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At least 361 records · Page 20

Discrete Data Qualification System and Method Comprising Noise Series Fault Detection

A Sensor Data Qualification (SDQ) function has been developed that allows the onboard flight computers on NASA s launch vehicles to determine the validity of sensor data to ensure that critical safety and operational decisions are not based on faulty sensor data. This SDQ function includes a novel noise series fault detection algorithm for qualification of the output data from LO2 and LH2 low-level liquid sensors. These sensors are positioned in a launch vehicle s propellant tanks in order to detect propellant depletion during a rocket engine s boost operating phase. This detection capability can prevent the catastrophic situation where the engine operates without propellant. The output from each LO2 and LH2 low-level liquid sensor is a discrete valued signal that is expected to be in either of two states, depending on whether the sensor is immersed (wet) or exposed (dry). Conventional methods for sensor data qualification, such as threshold limit checking, are not effective for this type of signal due to its discrete binary-state nature. To address this data qualification challenge, a noise computation and evaluation method, also known as a noise fault detector, was developed to detect unreasonable statistical characteristics in the discrete data stream. The method operates on a time series of discrete data observations over a moving window of data points and performs a continuous examination of the resulting observation stream to identify the presence of anomalous characteristics. If the method determines the existence of anomalous results, the data from the sensor is disqualified for use by other monitoring or control functions.

Fulton, Christopher↗

Harvesting the low-hanging fruit of high energy savings -- Virtual Occupancy using Wi-Fi Data

Approximately 20% of primary energy consumed in the U.S. is attributed to HVAC use. Ideally, HVAC operation would be driven by actual building occupancy, but lack of reliable occupancy information often results in the use of conservative static schedules. This disparity is even more pronounced in a college campus, where the function of each space differs by building (classrooms, offices, libraries) and the class schedules change frequently -- every semester, day of week, and hour. While several research papers propose the use of counts of the Wi-Fi connections (e.g., phones, computers) as a proxy for occupancy, few real-world implementations exist. This paper describes the development and deployment of an open-source Wi-Fi-to-Occupancy software library in 65 buildings of a college campus, and the planned integration with the building energy management and control system at the building scale. Over a year of Wi-Fi data was gathered into distinct academic periods, including fall and spring semester, academic breaks, and summer sessions. Patterns such as students moving between classrooms, closing laptops before exams, etc., can be visualized from the data. Approximating occupancy from Wi-Fi data presents challenges which we address in this project -- for example, identifying static devices, or estimating the ratio of devices per person. Utilizing real-time occupancy data to inform optimal HVAC schedules and ventilation rates creates the potential to identify and reduce energy waste. Other potential applications include forecasting occupancy, and using Wi-Fi data to predict peak demands. Finally, the paper discusses how to easily scale these tools to other buildings.

Pritoni, Marco↗

NASA/SPoRT's GOES-R Activities in Support of Product Development, Management, and Training

The NASA Short-term Prediction Research and Transition (SPoRT) Center supports many activities within the GOES-R Proving Grounds (PG). These include the development of imagery from existing instrumentation as a proxy to future Advanced Baseline Imager (ABI) capabilities on GOES-R. The Moderate Resolution Imaging Spectroradiometer (MODIS) and the Visible/Infrared Imager/Radiometer Suite (VIIRS) instruments are used to provide a glimpse of the multi-spectral capabilities that will become the norm as the number of channels and data rate dramatically increase with GOES-R. The NOAA/NWS has plans to provide operational users with all ABI channels at the highest resolution. Data fusion of individual channels into composite red, green, and blue imagery products will assist the end user with this future wave of information. While increasing the efficiency in the operational use of ABI channels, these composites provide only qualitative information. Within the GOES-R PG, SPoRT and other partners are exploring ways to include quantitative information as part of the composite imagery. However, limitations in local hardware processing and/or data bandwidth for users of the GOES-R data stream are challenges to overcome. This presentation will discuss the creation of these composite images as well as possible solutions to address these processing challenges. In a similar manner the Geostationary Lightning Mapper (GLM) to be launched on GOES-R presents several data management challenges. The GLM is a pioneering instrument to quantify total lightning from a geostationary platform. The expected data frequency from the GLM is to be at a sub-minute interval. Users of such a data set may have little experience in handling such a rapid update of information. To assist users, SPoRT is working with the NWS to develop tools within the user fs decision support system to allow tracking and analysis of total lightning from a storm-based perspective. This presentation will discuss the challenges and progress of this tool development work. With new data and products comes the need for user Training. Within the GOES-R PG SPoRT is supporting the demonstration of these future products by providing various training materials to end users. A summary of training provided to operational users will be discussed.

Fuell, Kevin K.↗

Finding the forest in the trees: The challenge of combining diverse environmental data

It has become increasingly important to conduct interdisciplinary environmental research assessments, both nationally and internationally. For this reason, the Committee for a Pilot Study on Database Interfaces was charged to review and advise on data interfacing activities. The committee used six case studies (1) to identify and understand the most important problems associated with collecting, integrating, and analyzing environmental data from local to global spatial scales and over a very wide range of temporal scales; and (2) to elaborate the common barriers to interfacing data of disparate sources and types. Consistent with the committee's charge, the primary focus was the interfacing of geophysical and ecological data. The case studies used by the committee were: The Impact Assessment Project for Drought Early Warning in the Sahel, The National Acid Precipitation Assessment Program, The H.J. Andrew Experimental Forest Long-Term Ecological Research Site, The Carbon Dioxide Information Analysis Center, The First International Satellite Land Surface Climatology Project (ISLSCP) Field Experiment, and The California Cooperative Oceanic Fisheries Investigation. The committee derived a number of lessons from the case studies, and these lessons are summarized at the end of each case study and analyzed in the last chapter. Some are generic in nature; others are more specific to a discipline or project. The conclusions and recommendations are based on the committee's analysis of the case studies and additional research. They are organized according to four major areas of barriers or challenges to the effective interfacing of diverse environmental data. In the final section the committee offers a set of broadly applicable principles (Ten Keys to Success) that can be used by scientists and data managers in planning and conducting interfacing activities.

Source record↗

Uncertainty Visualization Challenges in Decision Systems with Ensemble Data & Surrogate Models: Preprint

Uncertainty visualization is a key component in translating important insights from ensemble data into actionable decision-making by visually conveying various aspects of uncertainty within a system. With the recent advent of fast surrogate models for computationally expensive simulations, users can interact with more aspects of data spaces than ever before. However, the integration of ensemble data with surrogate models in a decision-making tool brings up new challenges for uncertainty visualization, namely how to reconcile and communicate the new and different types of uncertainties brought in by surrogates and how to utilize these new data estimates in actionable ways. In this work, we examine these issues as they relate to high-dimensional data visualization, the integration of discrete datasets and the continuous representations of those datasets, and the unique difficulties associated with systems that allow users to iterate between input and output spaces. We assess the role of uncertainty visualization in facilitating intuitive and actionable interaction with ensemble data and surrogate models, and highlight key challenges in this new frontier of computational simulation.

ensemble visualization↗

Poisson hurdle model-based method for clustering microbiome features

Abstract Motivation High-throughput sequencing technologies have greatly facilitated microbiome research and have generated a large volume of microbiome data with the potential to answer key questions regarding microbiome assembly, structure and function. Cluster analysis aims to group features that behave similarly across treatments, and such grouping helps to highlight the functional relationships among features and may provide biological insights into microbiome networks. However, clustering microbiome data are challenging due to the sparsity and high dimensionality. Results We propose a model-based clustering method based on Poisson hurdle models for sparse microbiome count data. We describe an expectation–maximization algorithm and a modified version using simulated annealing to conduct the cluster analysis. Moreover, we provide algorithms for initialization and choosing the number of clusters. Simulation results demonstrate that our proposed methods provide better clustering results than alternative methods under a variety of settings. We also apply the proposed method to a sorghum rhizosphere microbiome dataset that results in interesting biological findings. Availability and implementation R package is freely available for download at https://cran.r-project.org/package=PHclust. Supplementary information Supplementary data are available at Bioinformatics online.

59 BASIC BIOLOGICAL SCIENCES↗

Methods and Experiences for Developing Abstractions for Data-intensive, Scientific Applications

Developing software for scientific applications that require the integration of diverse types of computing, instruments, and data present challenges that are distinct from commercial software. These applications require scale, and the need to integrate various programming and computational models with evolving and heterogeneous infrastructure. Pervasive and effective abstractions for distributed infrastructures are thus critical; however, the process of developing abstractions for scientific applications and infrastructures is not well understood. While theory-based approaches for system development are suited for well-defined, closed environments, they have severe limitations for designing abstractions for scientific systems and applications. The design science research (DSR) method provides the basis for designing practical systems that can handle real-world complexities at all levels. In contrast to theory-centric approaches, DSR emphasizes both practical relevance and knowledge creation by building and rigorously evaluating all artifacts. In this work, we show how DSR provides a well-defined framework for developing abstractions and middleware systems for distributed systems. Specifically, we address the critical problem of distributed resource management on heterogeneous infrastructure over a dynamic range of scales, a challenge that currently limits many scientific applications. We use the pilot-abstraction, a widely used resource management abstraction for high-performance, high throughput, big data, and streaming applications, as a case study for evaluating the DSR activities. For this purpose, we analyze the research process and artifacts produced during the design and evaluation of the pilot-abstraction. We find DSR provides a concise framework for iteratively designing and evaluating systems. Finally, we capture our experiences and formulate different lessons learned.

97 MATHEMATICS AND COMPUTING↗

Integrated support of NASA satellite and in situ oceanographic data via the PO.DAAC

The NASA Physical Oceanography DAAC (PO.DAAC) serves as one of the premier repositories for oceanographic satellite data. More recently, however, it is also increasingly archiving and distributing complementary in situ datasets from NASA-sponsored field campaigns. Here we present an overview of these projects, the complex multivariate data they produce, and some of the data interoperability challenges faced when dealing with such a heterogeneous suite of observations. We summarize the range of online tools and services currently available via the PODAAC, including data discovery services, web-services for subsetting/extraction, compliance checking and visualization. We also preview some new capabilities under development that may feature in future. These efforts are indicative of an evolution of DAAC services in pursuit of our broader vision: a more integrated approach to multi-sensor oceanographic data access and delivery spanning NASA satellite missions and field campaigns in support of science and applications for societal benefit.

Vannan, Suresh↗

A Multi-Branch Decoder Network Approach to Adaptive Temporal Data Selection and Reconstruction for Big Scientific Simulation Data

A key challenge in scientific simulation is that the simulation outputs often require intensive I/O and storage space to store the results for effective post hoc analysis. This article focuses on a quality-aware adaptive temporal data selection and reconstruction problem where the goal is to adaptively select simulation data samples at certain key timesteps in situ and reconstruct the discarded samples with quality assurance during post hoc analysis. This problem is motivated by the limitation of current solutions that a significant amount of simulation data samples are either discarded or aggregated during the sampling process, leading to inaccurate modeling of the simulated phenomena. Two unique challenges exist: 1) the sampling decisions have to be made in situ and adapted to the dynamics of the complex scientific simulation data; 2) the reconstruction error must be strictly bounded to meet the application requirement. To address the above challenges, we develop DeepSample , an error-controlled convolutional neural network framework, that jointly integrates a set of coherent multi-branch deep decoders to effectively reconstruct the simulation data with rigorous quality assurance. The results on two real-world scientific simulation applications show that DeepSample significantly outperforms other state-of-the-art methods on both sampling efficiency and reconstructed simulation data quality.

Zhang, Yang↗

Quantum Algorithms for Collider Physics (Final Report)

The goal of this project was to unite powerful analysis techniques in high-energy physics (HEP) with cutting-edge advances in quantum information science (QIS). Almost every event at the Large Hadron Collider (LHC) involves jets, collimated sprays of particles that are copiously produced in proton-proton collisions. Current LHC algorithms to identify and classify jets are constrained by the limits of classical computation. Quantum algorithms could fundamentally change how collider data is analyzed, by speeding up existing classical algorithms and by enabling new quantum jet representations. By exploiting the capabilities of quantum computation, this research confronted the challenge of data analysis in collider physics.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

High-performance data management for whole slide image analysis in digital pathology

When dealing with giga-pixel digital pathology in whole-slide imaging, a notable proportion of data records holds relevance during each analysis operation. For instance, when deploying an image analysis algorithm on whole-slide images (WSI), the computational bottleneck often lies in the input-output (I/O) system. This is particularly notable as patch-level processing introduces a considerable I/O load onto the computer system. However, this data management process could be further paralleled, given the typical independence of patch-level image processes across different patches. This paper details our endeavors in tackling this data access challenge by implementing the Adaptable IO System version 2 (ADIOS2). Our focus has been constructing and releasing a digital pathology-centric pipeline using ADIOS2, which facilitates streamlined data management across WSIs. Additionally, we’ve developed strategies aimed at curtailing data retrieval times. The performance evaluation encompasses two key scenarios: (1) a pure CPU-based image analysis scenario (“CPU scenario”), and (2) a GPU-based deep learning framework scenario (“GPU scenario”). Our findings reveal noteworthy outcomes. Under the CPU scenario, ADIOS2 showcases an impressive two-fold speed-up compared to the brute-force approach. In the GPU scenario, its performance stands on par with the cutting-edge GPU I/O acceleration framework, NVIDIA Magnum IO GPU Direct Storage (GDS). From what we know, this appears to be among the initial instances, if any, of utilizing ADIOS2 within the field of digital pathology. The source code has been made publicly available at https://github.com/hrlblab/adios.

Wang, Xiao↗

Intelligent experiments through real-time AI: Fast Data Processing and Autonomous Detector Control for sPHENIX and future EIC detectors

This R&D project, initiated by the DOE Nuclear Physics AI-Machine Learning initiative in 2022, leverages AI to address data processing challenges in high-energy nuclear experiments (RHIC, LHC, and future EIC). Our focus is on developing a demonstrator for real-time processing of high-rate data streams from sPHENIX experiment tracking detectors. The limitations of a 15 kHz maximum trigger rate imposed by the calorimeters can be negated by intelligent use of streaming technology in the tracking system. The approach efficiently identifies low momentum rare heavy flavor events in high-rate p+p collisions (3MHz), using Graph Neural Network (GNN) and High Level Synthesis for Machine Learning (hls4ml). Success at sPHENIX promises immediate benefits, minimizing resources and accelerating the heavy-flavor measurements. The approach is transferable to other fields. For the EIC, we develop a DIS-electron tagger using Artificial Intelligence - Machine Learning (AI-ML) algorithms for real-time identification, showcasing the transformative potential of AI and FPGA technologies in high-energy nuclear and particle experiments real-time data processing pipelines.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Top Research Challenges and Opportunities for Near Real-Time Extreme-Scale Visualization of Scientific Data

The rapid advancement in scientific simulations and experimental facilities has resulted in the generation of vast amounts of data at unprecedented scales. The analysis and visualization of large amounts of data is a challenge in and of itself, but the requirements for timeliness significantly magnify these difficulties. Near real-time visualization is critical to monitor and analyze the data produced by these large facilities, but current production tools are not well-suited to these requirements. In this position paper, we share our perspective on some of the challenges, and thus, opportunities for research that stand in the way of near-real-time visualization of large scientific data.

Pugmire, Dave↗

Model form and sensitivity analysis of CALPHAD-based nucleation models in b-stabilized Ti alloys

Accurate prediction of α-phase nucleation and growth in β-stabilized titanium alloys is crucial for designing heat treatments to optimize mechanical properties in additively manufactured lightweight components. Ideally, predictions of nucleation and growth would incorporate both top-down observations of past experimental heat treatments and bottom-up modeling of phase transformations; however, the appropriate method of combining these information sources is not self-evident. Combining top-down and bottom-up information requires a unified form of model that can connect between spatiotemporal scales, as well as sets of fitting parameters that can be identified by each data source. The selection of which parameters to fit to which data source can be made based on expert opinion, or by performing a sensitivity analysis. In solid-solid nucleation, direct observation of the nucleation and growth process is challenging. Most data on the heat treatment-controlled phase transformations are not in-situ. To predict the process and outcome of the nucleation, growth and coarsening of precipitates, theoretical models of the nucleation pathway are used to bridge the gap. Many sources of uncertainty affect the modeling of this nucleation process. It can be influenced by small variations in the thermomechanical processing history, chemical composition, and initial microstructure. If molecular dynamics (MD) simulations are used to determine thermodynamic quantities and inform CALPHAD modeling, additional uncertainty can be introduced and accounted for using Bayesian methods. Top-down uncertainties require additional steps to quantify. The influence of nucleation model form on the sensitivity of predictions to input parameters and physical conditions is the focus of this study. Classical nucleation theory (CNT) allows modeling to formulate the nucleation as homogeneous or, more commonly, heterogeneous. Non-classical nucleation models are also increasingly explored as a means of reconciling top-down and bottom-up data. In this study, the sensitivity of the intragranular nucleation of α in a β-annealed, slow-cooled aging (BASCA) heat treatment of β-stabilized Ti5553 alloy is explored using CNT and both heterogeneous and homogeneous assumptions. The Kampmann-Wagner Numerical model of precipitate nucleation and growth is employed. Using open-source tools (pyCalphad and thermodynamic modeling of TiMo as a surrogate system, a sensitivity analysis is performed to measure variations in key parameters, including chemical driving force, interfacial energy, and diffusivity, as they relate to predictions of precipitate number density. The inclusion of top-down and bottom-up data in selection of nucleation model form is discussed.

Rodriguez Negron, A. M.↗

Developing a Community of Practice for Applied Uses of Future PACE Data to Address Food Security Challenges

Ocean color satellite measurements have yielded valuable information about the base of the marine food web for over 20 years. The Plankton, Aerosol, Cloud, ocean Ecosystem (PACE) mission is building an advanced spectrometer to further refine ecosystem monitoring. Higher spectral resolution data from PACE will enable identification of additional marine biological indicators and their response to multiple stressors to guide sustainable management. Seafood is an important source of protein for a significant number of people. Wild catches cannot match increasing demand and their sustainability is in question. Aquaculture is an ever more important industry to feed the world's population. We share early efforts to engage a community of practice around food security to increase satellite data product use in support of resource management, business decisions, and policy analysis. Understanding the needs of applied scientists as well as non-traditional users of satellite data early in the PACE mission process will improve planning and preparation for a broader user base and hopefully help to mitigate food insecurity.

Schollaert Uz, Stephanie↗

Temporally-consistent koopman autoencoders for forecasting dynamical systems

Absence of sufficiently high-quality data often poses a key challenge in data-driven modeling of high-dimensional spatio-temporal dynamical systems. Koopman Autoencoders (KAEs) harness the expressivity of deep neural networks (DNNs), the dimension reduction capabilities of autoencoders, and the spectral properties of the Koopman operator to learn a reduced-order feature space with simpler, linear dynamics. However, the effectiveness of KAEs is hindered by limited and noisy training datasets, leading to poor generalizability. To address this, we introduce the Temporally-Consistent Koopman Autoencoder (tcKAE), designed to generate accurate long-term predictions even with limited and noisy training data. This is achieved through a consistency regularization term that enforces prediction coherence across different time steps, thus enhancing the robustness and generalizability of tcKAE over existing models. We provide analytical justification for this approach based on Koopman spectral theory and empirically demonstrate tcKAE’s superior performance over state-of-the-art KAE models across a variety of test cases, including simple pendulum oscillations, kinetic plasma, and fluid flow data.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Models and Processes to Extract Drug-like Molecules From Natural Language Text

Researchers worldwide are seeking to repurpose existing drugs or discover new drugs to counter the disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). A promising source of candidates for such studies is molecules that have been reported in the scientific literature to be drug-like in the context of viral research. However, this literature is too large for human review and features unusual vocabularies for which existing named entity recognition (NER) models are ineffective. We report here on a project that leverages both human and artificial intelligence to detect references to such molecules in free text. We present 1) a iterative model-in-the-loop method that makes judicious use of scarce human expertise in generating training data for a NER model, and 2) the application and evaluation of this method to the problem of identifying drug-like molecules in the COVID-19 Open Research Dataset Challenge (CORD-19) corpus of 198,875 papers. We show that by repeatedly presenting human labelers only with samples for which an evolving NER model is uncertain, our human-machine hybrid pipeline requires only modest amounts of non-expert human labeling time (tens of hours to label 1778 samples) to generate an NER model with an F-1 score of 80.5%—on par with that of non-expert humans—and when applied to CORD’19, identifies 10,912 putative drug-like molecules. This enriched the computational screening team’s targets by 3,591 molecules, of which 18 ranked in the top 0.1% of all 6.6 million molecules screened for docking against the 3CLPro protein.

60 APPLIED LIFE SCIENCES↗

Data Quality Monitoring for the Hadron Calorimeters Using Transfer Learning for Anomaly Detection

The proliferation of sensors brings an immense volume of spatio-temporal (ST) data in many domains, including monitoring, diagnostics, and prognostics applications. Data curation is a time-consuming process for a large volume of data, making it challenging and expensive to deploy data analytics platforms in new environments. Transfer learning (TL) mechanisms promise to mitigate data sparsity and model complexity by utilizing pre-trained models for a new task. Despite the triumph of TL in fields like computer vision and natural language processing, efforts on complex ST models for anomaly detection (AD) applications are limited. In this study, we present the potential of TL within the context of high-dimensional ST AD with a hybrid autoencoder architecture, incorporating convolutional, graph, and recurrent neural networks. Motivated by the need for improved model accuracy and robustness, particularly in scenarios with limited training data on systems with thousands of sensors, this research investigates the transferability of models trained on different sections of the Hadron Calorimeter of the Compact Muon Solenoid experiment at CERN. The key contributions of the study include exploring TL’s potential and limitations within the context of encoder and decoder networks, revealing insights into model initialization and training configurations that enhance performance while substantially reducing trainable parameters and mitigating data contamination effects.

47 OTHER INSTRUMENTATION↗