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DOE OSTI2019

Species-Specific Shifts in Diurnal Sap Velocity Dynamics and Hysteretic Behavior of Ecophysiological Variables During the 2015–2016 El Niño Event in the Amazon Forest

Current climate change scenarios indicate warmer temperatures and the potential for more extreme droughts in the tropics, such that a mechanistic understanding of the water cycle from individual trees to landscapes is needed to adequately predict future changes in forest structure and function. In this study, we contrasted physiological responses of tropical trees during a normal dry season with the extreme dry season due to the 2015–2016 El Niño-Southern Oscillation (ENSO) event. We quantified high resolution temporal dynamics of sap velocity (V s ), stomatal conductance (g s ) and leaf water potential (Ψ L ) of multiple canopy trees, and their correlations with leaf temperature (T leaf ) and environmental conditions [direct solar radiation, air temperature (T air ) and vapor pressure deficit (VPD)]. The experiment leveraged canopy access towers to measure adjacent trees at the ZF2 and Tapajós tropical forest research (near the cities of Manaus and Santarém). The temporal difference between the peak of g s (late morning) and the peak of VPD (early afternoon) is one of the major regulators of sap velocity hysteresis patterns. Sap velocity displayed species-specific diurnal hysteresis patterns reflected by changes in T leaf . In the morning, T leaf and sap velocity displayed a sigmoidal relationship. In the afternoon, stomatal conductance declined as T leaf approached a daily peak, allowing Ψ L to begin recovery, while sap velocity declined with an exponential relationship with Tleaf. In Manaus, hysteresis indices of the variables T leaf -T air and Ψ L -T leaf were calculated for different species and a significant difference (p < 0.01, α = 0.05) was observed when the 2015 dry season (ENSO period) was compared with the 2017 dry season (“control scenario”). In some days during the 2015 ENSO event, T leaf approached 40°C for all studied species and the differences between T leaf and T air reached as high at 8°C (average difference: 1.65 ± 1.07°C). Generally, T leaf was higher than T air during the middle morning to early afternoon, and lower than T air during the early morning, late afternoon and night. Our results support the hypothesis that partial stomatal closure allows for a recovery in Ψ L during the afternoon period giving an observed counterclockwise hysteresis pattern between Ψ L and T leaf .

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS1989

Short-range forecasting and nowcasting, using a simple, isentropic prediction model

A numerical advection model which can be run on a local computer in a real-time forecast environment is described. This isentropic forecast model provides the local forecast office with easy access to temporally and spatially detailed estimates of atmospheric temperature, moisture, and wind field changes between 12-h rawinsonde observations. Case studies are presented based on the use of the model to predict the preconvective environment in spring and summer situations. Short-term forecasts of midtropospheric static stability patterns and stability index changes are traced for several severe storm events with and without the inclusion of surface data observed during the day. Forecast images of VAS low- and midlevel moisture fields and vertical moisture gradients are compared with the observations to determine the utility of the combined model/VAS imagery as a nowcasting guide.

Petersen, Ralph A.↗

NASA NTRS1999

Non-Intrusive Laser-Induced Imaging for Speciation and Patternation in High Pressure Gas Turbine Combustors

The next generation of was turbine combustors for aerospace applications will be required to meet increasingly stringent constraints on fuel efficiency, noise abatement, and emissions. The power plants being designed to meet these constraints will operate at extreme conditions of temperature and pressure, thereby generating unique challenges to the previously employed diagnostic methodologies. Current efforts at NASA Glenn Research Center (GRC) utilize optically accessible, high pressure flametubes and sector combustor rigs to probe, via advanced nonintrusive laser techniques, the complex flowfields encountered in advanced combustor designs. The fuel-air mixing process is of particular concern for lowering NO(x) emissions generated in lean, premixed engine concepts. Using planar laser-induced fluorescence (PLIF) we have obtained real-time, detailed imaging of the fuel spray distribution for a number of fuel injector over a wide range of operational conditions that closely match those expected in the proposed propulsion systems. Using a novel combination of planar imaging, of fuel fluorescence and computational analysis that allows an examination of the flowfield from any perspective, we have produced spatially and temporally resolved fuel-air distribution maps. These maps provide detailed insight into the fuel injection at actual conditions never before possible, thereby greatly enhancing the evaluation of fuel injector performance and combustion phenomena.

Locke, Randy J.↗

NASA NTRS2008

Certifying Auto-Generated Flight Code

Model-based design and automated code generation are being used increasingly at NASA. Many NASA projects now use MathWorks Simulink and Real-Time Workshop for at least some of their modeling and code development. However, there are substantial obstacles to more widespread adoption of code generators in safety-critical domains. Since code generators are typically not qualified, there is no guarantee that their output is correct, and consequently the generated code still needs to be fully tested and certified. Moreover, the regeneration of code can require complete recertification, which offsets many of the advantages of using a generator. Indeed, manual review of autocode can be more challenging than for hand-written code. Since the direct V&V of code generators is too laborious and complicated due to their complex (and often proprietary) nature, we have developed a generator plug-in to support the certification of the auto-generated code. Specifically, the AutoCert tool supports certification by formally verifying that the generated code is free of different safety violations, by constructing an independently verifiable certificate, and by explaining its analysis in a textual form suitable for code reviews. The generated documentation also contains substantial tracing information, allowing users to trace between model, code, documentation, and V&V artifacts. This enables missions to obtain assurance about the safety and reliability of the code without excessive manual V&V effort and, as a consequence, eases the acceptance of code generators in safety-critical contexts. The generation of explicit certificates and textual reports is particularly well-suited to supporting independent V&V. The primary contribution of this approach is the combination of human-friendly documentation with formal analysis. The key technical idea is to exploit the idiomatic nature of auto-generated code in order to automatically infer logical annotations. The annotation inference algorithm itself is generic, and parametrized with respect to a library of coding patterns that depend on the safety policies and the code generator. The patterns characterize the notions of definitions and uses that are specific to the given safety property. For example, for initialization safety, definitions correspond to variable initializations while uses are statements which read a variable, whereas for array bounds safety, definitions are the array declarations, while uses are statements which access an array variable. The inferred annotations are thus highly dependent on the actual program and the properties being proven. The annotations, themselves, need not be trusted, but are crucial to obtain the automatic formal verification of the safety properties without requiring access to the internals of the code generator. The approach has been applied to both in-house and commercial code generators, but is independent of the particular generator used. It is currently being adapted to flight code generated using MathWorks Real-Time Workshop, an automatic code generator that translates from Simulink/Stateflow models into embedded C code.

Denney, Ewen↗

DOE OSTI2024

Custom Accessors: Enabling Scalable Data Ingestion, (Re-)Organization, and Analysis on Distributed Systems

The emerging class of high velocity and high volume data analytic workflows comprise interwoven data ingestion, organization, and processing stages, with ingestion and organization steps often contributing comparable or even higher computational costs than actual processing steps. Since complex workflows consist of a variety of phases that view and use data differently, being able to construct efficient, scalable, distributed data structures (arrays, vectors, sets, maps, and multi-maps) is essential and requires custom methods to extend and shrink containers, analyze and position data, and, maintain globallyconsistent meta-data. In this paper, we propose a novel datastructure access paradigm based on the concept of Accessors. At a high level, accessors are customizable callable objects that can modify the behavior of insert, read, update, and delete operations for distributed containers while preserving atomicity guarantees. Accessors provide a very clean and natural way to implement a variety of programming patterns, e.g., conditional insertion/deletion and cascading computations, which would be otherwise hard (or even impossible) to express in parallel and distributed settings without using locks. We demonstrate the practicality and usefulness of our approach with two representative use cases and study the performance of these applications on a distributed High-Performance Computing system. Our analysis highlights that our proposed abstraction allows for an effective overlapping and concurrent execution of different workflow steps (e.g., data ingestion and analysis), which in a conventional analytics pipeline would execute sequentially, contributing cumulatively to the overall latency.

Castellana, Vito G. [BATTELLE (PACIFIC NW LAB)] (O↗

DOE OSTI2022

Atomically engineered cobaltite layers for robust ferromagnetism

Emergent phenomena at heterointerfaces are directly associated with the bonding geometry of adjacent layers. Effective control of accessible parameters, such as the bond length and bonding angles, offers an elegant method to tailor competing energies of the electronic and magnetic ground states. In this study, we construct unit-thick syntactic layers of cobaltites within a strongly tilted octahedral matrix via atomically precise synthesis. The octahedral tilt patterns of adjacent layers propagate into cobaltites, leading to a continuation of octahedral tilting while maintaining substantial misfit tensile strain. These effects induce severe rumpling within an atomic plane of neighboring layers, further triggering the electronic reconstruction between the splitting orbitals. First-principles calculations reveal that the cobalt ions transit to a higher spin state level upon octahedral tilting, resulting in robust ferromagnetism in ultrathin cobaltites. This work demonstrates a design methodology for fine-tuning the lattice and spin degrees of freedom in correlated quantum heterostructures by exploiting epitaxial geometric engineering.

36 MATERIALS SCIENCE↗

DOE OSTI2019

A Design Document: Custom Analytical Tools and Automation for the Industrial Hygienist

This report outlines an approach for developing a modular and scalable web-based application suite, Internal Data Access and Visualization (I-DAV), that would be developed to meet the specific analytic requirements for Industrial Hygienist (IH) analysts and tank vapors Subject Matter Expert’s (SME) at the Hanford site. Through interviews and requirements elicitation with IH analyst, and on-site in depth review of workflow patterns and expected outcomes, PNNL has developed a framework for proposed collection of interdependent goal oriented software applications. Commercial off the shelf applications, which require only minimal custom code, were deployed this year as a mechanism of rapid prototyping and providing proof of concept. This report describes these efforts and accomplishments to date, as well as concepts for future applications and general enhancement of the DAV and core concepts for the I-DAV. Additional content was integrated into this report as of March 2019. Updated content was added to reflect the inclusion of I-DAV concepts and ideas, and refined versions of original concepts set forth as the work commenced and continued through the first half of FY19. New and refined concepts have been the product of ongoing weekly meetings, outreach, and elicitation with WRPS.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2019

A Design Document: Custom Analytical Tools and Automation for the Industrial Hygienist

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2023

Autonomous Intelligence Measurements and Sensor Systems (AIMS): Gaussian Processes in Remote Sensing: Literature Review

Power grid resilience and reliability is crucial to supporting critical infrastructure. Service interruptions can have devastating consequences to communication, emergency, and transportation services, just to name a few. In addition to infrastructure, power services are crucial to everyday life. Nearly every element of modern-day living relies on a stable and functioning power grid - heating and cooling systems to lighting, refrigeration, telecommunications, and internet access. Interruptions in the power supply can range from minor inconveniences, such as the temporary loss of internet or television services, to more significant problems, like the inability to access medical equipment or emergency services during critical situations. As climate conditions worsen, the reliability of the power grid becomes even more significant. Extreme weather events, such as hurricanes, wildfires, or severe storms, can cause serious damage to power infrastructure, leading to prolonged power outages. Rising temperatures and changing weather patterns can strain the grid, resulting in increased demand for electricity, stressing transmission and distribution systems.

24 POWER TRANSMISSION AND DISTRIBUTION↗

NASA NTRS1992

Earth science information: Planning for the integration and use of global change information

The Consortium for International Earth Science Information Network (CIESIN) was founded in 1989 as a non-profit corporation dedicated to facilitating access to, use and understanding of global change information worldwide. The Consortium was created to cooperate and coordinate with organizations and researchers throughout the global change community to further access the most advanced technology, the latest scientific research, and the best information available for critical environmental decision making. CIESIN study efforts are guided by Congressional mandates to 'convene key present and potential users to assess the need for investment in integration of earth science information,' to 'outline the desirable pattern of interaction with the scientific and policy community,' and to 'develop recommendations and draft plans to achieve the appropriate level of effort in the use of earth science data for research and public policy purposes.' In addition, CIESIN is tasked by NASA to develop a data center that would extend the benefits of Earth Observing System (EOS) to the users of global change information related to human dimensions issues. For FY 1991, CIESIN focused on two main objectives. The first addressed the identification of information needs of global change research and non-research user groups worldwide. The second focused on an evaluation of the most efficient mechanisms for making this information available in usable forms.

Lousma, Jack R.↗

DOE OSTI2014

Hierarchically Ordered Nanopatterns for Spatial Control of Biomolecules

We present the development and study of a benchtop, high-throughput, and inexpensive fabrication strategy to obtain hierarchical patterns of biomolecules with sub-50 nm resolution. A diblock copolymer of polystyrene-b-poly(ethylene oxide), PS-b-PEO, is synthesized with biotin capping the PEO block and 4-bromostyrene copolymerized within the polystyrene block at 5 wt %. These two handles allow thin films of the block copolymer to be postfunctionalized with biotinylated biomolecules of interest and to obtain micropatterns of nanoscale-ordered films via photolithography. The design of this single polymer further allows access to two distinct superficial nanopatterns (lines and dots), where the PEO cylinders are oriented parallel or perpendicular to the substrate. Moreover, we present a strategy to obtain hierarchical mixed morphologies: a thin-film coating of cylinders both parallel and perpendicular to the substrate can be obtained by tuning the solvent annealing and irradiation conditions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2015

The pineapple genome and the evolution of CAM photosynthesis

Pineapple (Ananas comosus (L.) Merr.) is the most economically valuable crop possessing crassulacean acid metabolism (CAM), a photosynthetic carbon assimilation pathway with high water-use efficiency, and the second most important tropical fruit. We sequenced the genomes of pineapple varieties F153 and MD2 and a wild pineapple relative, Ananas bracteatus accession CB5. The pineapple genome has one fewer ancient whole-genome duplication event than sequenced grass genomes and a conserved karyotype with seven chromosomes from before the ρ duplication event. The pineapple lineage has transitioned from C 3 photosynthesis to CAM, with CAM-related genes exhibiting a diel expression pattern in photosynthetic tissues. CAM pathway genes were enriched with cis-regulatory elements associated with the regulation of circadian clock genes, providing the first cis-regulatory link between CAM and circadian clock regulation. Lastly, we found pineapple CAM photosynthesis evolved by the reconfiguration of pathways in C 3 plants, through the regulatory neofunctionalization of preexisting genes and not through the acquisition of neofunctionalized genes via whole-genome or tandem gene duplication.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2019

Real-Time Selective Sequencing with RUBRIC: Read Until with Basecall and Reference-Informed Criteria

Abstract The Oxford MinION, the first commercial nanopore sequencer, is also the first to implement molecule-by-molecule real-time selective sequencing or “Read Until”. As DNA transits a MinION nanopore, real-time pore current data can be accessed and analyzed to provide active feedback to that pore. Fragments of interest are sequenced by default, while DNA deemed non-informative is rejected by reversing the pore bias to eject the strand, providing a novel means of background depletion and/or target enrichment. In contrast to the previously published pattern-matching Read Until approach, our RUBRIC method is the first example of real-time selective sequencing where on-line basecalling enables alignment against conventional nucleic acid references to provide the basis for sequence/reject decisions. We evaluate RUBRIC performance across a range of optimizable parameters, apply it to mixed human/bacteria and CRISPR/Cas9-cut samples, and present a generalized model for estimating real-time selection performance as a function of sample composition and computing configuration.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Extending in situ X-ray Temperature Diagnostics to Internal Components

Time-resolved X-ray thermometry is an enabling technology for measuring temperature and phase change of components. However, current diagnostic methods are limited in their ability due to the invasive nature of probes or the requirement of coatings and optical access to the component. Our proposed developments overcome these challenges by utilizing X-rays to directly measure the objects temperature. Variable-Temperature X-ray Diffraction (VT-XRD) was performed over a wide range of temperatures and diffraction angles and was performed on several materials to analyze the patterns of the bulk materials for sensitivity. "High-speed" VT-XRD was then performed for a single material over a small range of diffraction angles to see how fast the experiments could be performed, whilst still maintaining peaks sufficiently large enough for analysis.

36 MATERIALS SCIENCE↗

DOE OSTI2019

The Genetic Architecture of Shoot and Root Trait Divergence Between Mesic and Xeric Ecotypes of a Perennial Grass

Environmental heterogeneity can drive patterns of functional trait variation and lead to the formation of locally adapted ecotypes. Plant ecotypes are often differentiated by suites of correlated root and shoot traits that share common genetic, developmental, and physiological relationships. For instance, although plant water loss is largely governed by shoot systems, root systems determine water access and constrain shoot water status. To evaluate the genetic basis of root and shoot trait divergence, we developed a recombinant inbred population derived from mesic and xeric ecotypes of the perennial grass Panicum hallii. Our study sheds light on the genetic architecture underlying the relationships between root and shoot traits. We identified several genomic “hotspots” which control suites of correlated root and shoot traits, thus indicating genetic coordination between plant organ systems in the process of ecotypic divergence. Genomic regions of colocalized quantitative trait locus (QTL) for the majority of shoot and root growth related traits were independent of colocalized QTL for shoot and root resource acquisition traits. The allelic effects of individual QTL underscore ecological specialization for drought adaptation between ecotypes and reveal possible hybrid breakdown through epistatic interactions. These results have implications for understanding the factors constraining or facilitating local adaptation in plants.

epistasis↗

NASA NTRSDate not supplied

Natural Language Processing for Extracting Rich Disease Data Aligned To Satellite Meteorological Data

Global climate change is redefining our understanding of how diseases spread. In Sri Lanka, vector-borne diseases such as dengue fever, encephalitis, and leptospirosis historically surged during the monsoon seasons when temperatures were high enough for mosquito eggs to hatch. Unfortunately, due to rising temperatures and more erratic rainfall patterns, mosquito eggs can now hatch year-round and are increasingly unpredictable, leading to an alarmingly increasing number of hospitalizations and deaths. More data is needed to adapt our response to these diseases in an increasingly warmer world. In the contemporary landscape, a wealth of disease information is available, yet accessibility remains limited due to unstructured data formats such as PDFs. Therefore, converting unstructured disease reports into structured formats is necessary for effectively leveraging data. This paper introduces a comprehensive framework for collecting unstructured disease reports and transforming them into analyzable formats. By creating separate models tailored to each data format, we can ensure accuracy compared to general models. These straightforward models enhance accessibility and empower other researchers to use our tools. The returned structured data can then be harnessed for analysis, statistical purposes, and informing evidence-based public health interventions, thus facilitating more informed decision-making in healthcare. We deploy this framework to produce geospatial data for Sri Lanka and Brazil for many different conditions and align these data with satellite environmental data, providing for the first time a structured, aligned powerful dataset for disease modeling.

Open Source Open Science↗

DOE OSTI2016

Parameter-free determination of the exchange constant in thin films using magnonic patterning

An all-electrical method is presented to determine the exchange constant of magnetic thin films using ferromagnetic resonance. For films of 20 nm thickness and below, the determination of the exchange constant A, a fundamental magnetic quantity, is anything but straightforward. Among others, the most common methods are based on the characterization of perpendicular standing spin-waves. These approaches are however challenging, due to (i) very high energies and (ii) rather small intensities in this thickness regime. In the presented approach, surface patterning is applied to a permalloy (Ni{sub 80}Fe{sub 20}) film and a Co{sub 2}Fe{sub 0.4}Mn{sub 0.6}Si Heusler compound. Acting as a magnonic crystal, such structures enable the coupling of backward volume spin-waves to the uniform mode. Subsequent ferromagnetic resonance measurements give access to the spin-wave spectra free of unquantifiable parameters and, thus, to the exchange constant A with high accuracy.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2014

Techno-Economic Analysis of BEVs with Fast Charging Infrastructure: Preprint

Battery electric vehicles (BEVs) offer the potential to reduce both oil imports and greenhouse gas emissions, but high upfront costs, battery-limited vehicle range, and concern over high battery replacement costs may discourage many potential purchasers. One proposed solution is to employ a subscription model under which a service provider assumes ownership of the battery while providing access to vast fast charging infrastructure. Thus, high upfront and subsequent battery replacement costs are replaced by a predictable monthly fee, and battery-limited range is replaced by a larger infrastructure-limited range. Assessing the costs and benefits of such a proposal are complicated by many factors, including customer drive patterns, the amount of required infrastructure, and battery life. Herein the National Renewable Energy Laboratory applies its Battery Ownership Model to address these challenges and compare the economics and utility of a BEV fast charging service plan to a traditional direct ownership option. In single vehicle households, where such a service is most valuable, we find that operating a BEV under a fast charge service plan can be more cost-effective than direct ownership of a BEV, but it is rarely more cost-effective than direct ownership of a conventional vehicle.

25 ENERGY STORAGE↗