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At least 1,657 records · Page 92

The parallelism motifs of genomic data analysis

Genomic datasets are growing dramatically as the cost of sequencing continues to decline and small sequencing devices become available. Enormous community databases store and share these data with the research community, but some of these genomic data analysis problems require large-scale computational platforms to meet both the memory and computational requirements. These applications differ from scientific simulations that dominate the workload on high-end parallel systems today and place different requirements on programming support, software libraries and parallel architectural design. For example, they involve irregular communication patterns such as asynchronous updates to shared data structures. We consider several problems in high-performance genomics analysis, including alignment, profiling, clustering and assembly for both single genomes and metagenomes. We identify some of the common computational patterns or ‘motifs’ that help inform parallelization strategies and compare our motifs to some of the established lists, arguing that at least two key patterns, sorting and hashing, are missing. This article is part of a discussion meeting issue ‘Numerical algorithms for high-performance computational science’.

59 BASIC BIOLOGICAL SCIENCES↗

Efficient data reduction for time-of-flight neutron scattering experiments on single crystals

Event-mode data collection presents remarkable new opportunities for time-of-flight neutron scattering studies of collective excitations, diffuse scattering from short-range atomic and magnetic structures, and neutron crystallography. In these experiments, large volumes of the reciprocal space are surveyed, often using different wavelengths and counting times. These data then have to be added together, with accurate propagation of the counting errors. This paper presents a statistically correct way of adding and histogramming the data for single-crystal time-of-flight neutron scattering measurements. In order to gain a broader community acceptance, particular attention is given to improving the efficiency of calculations.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Simulations of Water Vapor in the Upper Troposphere and Lower Stratosphere

A detailed study of the water vapor budget in the upper troposphere and lower stratosphere of the "Finite Volume CCM3" (FVCCM3) model is presented. The model is based on a combination of a finite-volume dynamical core (developed by Lin and Rood) and the physical package from Version 3 of the Community Climate Model (CCM3, developed at NCAR). The model was used with a horizontal resolution of 2 by 2.5 degrees and 55 levels, with the upper boundary at 0.0lhPa and a vertical resolution of about 1.2km near the tropopause. Most results presented are from a 17-year simulation performed for the Atmospheric Model Intercomparison Project. It is shown that the model simulates a realistic thermal structure in the tropical tropopause region and that water vapor distributions are in qualitative accord with observations (which are uncertain). The longitudinal structure of the tropical atmosphere is slightly too asymmetric, compared to reasonable estimates of the truth. The processes leading to the horizontal and vertical transport of water vapor in the tropopause region are analyzed in detail. Special attention is given to the realism of horizontal transport events (the ability of the model to retain sharply defined features) and to the role of localized vertical motions in transporting air (and water vapor) between the troposphere and stratosphere. It is shown that the vertical transport of water vapor in the tropical lower stratosphere occurs at about the same rate as that observed, while in many other models this vertical transport is too fast.

Pawson, Steven↗

1999 NASA High-Speed Research Program Aerodynamic Performance Workshop: Configuration Aerodynamics - Volume 1

NASA's High-Speed Research Program sponsored the 1999 Aerodynamic Performance Technical Review on February 8-12, 1999 in Anaheim, California. The review was designed to bring together NASA and industry High-Speed Civil Transport (HSCT) Aerodynamic Performance technology development participants in the areas of Configuration Aerodynamics (transonic and supersonic cruise drag prediction and minimization), High Lift, and Flight Controls. The review objectives were to: (1) report the progress and status of HSCT aerodynamic performance technology development; (2) disseminate this technology within the appropriate technical communities; and (3) promote synergy among the scientists and engineers working on HSCT aerodynamics. In particular, single and midpoint optimized HSCT configurations, HSCT high-lift system performance predictions, and HSCT simulation results were presented, along with executive summaries for all the Aerodynamic Performance technology areas. The HSR Aerodynamic Performance Technical Review was held simultaneously with the annual review of the following airframe technology areas: Materials and Structures, Environmental Impact, Flight Deck, and Technology Integration. Thus, a fourth objective of the Review was to promote synergy between the Aerodynamic Performance technology area and the other technology areas of the HSR Program. This Volume 1/Part 1 publication covers configuration aerodynamics.

Hahne, David E.↗

1999 NASA High-Speed Research Program Aerodynamic Performance Workshop: Configuration Aerodynamics - Volume 1

NASA's High-Speed Research Program sponsored the 1999 Aerodynamic Performance Technical Review on February 8-12, 1999 in Anaheim, California. The review was designed to bring together NASA and industry High-Speed Civil Transport (HSCT) Aerodynamic Performance technology development participants in the areas of Configuration Aerodynamics (transonic and supersonic cruise drag prediction and minimization), High Lift, and Flight Controls. The review objectives were to (1) report the progress and status of HSCT aerodynamic performance technology development; (2) disseminate this technology within the appropriate technical communities; and (3) promote synergy among the scientists and engineers working on HSCT aerodynamics. In particular, single and midpoint optimized HSCT configurations, HSCT high-lift system performance predictions, and HSCT simulation results were presented, along with executive summaries for all the Aerodynamic Performance technology areas. The HSR Aerodynamic Performance Technical Review was held simultaneously with the annual review of the following airframe technology areas: Materials and Structures, Environmental Impact, Flight Deck, and Technology Integration. Thus, a fourth objective of the Review was to promote synergy between the Aerodynamic Performance technology area and the other technology areas of the HSR Program. This Volume 1/Part 2 publication covers the design optimization and testing sessions.

Hahne, David E.↗

1999 NASA High-Speed Research Program Aerodynamic Performance Workshop: High Lift - Volume 2

NASA's High-Speed Research Program sponsored the 1999 Aerodynamic Performance Technical Review on February 8-12, 1999 in Anaheim, California. The review was designed to bring together NASA and industry High-Speed Civil Transport (HSCT) Aerodynamic Performance technology development participants in the areas of Configuration Aerodynamics (transonic and supersonic cruise drag prediction and minimization), High Lift, and Flight Controls. The review objectives were to (1) report the progress and status of HSCT aerodynamic performance technology development; (2) disseminate this technology within the appropriate technical communities; and (3) promote synergy among die scientists and engineers working on HSCT aerodynamics. In particular, single and midpoint optimized HSCT configurations, HSCT high-lift system performance predictions, and HSCT simulation results were presented, along with executive summaries for all the Aerodynamic Performance technology areas. The HSR Aerodynamic Performance Technical Review was held simultaneously with the annual review of the following airframe technology areas: Materials and Structures, Environmental Impact, Flight Deck, and Technology Integration. Thus, a fourth objective of the Review was to promote synergy between the Aerodynamic Performance technology area and the other technology areas of the HSR Program. This Volume 2/Part 2 publication covers the tools and methods development session.

Hahne, David E.↗

Structural Life and Reliability Metrics: Benchmarking and Verification of Probabilistic Life Prediction Codes

Over the past two decades there has been considerable effort by NASA Glenn and others to develop probabilistic codes to predict with reasonable engineering certainty the life and reliability of critical components in rotating machinery and, more specifically, in the rotating sections of airbreathing and rocket engines. These codes have, to a very limited extent, been verified with relatively small bench rig type specimens under uniaxial loading. Because of the small and very narrow database the acceptance of these codes within the aerospace community has been limited. An alternate approach to generating statistically significant data under complex loading and environments simulating aircraft and rocket engine conditions is to obtain, catalog and statistically analyze actual field data. End users of the engines, such as commercial airlines and the military, record and store operational and maintenance information. This presentation describes a cooperative program between the NASA GRC, United Airlines, USAF Wright Laboratory, U.S. Army Research Laboratory and Australian Aeronautical & Maritime Research Laboratory to obtain and analyze these airline data for selected components such as blades, disks and combustors. These airline data will be used to benchmark and compare existing life prediction codes.

Litt, Jonathan S.↗

The future low-temperature geochemical data-scape as envisioned by the U.S. geochemical community

Data sharing benefits the researcher, the scientific community, and the public by allowing the impact of data to be generalized beyond one project and by making science more transparent. However, many scientific communities have not developed protocols or standards for publishing, citing, and versioning datasets. One community that lags in data management is that of low-temperature geochemistry (LTG). This paper resulted from an initiative from 2018 through 2020 to convene LTG and data scientists in the U.S. to strategize future management of LTG data. Through webinars, a workshop, a preprint, a townhall, and a community survey, the group of U.S. scientists discussed the landscape of data management for LTG – the data-scape. Currently this data-scape includes a “street bazaar” of data repositories. This was deemed appropriate in the same way that LTG scientists publish articles in many journals. The variety of data repositories and journals reflect that LTG scientists target many different scientific questions, produce data with extremely different structures and volumes, and utilize copious and complex metadata. Nonetheless, the group agreed that publication of LTG science must be accompanied by sharing of data in publicly accessible repositories, and, for sample-based data, registration of samples with globally unique persistent identifiers. LTG scientists should use certified data repositories that are either highly structured databases designed for specialized types of data, or unstructured generalized data systems. Recognizing the need for tools to enable search and cross-referencing across the proliferating data repositories, the group proposed that the overall data informatics paradigm in LTG should shift from “build data repository, data will come” to “publish data online, cybertools will find”. Funding agencies could also provide portals for LTG scientists to register funded projects and datasets, and forge approaches that cross national boundaries. Finally, the needed transformation of the LTG data culture requires emphasis in student education on science and management of data.

58 GEOSCIENCES↗

Non-structural carbohydrates mediate seasonal water stress across Amazon forests

Non-structural carbohydrates (NSC) are major substrates for plant metabolism and have been implicated in mediating drought-induced tree mortality. Despite their significance, NSC dynamics in tropical forests remain little studied. We present leaf and branch NSC data for 82 Amazon canopy tree species in six sites spanning a broad precipitation gradient. During the wet season, total NSC (NSC T ) concentrations in both organs were remarkably similar across communities. However, NSC T and its soluble sugar (SS) and starch components varied much more across sites during the dry season. Notably, the proportion of leaf NSC T in the form of SS (SS:NSC T ) increased greatly in the dry season in almost all species in the driest sites, implying an important role of SS in mediating water stress in these sites. This adjustment of leaf NSC balance was not observed in tree species less-adapted to water deficit, even under exceptionally dry conditions. Thus, leaf carbon metabolism may help to explain floristic sorting across water availability gradients in Amazonia and enable better prediction of forest responses to future climate change.

54 ENVIRONMENTAL SCIENCES↗

tomoCAM : fast model-based iterative reconstruction via GPU acceleration and non-uniform fast Fourier transforms

X-ray-based computed tomography is a well established technique for determining the three-dimensional structure of an object from its two-dimensional projections. In the past few decades, there have been significant advancements in the brightness and detector technology of tomography instruments at synchrotron sources. These advancements have led to the emergence of new observations and discoveries, with improved capabilities such as faster frame rates, larger fields of view, higher resolution and higher dimensionality. These advancements have enabled the material science community to expand the scope of tomographic measurements towards increasingly in situ and in operando measurements. In these new experiments, samples can be rapidly evolving, have complex geometries and restrictions on the field of view, limiting the number of projections that can be collected. In such cases, standard filtered back-projection often results in poor quality reconstructions. Iterative reconstruction algorithms, such as model-based iterative reconstructions (MBIR), have demonstrated considerable success in producing high-quality reconstructions under such restrictions, but typically require high-performance computing resources with hundreds of compute nodes to solve the problem in a reasonable time. Here, tomoCAM , is introduced, a new GPU-accelerated implementation of model-based iterative reconstruction that leverages non-uniform fast Fourier transforms to efficiently compute Radon and back-projection operators and asynchronous memory transfers to maximize the throughput to the GPU memory. The resulting code is significantly faster than traditional MBIR codes and delivers the reconstructive improvement offered by MBIR with affordable computing time and resources. tomoCAM has a Python front-end, allowing access from Jupyter -based frameworks, providing straightforward integration into existing workflows at synchrotron facilities.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

A Systematic Approach to Developing Sustainable Post-Disaster Shelters in the Southern Region of the United States

This study aims to propose a sustainable shelter design involving energy savings, less environmental impact, and rapid construction. The structural design of the shelter is based on 3D-printing technology. Sustainability assessments, including life cycle analysis (LCA), life cycle energy assessment (LCEA), and energy justice of the designed shelter, were conducted to prove the sustainable shelter design. The outcomes of this study for several scenarios will not only allow decision-makers to design permanent shelters with maximized utilization of limited resources but also help local communities strengthen their ability to recover with minimal outside assistance post-disaster. Furthermore, residents can utilize the sustainable shelter to maintain critical functions, including business continuity and local business in emergencies.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Simplified signal processing for an airborne CO2 Doppler lidar

In the development of the National Center for Atmospheric Research (NCAR) airborne infrared lidar system (NAILS), we have emphasized a simple, modular design to suit the instrument to its mission of providing measurements of atmospheric structure and dynamics from an aircraft platform. Based on our research to this point, we believe that a significant simplification of the signal processing approach compared to that now used is possible by using high speed digitization of the signal. The purpose here is to place signal processing in the context of the overall system design and to explore the basis of the alternative technique so that the community can comment on the approach.

Schwiesow, R. L.↗

1998 NASA High-Speed Research Program Aerodynamic Performance Workshop: Configuration Aerodynamics - Volume 1

NASA's High-Speed Research Program sponsored the 1998 Aerodynamic Performance Technical Review on February 9-13, in Los Angeles, California. The review was designed to bring together NASA and industry HighSpeed Civil Transport (HSCT) Aerodynamic Performance technology development participants in areas of. Configuration Aerodynamics (transonic and supersonic cruise drag prediction and minimization), High-Lift, and Flight Controls. The review objectives were to: (1) report the progress and status of HSCT aerodynamic performance technology development; (2) disseminate this technology within the appropriate technical communities; and (3) promote synergy among the scientists and engineers working HSCT aerodynamics. In particular, single and multi-point optimized HSCT configurations, HSCT high-lift system performance predictions, and HSCT simulation results were presented along with executive summaries for all the Aerodynamic Performance technology areas. The HSR Aerodynamic Performance Technical Review was held simultaneously with the annual review of the following airframe technology areas: Materials and Structures, Environmental Impact, Flight Deck, and Technology Integration. Thus, a fourth objective of the Review was to promote synergy between the Aerodynamic Performance technology area and the other technology areas of the HSR Program.

High-speed research↗

1998 NASA High-Speed Research Program Aerodynamic Performance Workshop: High Lift - Volume 2

NASA's High-Speed Research Program sponsored the 1998 Aerodynamic Performance Technical Review on February 9-13, in Los Angeles, California. The review was designed to bring together NASA and industry High-Speed Civil Transport (HSCT) Aerodynamic Performance technology development participants in areas of Configuration Aerodynamics (transonic and supersonic cruise drag prediction and minimization), High-Lift, and Flight Controls. The review objectives were to (1) report the progress and status of HSCT aerodynamic performance technology development; (2) disseminate this technology within the appropriate technical communities; and (3) promote synergy among the scientists and engineers working HSCT aerodynamics. In particular, single- and multi-point optimized HSCT configurations, HSCT high-lift system performance predictions, and HSCT simulation results were presented along with executive summaries for all the Aerodynamic Performance technology areas. The HSR Aerodynamic Performance Technical Review was held simultaneously with the annual review of the following airframe technology areas: Materials and Structures, Environmental Impact, Flight Deck, and Technology Integration. Thus, a fourth objective of the Review was to promote synergy between the Aerodynamic Performance technology area and the other technology areas of the HSR Program.

S. Naomi Mcmillin↗

1998 NASA High-Speed Research Program Aerodynamic Performance Workshop: Configuration Aerodynamics - Volume 1

NASA's High-Speed Research Program sponsored the 1998 Aerodynamic Performance Technical Review on February 9-13, in Los Angeles, California. The review was designed to bring together NASA and industry High-Speed Civil Transport (HSCT) Aerodynamic Performance technology development participants in areas of Configuration Aerodynamics (transonic and supersonic cruise drag prediction and minimization), High-Lift, and Flight Controls. The review objectives were to (1) report the progress and status of HSCT aerodynamic performance technology development; (2) disseminate this technology within the appropriate technical communities; and (3) promote synergy among the scientists and engineers working HSCT aerodynamics. In particular, single and multi-point optimized HSCT configurations, HSCT high-lift system performance predictions, and HSCT simulation results were presented along with executive summaries for all the Aerodynamic Performance technology areas. The HSR Aerodynamic Performance Technical Review was held simultaneously with the annual review of the following airframe technology areas: Materials and Structures, Environmental Impact, Flight Deck, and Technology Integration. Thus, a fourth objective of the Review was to promote synergy between the Aerodynamic Performance technology area and the other technology areas of the HSR Program.

McMillin, S. Naomi↗

NASA's Quiet Aircraft Technology Project

NASA's Quiet Aircraft Technology Project is developing physics-based understanding, models and concepts to discover and realize technology that will, when implemented, achieve the goals of a reduction of one-half in perceived community noise (relative to 1997) by 2007 and a further one-half in the far term. Noise sources generated by both the engine and the airframe are considered, and the effects of engine/airframe integration are accounted for through the propulsion airframe aeroacoustics element. Assessments of the contribution of individual source noise reductions to the reduction in community noise are developed to guide the work and the development of new tools for evaluation of unconventional aircraft is underway. Life in the real world is taken into account with the development of more accurate airport noise models and flight guidance methodology, and in addition, technology is being developed that will further reduce interior noise at current weight levels or enable the use of lighter-weight structures at current noise levels.

Whitfield, Charlotte E.↗

Community Engagement - A Citizen-Centric Approach to Seeking a Social License - 20017

The long regulatory road has finally been completed-after years of effort a Record of Decision has been signed and a Permit to Construct has been granted or a Permit to Operate has been obtained. But what about the other road that should be taken in parallel-community engagement? Working with the public is not a sequential activity, rather it is a consequential one and needs to be integrated with overall project planning. Unless you have effectively, meaningfully, and patiently engaged with the project's communities of impact, you may find your project trying to obtain a social license or a social license to operate (SLO). The SLO has its origins in the mining industry and its roots in the business model of corporate social responsibility and sustainability. These latter practices are well known to the US DOE and its contractor community. Aspects of the SLO are emerging as individuals and communities are becoming more informed and have increased expectations for being able to influence and shape decisions. When local community issues are not sought out, listened to, or addressed early, and questions are left unanswered, they can become agenda items for larger unaffiliated groups, and project loss (through delays and/or cancellation) can occur. Issues can transition from resolvable to intractable, a type of SLO face-off. Social media campaigns, serial negative media coverage, and protest signs at project sites opposing regulatory decisions already made are no longer anomalies. These types of incidents demonstrate the increasingly delicate relationship between approved regulatory/technical decisions and public acceptance of those decisions. A SLO is not a requirement. However, the building-blocks of a SLO - working with members of affected communities to build understanding, potentially to obtain and maintain community acceptance or even gain approval or support - are evidence of leadership by project sponsors. Actions taken, or not taken, by project sponsors truly have the ability to influence an outcome. While projects are not assured of success or failure, engaging the community in an empowered process is an investment of time and resources toward success for the project and thus for the communities of impact. Authors Note: Extensive literature searches were performed in developing this paper. The majority of the published literature on SLO as a 'movement' was found from sources in Canada, the European Union (Germany and France in particular), South Asia, South Korea, and many Latin American countries. The literature addressed resource development (mining), infrastructure, and energy projects. Articles written by US sources often spoke to origins and structural theory, specific project issues such as Not in My Back Yard (NIMBY) and to protests/demonstrations related to those projects, rather than systemic opposition/conflict phenomena. For these reasons many international SLO experiences and sources are cited in the discussion. The authors recognize these non-US experiences with SLO as having a 'forecast' value to US projects, especially those related to nuclear projects of any type, waste treatment and disposal, energy development (especially fossil fuels as well as alternative sources), mining, and infrastructure. The body of future SLO experiences in the US will shape the future responses to it. (authors)

99 GENERAL AND MISCELLANEOUS↗

Salt marsh soil organic carbon is regulated by drivers of microbial activity

Abstract Soil organic carbon is the foundation for soil health and a livable climate. Organic carbon is concentrated in coastal wetland soils, but dynamics that govern carbon persistence in coastal ecosystems remain incompletely understood. Whether microbial activity results in a gain or loss of carbon depends on environmental conditions that regulate microbial community attributes. We sought to identify which drivers of microbial activity have the greatest impact on organic carbon content in salt marsh soils. To address this question, we used the PRISMA (Preferred Reporting Items for Systematic reviews and Meta-analyses) statement to compile data on soil and ecosystem characteristics from 50 studies of over 60 salt marshes located around the world. We conducted a meta-analysis with structural equation modeling, including mediation and moderation analyses, to identify environmental drivers of salt marsh soil organic carbon content. High salinity, pH, nitrogen, and phosphorus were associated with increased microbial biomass carbon and soil organic carbon. Correlations between microbial biomass and organic carbon were strengthened by soil salinity and nitrogen, and weakened by soil water content. These results suggest that environmental conditions that control microbial growth and activity have potential to preserve or degrade organic carbon in salt marsh soils.

Erb, Hailey (ORCID:0000000337295634)↗