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At least 271 records · Page 15

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NASA NTRS2000

Towards Evolving Electronic Circuits for Autonomous Space Applications

The relatively new field of Evolvable Hardware studies how simulated evolution can reconfigure, adapt, and design hardware structures in an automated manner. Space applications, especially those requiring autonomy, are potential beneficiaries of evolvable hardware. For example, robotic drilling from a mobile platform requires high-bandwidth controller circuits that are difficult to design. In this paper, we present automated design techniques based on evolutionary search that could potentially be used in such applications. First, we present a method of automatically generating analog circuit designs using evolutionary search and a circuit construction language. Our system allows circuit size (number of devices), circuit topology, and device values to be evolved. Using a parallel genetic algorithm, we present experimental results for five design tasks. Second, we investigate the use of coevolution in automated circuit design. We examine fitness evaluation by comparing the effectiveness of four fitness schedules. The results indicate that solution quality is highest with static and co-evolving fitness schedules as compared to the other two dynamic schedules. We discuss these results and offer two possible explanations for the observed behavior: retention of useful information, and alignment of problem difficulty with circuit proficiency.

Lohn, Jason D.↗

NASA NTRS2019

Cluster Analysis of Spectroscopic Line Profiles and EUV Emission in RMHD Simulations and Observations of the Solar Atmosphere

Spatially-resolved observations from the IRIS, SDO/AIA, and other space mission and ground-based telescopes, coupled with realistic 3D RMHD simulations, are a powerful tool for analysis of processes in the solar atmosphere. To better understand the dynamical and thermodynamic properties in the simulation data and their connection to observations, it is essential to determine similarities in the behaviors of the synthesized and observed emission. However, the complexity of observational data and physical processes makes comparison of observations and modeling results difficult. In this work, we show the initial results of application of K-Means clustering (unsupervised machine learning) algorithm to two different problems: 1) recognition of the typical spectroscopic line profiles observed by IRIS during solar flares and their typical dynamic behavior; 2) recognition of shocks and heating events in synthetic AIA emission data obtained from StellarBox quiet-Sun simulations. The average silhouette width technique for the KMeans algorithm is utilized in different ways to obtain optimal numbers of clusters. We discuss application of the emission clustering to visualizations of the computational volume, understanding its evolutionary trends and behavior patterns, and inversion (reconstruction) of physical properties of the solar atmosphere from synthesizes emission data.

Sadykov, Viacheslav↗

DOE OSTI2023

PYK-SubstitutionOME: an integrated database containing allosteric coupling, ligand affinity and mutational, structural, pathological, bioinformatic and computational information about pyruvate kinase isozymes

Interpreting changes in patient genomes, understanding how viruses evolve and engineering novel protein function all depend on accurately predicting the functional outcomes that arise from amino acid substitutions. To that end, the development of first-generation prediction algorithms was guided by historic experimental datasets. However, these datasets were heavily biased toward substitutions at positions that have not changed much throughout evolution (i.e. conserved). Although newer datasets include substitutions at positions that span a range of evolutionary conservation scores, these data are largely derived from assays that agglomerate multiple aspects of function. To facilitate predictions from the foundational chemical properties of proteins, large substitution databases with biochemical characterizations of function are needed. We report here a database derived from mutational, biochemical, bioinformatic, structural, pathological and computational studies of a highly studied protein family—pyruvate kinase (PYK). A centerpiece of this database is the biochemical characterization—including quantitative evaluation of allosteric regulation—of the changes that accompany substitutions at positions that sample the full conservation range observed in the PYK family. We have used these data to facilitate critical advances in the foundational studies of allosteric regulation and protein evolution and as rigorous benchmarks for testing protein predictions. We trust that the collected dataset will be useful for the broader scientific community in the further development of prediction algorithms.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

Predictive Models of Genetic Redundancy in Arabidopsis thaliana

Abstract Genetic redundancy refers to a situation where an individual with a loss-of-function mutation in one gene (single mutant) does not show an apparent phenotype until one or more paralogs are also knocked out (double/higher-order mutant). Previous studies have identified some characteristics common among redundant gene pairs, but a predictive model of genetic redundancy incorporating a wide variety of features derived from accumulating omics and mutant phenotype data is yet to be established. In addition, the relative importance of these features for genetic redundancy remains largely unclear. Here, we establish machine learning models for predicting whether a gene pair is likely redundant or not in the model plant Arabidopsis thaliana based on six feature categories: functional annotations, evolutionary conservation including duplication patterns and mechanisms, epigenetic marks, protein properties including posttranslational modifications, gene expression, and gene network properties. The definition of redundancy, data transformations, feature subsets, and machine learning algorithms used significantly affected model performance based on holdout, testing phenotype data. Among the most important features in predicting gene pairs as redundant were having a paralog(s) from recent duplication events, annotation as a transcription factor, downregulation during stress conditions, and having similar expression patterns under stress conditions. We also explored the potential reasons underlying mispredictions and limitations of our studies. This genetic redundancy model sheds light on characteristics that may contribute to long-term maintenance of paralogs, and will ultimately allow for more targeted generation of functionally informative double mutants, advancing functional genomic studies.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS1985

Control of Flexible Structures (COFS) Flight Experiment Program

The Control of Flexible Structures (COFS) Flight Experiment Program consists of a series of four Shuttle-attached experiments specifically designed to systematically evaluate algorithms and techniques for on-orbit systems identification and flexible body control of large flexible structures, and as such, develops the enabling technologies for future NASA missions such as the evolutionary Space Station and large orbital antennas. These flight experiments are conducted on 1-year centers starting in 1989. This paper presents a description of the test article for the first two flights (COFS-I) and a discussion of the strategy for conducting the various experiments. A guest investigator program provides the opportunity for the research community to participate in the structures/controls research associated with the multi-flight COFS Program.

Fontana, A.↗

NASA NTRS1987

Intelligent robotic tracker

An intelligent tracker capable of robotic applications requiring guidance and control of platforms, robotic arms, and end effectors has been developed. This packaged system capable of supervised autonomous robotic functions is partitioned into a multiple processor/parallel processing configuration. The system currently interfaces to cameras but has the capability to also use three-dimensional inputs from scanning laser rangers. The inputs are fed into an image processing and tracking section where the camera inputs are conditioned for the multiple tracker algorithms. An executive section monitors the image processing and tracker outputs and performs all the control and decision processes. The present architecture of the system is presented with discussion of its evolutionary growth for space applications. An autonomous rendezvous demonstration of this system was performed last year. More realistic demonstrations in planning are discussed.

Otaguro, W. S.↗

NASA NTRS1989

Spatial operator algebra framework for multibody system dynamics

The Spatial Operator Algebra framework for the dynamics of general multibody systems is described. The use of a spatial operator-based methodology permits the formulation of the dynamical equations of motion of multibody systems in a concise and systematic way. The dynamical equations of progressively more complex grid multibody systems are developed in an evolutionary manner beginning with a serial chain system, followed by a tree topology system and finally, systems with arbitrary closed loops. Operator factorizations and identities are used to develop novel recursive algorithms for the forward dynamics of systems with closed loops. Extensions required to deal with flexible elements are also discussed.

Rodriguez, G.↗

NASA NTRS1992

Spatial Operator Algebra for multibody system dynamics

Rodriguez, G.↗

NASA NTRS2021

A Mathematical Analysis of an Example Delay Tolerant Network using the Theory of Sheaves

NASA’s High-Data Rate Architecture (HiDRA) project is working towards a general yet practical toolkit and knowledge base to help usher in the era of new technologies for space systems communications, such as optical links. The High-Rate Delay Tolerant Networking (HDTN) implementation falls under the umbrellas of both the toolkit and the knowledge base, as its advancements illuminate more general areas of Delay Tolerant Networking (DTN) that need growth. The goal of this paper is to explore the usage of particular mathematical machineries, namely temporal flow networks and sheaves, to identify fundamental, underlying structures in DTN for space systems. Satellites, space assets, ground stations, etc. give rise to a disconnected network, and it is the goal of DTN to glue disparate links together into a cohesive system, that is, a network. Depending on a given link, the latencies might be beyond that which the Transmission Control Protocol (TCP) can handle, and contact times might have one-way light times in excess of minute (sometimes significantly longer). Some links might be periodic (say, due to orbital mechanics) or they might not be. This diversity has made it difficult to probe the underlying structure. An immediate consequence is that DTNs in practice today are controlled by globally distributed contact plans (schedules), which are the input to the contact graph routing (CGR) algorithm. While this is effective for smaller networks, it will be very difficult to scale for future networks. Deeper and more rigorous theory is needed to bring DTN to the next evolutionary step. To this end, this paper introduces and suggests a mathematical framework for DTN, and applies it to a space network that is simulated using an orbital analysis toolkit. The tag-line for the structure known as sheaves is that they are the mathematically precise way of gluing local data together into unique, global data. If we consider routing, we see that networking is a “sheafy” science. We then discuss a simplified sheaf model, known as the cellular sheaf. The sheaf-theoretic analysis is presented and discussed, as it is hoped that this and related papers will help form the primordial ooze of DTN theory. Finally there is a section of future work suggesting follow-on research.

Delay Tolerant Networking↗

NASA NTRS1989

5S ribosomal ribonucleic acid sequences in Bacteroides and Fusobacterium: evolutionary relationships within these genera and among eubacteria in general

The 5S ribosomal ribonucleic acid (rRNA) sequences were determined for Bacteroides fragilis, Bacteroides thetaiotaomicron, Bacteroides capillosus, Bacteroides veroralis, Porphyromonas gingivalis, Anaerorhabdus furcosus, Fusobacterium nucleatum, Fusobacterium mortiferum, and Fusobacterium varium. A dendrogram constructed by a clustering algorithm from these sequences, which were aligned with all other hitherto known eubacterial 5S rRNA sequences, showed differences as well as similarities with respect to results derived from 16S rRNA analyses. In the 5S rRNA dendrogram, Bacteroides clustered together with Cytophaga and Fusobacterium, as in 16S rRNA analyses. Intraphylum relationships deduced from 5S rRNAs suggested that Bacteroides is specifically related to Cytophaga rather than to Fusobacterium, as was suggested by 16S rRNA analyses. Previous taxonomic considerations concerning the genus Bacteroides, based on biochemical and physiological data, were confirmed by the 5S rRNA sequence analysis.

NASA Discipline Exobiology↗

DOE OSTI2020

3D fault architecture controls the dynamism of earthquake swarms

The vibrant evolutionary patterns made by earthquake swarms are incompatible with standard, effectively two-dimensional (2D) models for general fault architecture. Here we leverage advances in earthquake monitoring with a deep-learning algorithm to image a fault zone hosting a 4-year-long swarm in southern California. We infer that fluids are naturally injected into the fault zone from below and diffuse through strike-parallel channels while triggering earthquakes. A permeability barrier initially limits up-dip swarm migration but ultimately is circumvented. This enables fluid migration within a shallower section of the fault with fundamentally different mechanical properties. Our observations provide high-resolution constraints on the processes by which swarms initiate, grow, and arrest. These findings illustrate how swarm evolution is strongly controlled by 3D variations in fault architecture.

58 GEOSCIENCES↗

NASA NTRSDate not supplied

Recent Progress in OVERFLOW Convergence Improvements

Improvements have been made to the implicit symmetric successive overrelaxation algorithm in the OVERFLOW 2.3 structured, overset grid, computational fluid dynamics flow solver. These improvements, consisting of implicit boundary conditions, improved flux Jacobian linearizations, and CFL number ramping, are a series of evolutionary changes to the linear solver that have resulted in increased nonlinear convergence rates and faster time to solution. A series of test cases are presented that demonstrate the effect of the changes through comparison with the original SSOR path and other linear solver implementations within OVERFLOW.

Joseph M Derlaga↗

NASA NTRS2021

Generation-based Evolutionary Tool for the Optimization of Constellations (GenETOC)

mission design↗

NASA NTRS2021

Generation-based Evolutionary Tool for the Optimization of Constellations (GenETOC)

With the rapid growth in the capabilities of smaller satellites, satellite architectures that replace a single, extremely capable spacecraft with multiple, cheaper ones are gaining in popularity. Unfortunately, the orbit design process for constellations can be significantly more involved, especiallywhen the relative placement of the individual spacecraft within the constellation is not constrained by mission and/or science objectives. Optimizing a satellite constellation in the presence of multiple, competing objectives is a highly complex problem to which many traditional mathematical optimization methods cannot be applied and few tools exist to help mission designers search for promising candidate mission designs. The Generation-based Evolutionary Tool for the Optimization of Constellations (GenETOC) has been created to search for near-optimal constellation design options. GenETOC combines a modified version of the Non-dominated Sorting Genetic Algorithm II (NSGA II) with STK Components libraries (a 3rdparty .NET package created by Analytical Graphics Inc.) to create a framework that enables a mission designer to generate a simulation that models the design problem and obtain a family of potential, near-optimal solutions that can be investigated more in detail. GenETOC was developed in C# using the .NET framework with Windows Presentation Foundation (WPF) serving as the framework from which to create the graphical user interface (GUI). GenETOC user inputs can be categorized into three major data components: definition of the problem (areas of interest, satellite decision parameters, and sensor configurations), definition of performance objectives, and specification of the genetic algorithm (GA) parameters. In the problem definition component, the user is prompted to define the areas of interest against which the performance metrics will be computed, define the sensor parameters and attach them to specific spacecraft, select which satellite orbital parameters will be added to the decision space of the GA, and specify the range of desired values for each optimization parameter. For performance objectives, the user is presented with a list of available coverage and revisit performance based calculation options from which two metrics are chosen to serve as the objective functions that the GA will use to evaluate solutions during the optimization process. Finally, the definition of the GA parameters provides user control over the number of generations (number of optimization iterations), the population size (number of candidate constellations created in each generation), and the adaptive mutation and crossover threshold values (control parameters for how frequently each process occurs during the optimization). GenETOC has been extensively tested to verify the individual components of the optimization process. The GA has been tested against a suite of GA test problems to confirm convergence to the known two and three-dimensional Pareto fronts. The coverage and revisit performance metrics obtained in GenETOC are compared with STK desktop scenarios, confirming the constellations are being appropriately modeled within GenETOC simulations. A walkthrough of a simple, example problem is provided to illustrate the workings of GenETOC and to demonstrate the output available to the mission designer.

mission design↗

NASA NTRS1995

An Empirical Comparison of Seven Iterative and Evolutionary Function Optimization Heuristics

This report is a repository of the results obtained from a large scale empirical comparison of seven iterative and evolution-based optimization heuristics. Twenty-seven static optimization problems, spanning six sets of problem classes which are commonly explored in genetic algorithm literature, are examined. The problem sets include job-shop scheduling, traveling salesman, knapsack, binpacking, neural network weight optimization, and standard numerical optimization. The search spaces in these problems range from 2368 to 22040. The results indicate that using genetic algorithms for the optimization of static functions does not yield a benefit, in terms of the final answer obtained, over simpler optimization heuristics. Descriptions of the algorithms tested and the encodings of the problems are described in detail for reproducibility.

Baluja, Shumeet↗

NASA NTRS2004

A Novel, Real-Valued Genetic Algorithm for Optimizing Radar Absorbing Materials

A novel, real-valued Genetic Algorithm (GA) was designed and implemented to minimize the reflectivity and/or transmissivity of an arbitrary number of homogeneous, lossy dielectric or magnetic layers of arbitrary thickness positioned at either the center of an infinitely long rectangular waveguide, or adjacent to the perfectly conducting backplate of a semi-infinite, shorted-out rectangular waveguide. Evolutionary processes extract the optimal physioelectric constants falling within specified constraints which minimize reflection and/or transmission over the frequency band of interest. This GA extracted the unphysical dielectric and magnetic constants of three layers of fictitious material placed adjacent to the conducting backplate of a shorted-out waveguide such that the reflectivity of the configuration was 55 dB or less over the entire X-band. Examples of the optimization of realistic multi-layer absorbers are also presented. Although typical Genetic Algorithms require populations of many thousands in order to function properly and obtain correct results, verified correct results were obtained for all test cases using this GA with a population of only four.

Hall, John Michael↗

NASA NTRS1997

Application of Domain Knowledge to Software Quality Assurance

This work focused on capturing, using, and evolving a qualitative decision support structure across the life cycle of a project. The particular application of this study was towards business process reengineering and the representation of the business process in a set of Business Rules (BR). In this work, we defined a decision model which captured the qualitative decision deliberation process. It represented arguments both for and against proposed alternatives to a problem. It was felt that the subjective nature of many critical business policy decisions required a qualitative modeling approach similar to that of Lee and Mylopoulos. While previous work was limited almost exclusively to the decision capture phase, which occurs early in the project life cycle, we investigated the use of such a model during the later stages as well. One of our significant developments was the use of the decision model during the operational phase of a project. By operational phase, we mean the phase in which the system or set of policies which were earlier decided are deployed and put into practice. By making the decision model available to operational decision makers, they would have access to the arguments pro and con for a variety of actions and can thus make a more informed decision which balances the often conflicting criteria by which the value of action is measured. We also developed the concept of a 'monitored decision' in which metrics of performance were identified during the decision making process and used to evaluate the quality of that decision. It is important to monitor those decision which seem at highest risk of not meeting their stated objectives. Operational decisions are also potentially high risk decisions. Finally, we investigated the use of performance metrics for monitored decisions and audit logs of operational decisions in order to feed an evolutionary phase of the the life cycle. During evolution, decisions are revisisted, assumptions verified or refuted, and possible reassessments resulting in new policy are made. In this regard we implemented a machine learning algorithm which automatically defined business rules based on expert assessment of the quality of operational decisions as recorded during deployment.

Wild, Christian W.↗

DOE OSTI2022

Computational evolution of high-performing unfused non-fullerene acceptors for organic solar cells

Materials optimization for organic solar cells (OSCs) is a highly active field, with many approaches using empirical experimental synthesis, computational brute force to screen a subset of chemical space, or generative machine learning methods that often require significant training sets. While these methods may find high-performing materials, they can be inefficient and time-consuming. Genetic algorithms (GAs) are an alternative approach, allowing for the “virtual synthesis” of molecules and a prediction of their “fitness” for some property, with new candidates suggested based on good characteristics of previously generated molecules. In this work, a GA is used to discover high-performing unfused non-fullerene acceptors (NFAs) based on an empirical prediction of power conversion efficiency (PCE) and provides design rules for future work. The electron-withdrawing/donating strength, as well as the sequence and symmetry, of those units are examined. The utilization of a GA over a brute-force approach resulted in speedups up to 1.8 × 10 12 . New types of units, not frequently seen in OSCs, are suggested, and in total 5426 NFAs are discovered with the GA. Of these, 1087 NFAs are predicted to have a PCE greater than 18%, which is roughly the current record efficiency. While the symmetry of the sequence showed no correlation with PCE, analysis of the sequence arrangement revealed that higher performance can be achieved with a donor core and acceptor end groups. Future NFA designs should consider this strategy as an alternative to the current A-D-A'-D-A architecture.

14 SOLAR ENERGY↗