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DOE OSTI2024

Congruity of genomic and epidemiological data in modelling of local cholera outbreaks

Cholera continues to be a global health threat. Understanding how cholera spreads between locations is fundamental to the rational, evidence-based design of intervention and control efforts. Traditionally, cholera transmission models have used cholera case-count data. More recently, whole-genome sequence data have qualitatively described cholera transmission. Integrating these data streams may provide much more accurate models of cholera spread; however, no systematic analyses have been performed so far to compare traditional case-count models to the phylodynamic models from genomic data for cholera transmission. Here, we use high-fidelity case-count and whole-genome sequencing data from the 1991 to 1998 cholera epidemic in Argentina to directly compare the epidemiological model parameters estimated from these two data sources. We find that phylodynamic methods applied to cholera genomics data provide comparable estimates that are in line with established methods. Our methodology represents a critical step in building a framework for integrating case-count and genomic data sources for cholera epidemiology and other bacterial pathogens.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2008

Performance of a Local Mesoscale Model with Data Denial

Forecasters at the 45th Weather Squadron (45 WS) use observations from the Kennedy Space Center (KSC) and Cape Canaveral Air Force Station (CCAFS) wind tower network and daily rawinsonde observations (RAOB) to issue and verify wind advisories, watches, and warnings for operations. They are also used by the Spaceflight Meteorology Group and Melbourne, Florida National Weather Service to initialize locally run mesoscale models. Due to impending budget cuts, some or all of the mainland wind towers and RAOBs may be eliminated, The loss of these data may significantly impact the forecast capability of the 45 WS and SMG. The Applied Meteorology Unit (AMU) was tasked to conduct an objective independent modeling study to determine how important these observations are to the accuracy of the model output used by the forecasters as input to their forecasts. To accomplish this, the AMU performed a sensitivity study using the Weather Research and Forecasting (WRF) model run with and without KSC/CCAFS wind tower and CCAFS RAOB observations and assessed the accuracy of model forecasts by comparing them to the observations.

Watson, Leela↗

NASA NTRS1981

Stagnation region gas film cooling: Spanwise angled injection from multiple rows of holes

The stagnation region of a cylinder in a cross flow was used in experiments conducted with both a single row and multiple rows of spanwise angled (25 deg) coolant holes for a range of the coolant blowing ratio with a freestream to wall temperature ratio approximately equal to 1.7 and R(eD) = 90,000. Data from local heat flux measurements are presented for injection from a single row located at 5 deg, 22.9 deg, 40.8 deg, 58.7 deg from stagnation using a hole spacing ratio of S/d(o) = 5 and 10. Three multiple row configurations were also investigated. Data are presented for a uniform blowing distribution and for a nonuniform blowing distribution simulating a plenum supply. The data for local Stanton Number reduction demonstrated a lack of lateral spreading by the coolant jets. Heat flux levels larger than those without film cooling were observed directly behind the coolant holes as the blowing ratio exceeded a particular value. The data were spanwise averaged to illustrate the influence of injection location, blowing ratio and hole spacing. The large values of blowing ratio for the blowing distribution simulating a plenum supply resulted in heat flux levels behind the holes in excess of the values without film cooling. An increase in freestream turbulence intensity from 4.4 to 9.5 percent had a negligible effect on the film cooling performance.

Luckey, D. W.↗

DOE OSTI2021

On the prescription of boundary conditions for nonlocal Poisson's and peridynamics models

We introduce a technique to automatically convert local boundary conditions into nonlocal volume constraints for nonlocal Poisson’s and peridynamic models. The proposed strategy is based on the approximation of nonlocal Dirichlet or Neumann data with a local solution obtained by using available boundary, local data. The corresponding nonlocal solution converges quadratically to the local solution as the nonlocal horizon vanishes, making the proposed technique asymptotically compatible. The proposed conversion method does not have any geometry or dimensionality constraints and its computational cost is negligible, compared to the numerical solution of the nonlocal equation. The consistency of the method and its quadratic convergence with respect to the horizon is illustrated by several two-dimensional numerical experiments conducted by meshfree discretization for both the Poisson’s problem and the linear peridynamic solid model.

97 MATHEMATICS AND COMPUTING↗

NASA NTRS1990

A global view of lander-to-orbiter communications accessibility for a Mars Global Network Mission

Given the mission objective to deploy a number of small landers to the surface of Mars at various latitude/longitude locations, it is of interest to obtain a global perspective of the communications link geometry between the landers and a data relay orbiter. Specifically, the question to be answered is what is the total time interval over one Martian day (1 sol) that a lander at any given latitude and longitude can communicate data to the orbiter. Results should be obtained for more than one elevation angle constraint (lander antenna design issue), and also for several time points into the mission since the orbiter's periapsis location moves under the influence of Mars' oblateness perturbation. Such information is presented in terms of global contour maps of available communications time per sol summed over all orbiter pases on that day. Global data of this type complements more detailed local site data such as communications range and elevation vs time per pass. Communications time contour maps are included here for sol grids of 180, 232, 318, 361, and 404 corresponding to orbiter periapsis latitudes of 35 S, 90 S, equatorial, 45 N, and 90 N. For each of these days, there is a map for both a 15 deg and 45 deg minimum elevation constraint on the lander-to-orbiter line of sight. The jagged appearance of the contour lines is due to computational resolution in interpolating between a finite number of latitude/longitude grid points. Although the contours should really be smooth, the general information content is represented by the lower resolution maps shown here. An example of the tabulated, finite-grid data points is also given. Communication with all sites is possible at the 15 deg elevation constraint, at times only for several minutes per sol but more generally for a much longer time up to 14 hours per sol. Significantly less time is available with a 45 deg elevation constraint, and at certain times in the mission some localized regions of the planet are inaccessible. Still, one may conclude that the reference orbit selection will support a more than adequate communications link through the mission timeline with landers emplaced at any desired location on Mars.

Friedlander, Alan L.↗

NASA NTRS1973

Local skin friction coefficients and boundary layer profiles obtained in flight from the XB-70-1 airplane at Mach numbers up to 2.5

Boundary-layer and local friction data for Mach numbers up to 2.5 and Reynolds numbers up to 3.6 x 10 to the 8th power were obtained in flight at three locations on the XB-70-1 airplane: the lower forward fuselage centerline (nose), the upper rear fuselage centerline, and the upper surface of the right wing. Local skin friction coefficients were derived at each location by using (1) a skin friction force balance, (2) a Preston probe, and (3) an adaptation of Clauser's method which derives skin friction from the rake velocity profile. These three techniques provided consistent results that agreed well with the von Karman-Schoenherr relationship for flow conditions that are quasi-two-dimensional. At the lower angles of attack, the nose-boom and flow-direction vanes are believed to have caused the momentum thickness at the nose to be larger than at the higher angles of attack. The boundary-layer data and local skin friction coefficients are tabulated. The wind-tunnel-model surface-pressure distribution ahead of the three locations and the flight surface-pressure distribution ahead of the wing location are included.

Fisher, D. F.↗

NASA NTRS2021

Patched Local Lunar Gravity Solutions using GRAIL Data

We present a method to determine local gravity fields for the Moon using Gravity Recovery and Interior Laboratory (GRAIL) data. We express gravity as gridded gravity anomalies on a sphere, and we estimate adjustments to a background global start model expressed in spherical harmonics. We processed GRAIL Ka-band range-rate data with a short-arc approach, using only data over the area of interest. We determine our gravity solutions using neighbor smoothing constraints. We divided the entire Moon into twelve regions and two polar caps, with a resolution of 0.15˚ x 0.15˚ (which is equivalent to degree and order 1199 in spherical harmonics), and determined the optimal smoothing parameter for each area by comparing localized correlations between gravity and topography for each solution set. Our selected areas share nodes with surrounding areas and they are overlapping. To mitigate boundary effects, we patch the solutions together by symmetrically omitting the boundary parts of overlapping solutions. Our new solution has been iterated, and it has improved correlations with topography when compared to a fully iterated global model. Our method requires fewer resources, and can easily handle regionally varying resolution or constraints. The smooth model describes small-scale features clearly, and can be used in local studies of the structure of the lunar crust.

Sander Goossens↗

DOE OSTI2016

Sensor network based solar forecasting using a local vector autoregressive ridge framework

The significant improvements and falling costs of photovoltaic (PV) technology make solar energy a promising resource, yet the cloud induced variability of surface solar irradiance inhibits its effective use in grid-tied PV generation. Short-term irradiance forecasting, especially on the minute scale, is critically important for grid system stability and auxiliary power source management. Compared to the trending sky imaging devices, irradiance sensors are inexpensive and easy to deploy but related forecasting methods have not been well researched. The prominent challenge of applying classic time series models on a network of irradiance sensors is to address their varying spatio-temporal correlations due to local changes in cloud conditions. We propose a local vector autoregressive framework with ridge regularization to forecast irradiance without explicitly determining the wind field or cloud movement. By using local training data, our learned forecast model is adaptive to local cloud conditions and by using regularization, we overcome the risk of overfitting from the limited training data. Our systematic experimental results showed an average of 19.7% RMSE and 20.2% MAE improvement over the benchmark Persistent Model for 1-5 minute forecasts on a comprehensive 25-day dataset.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2021

Exploiting user activeness for data retention in HPC systems

HPC systems typically rely on the fixed-lifetime (FLT) data retention strategy, which only considers temporal locality of data accesses to parallel file systems. However, our extensive analysis based on the leadership-class HPC system traces suggests that the FLT approach often fails to capture the dynamics in users' behavior and leads to undesired data purge. In this study, we propose an activeness-based data retention (ActiveDR) solution, which advocates considering the data retention approach from a holistic activeness-based perspective. By evaluating the frequency and impact of users' activities, ActiveDR prioritizes the file purge process for inactive users and rewards active users with extended file lifetime on parallel storage. Our extensive evaluations based on the traces of the prior Titan supercomputer show that, when reaching the same purge target, ActiveDR achieves up to 37% file miss reduction as compared to the current FLT retention methodology.

Zhang, Wei↗

NASA NTRS2004

Sample Return Science by Hayabusa Near-Earth Asteroid Mission

Assigning the material species to each asteroid spectral type and finding out the corresponding meteorite category is crucial to make the global material map in the whole asteroid belt and to understand the evolution of the asteroid belt. Recent direct observations by spacecrafts are revealing new intriguing aspects of asteroids which cannot be obtained solely from ground-based observations or meteorite studies. However identification of the real material species constituting asteroids and their corresponding meteorite analogs are still ambiguous. Space weathering makes difficult to identify the true material, and there is still a great gap between the remote sensing data on the global surface and the local microscopic data from meteorites. Sample return from asteroids are inevitable to solve these problems. For this purpose sample return missions to asteroids belonging to various spectral classes are required. The HAYABUSA spacecraft (prelaunch name is MUSESC) launched last year is the first attempt on this concept. This report presents outline of the mission with special stress on its science.

Fujiwara, A.↗

NASA NTRS1988

Symmetrization for redundant channels

A plurality of redundant channels in a system each contain a global image of all the configuration data bases in each of the channels in the system. Each global image is updated periodically from each of the other channels via cross channel data links. The global images of the local configuration data bases in each channel are separately symmetrized using a voting process to generate a system signal configuration data base which is not written into by any other routine and is available for indicating the status of the system within each channel. Equalization may be imposed on a suspect signal and a number of chances for that signal to heal itself are provided before excluding it from future votes. Reconfiguration is accomplished upon detecting a channel which is deemed invalid. A reset function is provided which permits an externally generated reset signal to permit a previously excluded channel to be reincluded within the system. The updating of global images and/or the symmetrization process may be accomplished at substantially the same time within a synchronized time frame common to all channels.

Tulplue, Bhalchandra R.↗

DOE OSTI2016

The Medical Science DMZ

Objective We describe use cases and an institutional reference architecture for maintaining high-capacity, data-intensive network flows (e.g., 10, 40, 100 Gbpsþ) in a scientific, medical context while still adhering to security and privacy laws and regulations. Materials and Methods High-end networking, packet filter firewalls, network intrusion detection systems. Results We describe a “Medical Science DMZ” concept as an option for secure, high-volume transport of large, sensitive data sets between research institutions over national research networks. Discussion The exponentially increasing amounts of “omics” data, the rapid increase of high-quality imaging, and other rapidly growing clinical data sets have resulted in the rise of biomedical research “big data.” The storage, analysis, and network resources required to process these data and integrate them into patient diagnoses and treatments have grown to scales that strain the capabilities of academic health centers. Some data are not generated locally and cannot be sustained locally, and shared data repositories such as those provided by the National Library of Medicine, the National Cancer Institute, and international partners such as the European Bioinformatics Institute are rapidly growing. The ability to store and compute using these data must therefore be addressed by a combination of local, national, and industry resources that exchange large data sets. Maintaining data-intensive flows that comply with HIPAA and other regulations presents a new challenge for biomedical research. Recognizing this, we describe a strategy that marries performance and security by borrowing from and redefining the concept of a “Science DMZ”—a framework that is used in physical sciences and engineering research to manage high-capacity data flows. Conclusion By implementing a Medical Science DMZ architecture, biomedical researchers can leverage the scale provided by high-performance computer and cloud storage facilities and national high-speed research networks while preserving privacy and meeting regulatory requirements.

97 MATHEMATICS AND COMPUTING↗

NASA NTRS1983

Stagnation region gas film cooling: Effects of dimensionless coolant temperature

An experimental investigation was conducted to mode the film cooling performance for a turbine vane leading edge using the stagnation region of a cylinder in cross flow. Experiments were conducted with a single row of spanwise angled (25 deg) coolant holes for a range of the coolant blowing ratio and dimensionless coolant temperature with free stream-to-wall temperature ratio approximately 1.7 and Re sub D = 90000. the cylindrical test surface was instrumented with miniature heat flux gages and wall thermocouples to determine the percentage reduction in the Stanton number as a function of the distance downstream from injection (x/d sub 0) and the location between adjacent holes (z/S). Data from local heat flux measurements are presented for injection from a single row located at 5 deg, 22.9 deg, 40.8 deg, from stagnation using a hole spacing ratio of S/d = 5. The film coolant was injected with T sub c T sub w with a dimensionless coolant temperature in the range 1.18 or equal to theta sub c or equal to 1.56. The data for local Stanton Number Reduction (SNR) showed a significant increase in SNR as theta sub c was increased above 1.0.

Bonnice, M. A.↗

NASA NTRS1976

Program on Earth Observation Data Management Systems (EODMS)

An assessment was made of the needs of a group of potential users of satellite remotely sensed data (state, regional, and local agencies) involved in natural resources management in five states, and alternative data management systems to satisfy these needs are outlined. Tasks described include: (1) a comprehensive data needs analysis of state and local users; (2) the design of remote sensing-derivable information products that serve priority state and local data needs; (3) a cost and performance analysis of alternative processing centers for producing these products; (4) an assessment of the impacts of policy, regulation and government structure on implementing large-scale use of remote sensing technology in this community of users; and (5) the elaboration of alternative institutional arrangements for operational Earth Observation Data Management Systems (EODMS). It is concluded that an operational EODMS will be of most use to state, regional, and local agencies if it provides a full range of information services -- from raw data acquisition to interpretation and dissemination of final information products.

Eastwood, L. F., Jr.↗

NASA NTRS2017

Comparison of Satellite Rainfall Estimates and Rain Gauge Measurements in Italy, and Impact on Landslide Modeling

Landslides can be triggered by intense or prolonged rainfall. Rain gauge measurements are commonly used to predict landslides even if satellite rainfall estimates are available. Recent research focuses on the comparison of satellite estimates and gauge measurements. The rain gauge data from the Italian network (collected in the system database Verifica Rischio Frana" (VRF)) are compared with the National Aeronautics and Space Administration (NASA) Tropical Rainfall Measuring Mission (TRMM) products. For the purpose, we couple point gauge and satellite rainfall estimates at individual grid cells, evaluating the correlation between gauge and satellite data in different morpho-climatological conditions. We then analyze the statistical distributions of both rainfall data types and the rainfall events derived from them. Results show that satellite data underestimates ground data, with the largest differences in mountainous areas. Power-law models, are more appropriate to correlate gauge and satellite data. The gauge and satellite-based products exhibit different statistical distributions and the rainfall events derived from them differ. In conclusion, satellite rainfall cannot be directly compared with ground data, requiring local investigation to account for specific morpho-climatological settings. Results suggest that satellite data can be used for forecasting landslides, only performing a local scaling between satellite and ground data.

landslide; satellite rainfall; TRMM; rain gauges; ↗

DOE OSTI2024

Photometric redshifts probability density estimation from recurrent neural networks in the DECam local volume exploration survey data release 2

Photometric wide-field surveys are imaging the sky in unprecedented detail. These surveys face a significant challenge in efficiently estimating galactic photometric redshifts while accurately quantifying associated uncertainties. In this work, we address this challenge by exploring the estimation of Probability Density Functions (PDFs) for the photometric redshifts of galaxies across a vast area of 17,000 square degrees, encompassing objects with a median 5 σ point-source depth of g = 24.3, r = 23 . 9 , i = 23.5, and z = 22.8 mag. Our approach uses deep learning, specifically integrating a Recurrent Neural Network architecture with a Mixture Density Network, to leverage magnitudes and colors as input features for constructing photometric redshift PDFs across the whole DECam Local Volume Exploration (DELVE) survey sky footprint. Subsequently, we rigorously evaluate the reliability and robustness of our estimation methodology, gauging its performance against other well-established machine learning methods to ensure the quality of our redshift estimations. Our best results constrain photometric redshifts with the bias of − 0 . 0013 , a scatter of 0.0293, and an outlier fraction of 5.1%. These point estimates are accompanied by well-calibrated PDFs evaluated using diagnostic tools such as Probability Integral Transform and Odds distribution. We also address the problem of the accessibility of PDFs in terms of disk space storage and the time demand required to generate their corresponding parameters.We present a novel Autoencoder model that reduces the size of PDF parameter arrays to one-sixth of their original length, significantly decreasing the time required for PDF generation to one-eighth of the time needed when generating PDFs directly from the magnitudes.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2015

Big Data in Reciprocal Space: Sliding Fast Fourier Transforms for Determining Periodicity

Significant advances in atomically resolved imaging of crystals and surfaces have occurred in the last decade allowing unprecedented insight into local crystal structures and periodicity. Yet, the analysis of the long-range periodicity from the local imaging data, critical to correlation of functional properties and chemistry to the local crystallography, remains a challenge. Here, we introduce a Sliding Fast Fourier Transform (FFT) filter to analyze atomically resolved images of in-situ grown La5/8Ca3/8MnO3 films. We demonstrate the ability of sliding FFT algorithm to differentiate two sub-lattices, resulting from a mixed-terminated surface. Principal Component Analysis (PCA) and Independent Component Analysis (ICA) of the Sliding FFT dataset reveal the distinct changes in crystallography, step edges and boundaries between the multiple sub-lattices. The method is universal for images with any periodicity, and is especially amenable to atomically resolved probe and electron-microscopy data for rapid identification of the sub-lattices present.

74 ATOMIC AND MOLECULAR PHYSICS↗

DOE OSTI2021

Data shuffling with hierarchical tuple spaces

Methods and systems for shuffling data are described. A processor may generate pair data from source data. The processor may insert the pair data into local tuple spaces. In response to a request for a particular key, the processor may determine a presence of the requested key in a global tuple space. The processor may, in response to a presence of the requested key in the global tuple space, update the global tuple space. The update may be based on the pair data among the local tuple spaces including the existing key. The processor may, in response to an absence of the requested key in the global tuple space, insert pair data including the missing key from the local tuple spaces into the global tuple space. The processor may fetch the requested pair data, and may shuffle the fetched data to generate a dataset.

Andrade Costa, Carlos Henrique↗