parsimonious synapomorphy schemes generated by direct optimization (DO; earlier termed optimization alignment) is proposed. DO directly diagnoses sequence data on cladograms without an intervening multiple-alignment step, thereby creating topology-specific, dynamic homology statements. Hence, no multiple-alignment is required to generate cladograms. Unlike general and globally optimal multiple-alignment procedures, the method described here, implied alignment (IA), takes these dynamic homologies and traces them back through a single cladogram, linking the unaligned sequence positions in the terminal taxa via DO transformation series. These "lines of correspondence" link ancestor-descendent states and, when displayed as linearly arrayed columns without hypothetical ancestors, are largely indistinguishable from standard multiple alignment. Since this method is based on synapomorphy, the treatment of certain classes of insertion-deletion (indel) events may be different from that of other alignment procedures. As with all alignment methods, results are dependent on parameter assumptions such as indel cost and transversion:transition ratios. Such an IA could be used as a basis for phylogenetic search, but this would be questionable since the homologies derived from the implied alignment depend on its natal cladogram and any variance, between DO and IA + Search, due to heuristic approach. The utility of this procedure in heuristic cladogram searches using DO and the improvement of heuristic cladogram cost calculations are discussed. c2003 The Willi Hennig Society. Published by Elsevier Science (USA). All rights reserved.

Non-NASA Center

Execution-Error Modeling and Analysis of the GRAIL Spacecraft Pair

The GRAIL spacecraft, Ebb and Flow (aka GRAIL-A and GRAIL-B), completed their prime mission in June and extended mission in December 2012. The excellent performance of the propulsion and attitude control subsystems contributed significantly to the mission's success. In order to better understand this performance, the Navigation Team has analyzed and refined the execution-error models for delta-v maneuvers. There were enough maneuvers in the prime mission to form the basis of a model update that was used in the extended mission. This paper documents the evolution of the execution-error models along with the analysis and software used.

preprocessing

The Cumulus Ecosystem: Open Source and Beyond to Foster Collaboration

NASA’s Earth Observing System Data and Information System (EOSDIS) open source Cumulus software is designed as a common set of code and services that can be used to create a pipeline to deliver and manage earth science data in the cloud. Cumulus strives to create an ecosystem on the foundation of open source that unites those with shared problems and goals by encouraging users to contribute solutions back to the platform. Large parts of ingesting and managing data are common and much of what is created can be used by others. Our goal is to maximize collaboration and code reuse while allowing users to design a custom solution that meets their needs without having to take on extraneous functionality. In this talk we will describe how the Cumulus ecosystem works beyond just open source software. We will review the technology, the successes and challenges, and the evolution and future of Cumulus as an ecosystem.

Cumulus

The 13th Technology of Deep Space One - Abstract

On October 24th, 1998, the Deep Space One (DS-1) spacecraft launched aboard a Delta II rocket as the first step towards the bold task of testing and validating 12 new technologies for future missions. This launch also represented yet another thrilling event; namely, the successful test and validation of a 13th heretofore undisclosed technology: model-based code-generation of the spacecraft's system-level fault-protection (FP) software from behavioral state diagrams and structural models.In this paper, we describe the process we used to leverage model-based code generation from state diagrams and structural specifications to better respond to the evolving requirements and scope of DS- I's system-level fault-protection design, development, test and operation. The evolution of the high-level design and the low-level changes in the flight software architecture and interfaces contributed to multiplying the number and frequency of fault-protection software releases thereby creating a multitude of software integration issues. To address the resulting software integration issues, we broadened the scope of code -eneration to other forms of model- based analysis techniques more traditionally associated with first-principle's reasoning about physical models. Additionally, we describe our in-flight launch and initial acquisition experience.

Rouquette, Nicolas

Fault Management Techniques in Human Spaceflight Operations

This paper discusses human spaceflight fault management operations. Fault detection and response capabilities available in current US human spaceflight programs Space Shuttle and International Space Station are described while emphasizing system design impacts on operational techniques and constraints. Preflight and inflight processes along with products used to anticipate, mitigate and respond to failures are introduced. Examples of operational products used to support failure responses are presented. Possible improvements in the state of the art, as well as prioritization and success criteria for their implementation are proposed. This paper describes how the architecture of a command and control system impacts operations in areas such as the required fault response times, automated vs. manual fault responses, use of workarounds, etc. The architecture includes the use of redundancy at the system and software function level, software capabilities, use of intelligent or autonomous systems, number and severity of software defects, etc. This in turn drives which Caution and Warning (C&W) events should be annunciated, C&W event classification, operator display designs, crew training, flight control team training, and procedure development. Other factors impacting operations are the complexity of a system, skills needed to understand and operate a system, and the use of commonality vs. optimized solutions for software and responses. Fault detection, annunciation, safing responses, and recovery capabilities are explored using real examples to uncover underlying philosophies and constraints. These factors directly impact operations in that the crew and flight control team need to understand what happened, why it happened, what the system is doing, and what, if any, corrective actions they need to perform. If a fault results in multiple C&W events, or if several faults occur simultaneously, the root cause(s) of the fault(s), as well as their vehicle-wide impacts, must be determined in order to maintain situational awareness. This allows both automated and manual recovery operations to focus on the real cause of the fault(s). An appropriate balance must be struck between correcting the root cause failure and addressing the impacts of that fault on other vehicle components. Lastly, this paper presents a strategy for using lessons learned to improve the software, displays, and procedures in addition to determining what is a candidate for automation. Enabling technologies and techniques are identified to promote system evolution from one that requires manual fault responses to one that uses automation and autonomy where they are most effective. These considerations include the value in correcting software defects in a timely manner, automation of repetitive tasks, making time critical responses autonomous, etc. The paper recommends the appropriate use of intelligent systems to determine the root causes of faults and correctly identify separate unrelated faults.

O'Hagan, Brian

Evolution of Ada technology in the flight dynamics area: Implementation/testing phase analysis

An analysis is presented of the software engineering issues related to the use of Ada for the implementation and system testing phases of four Ada projects developed in the flight dynamics area. These projects reflect an evolving understanding of more effective use of Ada features. In addition, the testing methodology used on these projects has changed substantially from that used on previous FORTRAN projects.

Quimby, Kelvin L.

An integrated modeling framework with open architecture for phase field simulation of multi-component alloys

An integrated modeling framework (PanPhaseField) has been developed, which enables a direct and fast coupling between CALPHAD calculations and large-scale phase field simulations for multi-component alloys. Further, it adopts an open architecture allowing for integration of user-defined phase field models in a plug-and-play manner by taking full advantage of the user-friendly graphical interface of Pandat software. The developed modeling platform becomes an enabling tool that can be used to simulate the evolution of spatially varying microstructures of industrial complex alloys for various engineering applications.

36 MATERIALS SCIENCE

A Proven Ground System Architecture for Promoting Collaboration and Common Solutions at NASA

Requirement: Improve how NASA develops and maintains ground data systems for dozens of missions, with a couple new missions always in the development phase. Decided in 2001 on enhanced message-bus architecture. Users offered choices for major components. They plug and play because key interfaces are all the same. Can support COTS, heritage, and new software. Even the middleware can be switched. Project name: GMSEC. Goddard Mission Services Evolution Center.

Smith, Danford

Development of the Code RITRACKS

A document discusses the code RITRACKS (Relativistic Ion Tracks), which was developed to simulate heavy ion track structure at the microscopic and nanoscopic scales. It is a Monte-Carlo code that simulates the production of radiolytic species in water, event-by-event, and which may be used to simulate tracks and also to calculate dose in targets and voxels of different sizes. The dose deposited by the radiation can be calculated in nanovolumes (voxels). RITRACKS allows simulation of radiation tracks without the need of extensive knowledge of computer programming or Monte-Carlo simulations. It is installed as a regular application on Windows systems. The main input parameters entered by the user are the type and energy of the ion, the length and size of the irradiated volume, the number of ions impacting the volume, and the number of histories. The simulation can be started after the input parameters are entered in the GUI. The number of each kind of interactions for each track is shown in the result details window. The tracks can be visualized in 3D after the simulation is complete. It is also possible to see the time evolution of the tracks and zoom on specific parts of the tracks. The software RITRACKS can be very useful for radiation scientists to investigate various problems in the fields of radiation physics, radiation chemistry, and radiation biology. For example, it can be used to simulate electron ejection experiments (radiation physics).

Plante, Ianik

System Software Framework for System of Systems Avionics

Project Constellation implements NASA's vision for space exploration to expand human presence in our solar system. The engineering focus of this project is developing a system of systems architecture. This architecture allows for the incremental development of the overall program. Systems can be built and connected in a "Lego style" manner to generate configurations supporting various mission objectives. The development of the avionics or control systems of such a massive project will result in concurrent engineering. Also, each system will have software and the need to communicate with other (possibly heterogeneous) systems. Fortunately, this design problem has already been solved during the creation and evolution of systems such as the Internet and the Department of Defense's successful effort to standardize distributed simulation (now IEEE 1516). The solution relies on the use of a standard layered software framework and a communication protocol. A standard framework and communication protocol is suggested for the development and maintenance of Project Constellation systems. The ARINC 653 standard is a great start for such a common software framework. This paper proposes a common system software framework that uses the Real Time Publish/Subscribe protocol for framework-to-framework communication to extend ARINC 653. It is highly recommended that such a framework be established before development. This is important for the success of concurrent engineering. The framework provides an infrastructure for general system services and is designed for flexibility to support a spiral development effort.

Ferguson, Roscoe C.

Evolution of safety-critical requirements post-launch

This paper reports the results of a small study of requirements changes to the onboard software of three spacecraft subsequent to launch. Only those requirement changes that resulted from post-launch anomalies (i.e., durring operations) were of interest here, since the goal was to better understand the relationship between critical anomolies during operations and how safety-critical requirements evolve.

requirements

Coupling Microstructural Evolution Simulations to Material Property Degradation Predictions for Plasma-Facing Materials

Reliable material performance is required for plasma-facing material (PFM) candidates. Previous research has shown that plasma and neutron radiation exposure induces microstructural changes in PFMs; changes in thermal and electrical conductivities and in material hardening and embrittlement were also observed after neutron irradiation. These material property changes will negatively impact the performance of the PFMs in a fusion reactor. Despite the well-known connection between material microstructure, properties, and performance, there is a need for validated modeling capabilities connecting PFM property degradation with microstructural evolution under fusion-relevant conditions. We are developing a simulation capability to couple plasma-induced microstructural evolution to material property degradation. Our approach relies on deliberate mapping between individual simulation models and experimental characterization for validation. The open-source Multiphysics Object-Oriented Simulation Environment (MOOSE) software was used for this simulation capability development. A MOOSE phase-field model was coupled with the cluster dynamics code, Xolotl, to predict microstructural evolution. Microstructure characterization techniques, including scanning electron microscopy (SEM), transmission electron microscopy (TEM), and laser scanning confocal microscopy (LSCM) are used to validate these microstructural evolution simulations. Calculation of thermal and electrical conductivities with first principles simulations was performed for bulk material and for grain boundaries; these results are used within MOOSE models to calculate effective thermal and electrical conductivities as a function of grain characteristics. Thermoreflectance and four-probe techniques were employed to measure the thermal and electrical conductivities, respectively. A MOOSE crystal plasticity model was adapted to predict microstructure-sensitive deformation behavior, and X-ray diffraction (XRD) was used to collect bulk dislocation density data for validation. After individual simulation validation, these models are coupled to predict material property changes resulting from plasma exposure. We focused here on an experimental design to emphasize the separate effects of moderate thermal loads and plasma exposure using tungsten. Annealing of tungsten was performed under a protective environment for temperatures ranging from 500 C to 1500 C. The plasma exposure was completed in the Tritium Plasma Experiment at Idaho National Laboratory under a deuterium flux of 1e22 D/m^2-s. This incremental approach is employed to build confidence in the modeling capability: separate-effects tests ensure that the models capture key mechanisms from single environmental conditions before predicting PFM property degradation under combined loads. We will show our early results from coupling these simulation models to predict PFM property changes from microstructural evolution. Comparisons of the simulation results with preliminary validation data will be discussed.

36 - MATERIALS SCIENCE

Connect microstructure evolution to property degradation with validated simulation

Reliable material performance is required for plasma-facing material (PFM) candidates. Previous research has shown that plasma and neutron radiation exposure induces microstructural changes in PFMs; changes in thermal and electrical conductivities and in material hardening and embrittlement were also observed after neutron irradiation. These material property changes will negatively impact the performance of the PFMs in a fusion reactor. Despite the well-known connection between material microstructure, properties, and performance, there is a need for validated modeling capabilities connecting PFM property degradation with microstructural evolution under fusion-relevant conditions. We are developing a simulation capability to couple plasma-induced microstructural evolution to material property degradation. Our approach relies on deliberate mapping between individual simulation models and experimental characterization for validation. The open-source Multiphysics Object-Oriented Simulation Environment (MOOSE) software was used for this simulation capability development. A MOOSE phase-field model was coupled with the cluster dynamics code, Xolotl, to predict microstructural evolution. Microstructure characterization techniques, including scanning electron microscopy (SEM), transmission electron microscopy (TEM), and laser scanning confocal microscopy (LSCM) are used to validate these microstructural evolution simulations. Calculation of thermal and electrical conductivities with first principles simulations was performed for bulk material and for grain boundaries; these results are used within MOOSE models to calculate effective thermal and electrical conductivities as a function of grain characteristics. Thermoreflectance and four-probe techniques were employed to measure the thermal and electrical conductivities, respectively. A MOOSE crystal plasticity model was adapted to predict microstructure-sensitive deformation behavior, and X-ray diffraction (XRD) was used to collect bulk dislocation density data for validation. After individual simulation validation, these models are coupled to predict material property changes resulting from plasma exposure. We focused here on an experimental design to emphasize the separate effects of moderate thermal loads and plasma exposure using tungsten. Annealing of tungsten was performed under a protective environment for temperatures ranging from 500$^o$C to 1500$^o$C. The plasma exposure was completed in the Tritium Plasma Experiment at Idaho National Laboratory under a deuterium flux of 1e22 $\frac{D}{m^2s}$. This incremental approach is employed to build confidence in the modeling capability: separate-effects tests ensure that the models capture key mechanisms from single environmental conditions before predicting PFM property degradation under combined loads. We will show our early results from coupling these simulation models to predict PFM property changes from microstructural evolution. Comparisons of the simulation results with preliminary validation data will be discussed.

36 - MATERIALS SCIENCE

The advanced software development workstation project

The Advanced Software Development Workstation (ASDW) task is researching and developing the technologies required to support Computer Aided Software Engineering (CASE) with the emphasis on those advanced methods, tools, and processes that will be of benefit to support all NASA programs. Immediate goals are to provide research and prototype tools that will increase productivity, in the near term, in projects such as the Software Support Environment (SSE), the Space Station Control Center (SSCC), and the Flight Analysis and Design System (FADS) which will be used to support the Space Shuttle and Space Station Freedom. Goals also include providing technology for development, evolution, maintenance, and operations. The technologies under research and development in the ASDW project are targeted to provide productivity enhancements during the software life cycle phase of enterprise and information system modeling, requirements generation and analysis, system design and coding, and system use and maintenance. On-line user's guides will assist users in operating the developed information system with knowledge base expert assistance.

Fridge, Ernest M., III

LevSeq: Rapid Generation of Sequence-Function Data for Directed Evolution and Machine Learning

Sequence-function data provides valuable information about the protein functional landscape but is rarely obtained during directed evolution campaigns. Here, we present Long-read every variant Sequencing (LevSeq), a pipeline that combines a dual barcoding strategy with nanopore sequencing to rapidly generate sequence-function data for entire protein-coding genes. LevSeq integrates into existing protein engineering workflows and comes with open-source software for data analysis and visualization. The pipeline facilitates data-driven protein engineering by consolidating sequence-function data to inform directed evolution and provide the requisite data for machine learning-guided protein engineering (MLPE). LevSeq enables quality control of mutagenesis libraries prior to screening, which reduces time and resource costs. Simulation studies demonstrate LevSeq’s ability to accurately detect variants under various experimental conditions. Lastly, we show LevSeq’s utility in engineering protoglobins for new-to-nature chemistry. Widespread adoption of LevSeq and sharing of the data will enhance our understanding of protein sequence-function landscapes and empower data-driven directed evolution.

59 BASIC BIOLOGICAL SCIENCES