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All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

SMC 2021 Data Challenge: Analyzing Resource Utilization and User Behavior on Titan Supercomputer

Resource utilization statistics of submitted jobs on a supercomputer can help us understand how users from various scientific domains use HPC platforms and better design a job scheduler. We explore to generate insight regarding workload distribution and usage pattern domains from job scheduler trace, GPU failure information, and project-specific information collected from Titan supercomputer. Furthermore, we want to know how the scheduler performance varies over time and how the users' scheduling behavior changes following a system failure. These observations have the potential to provide valuable insight, which is helpful to prepare for system failures. These practices will help us develop and apply novel machine learning algorithms in understanding system behavior, requirement, and better scheduling of HPC systems. There are two datasets, RUR and GPU: RUR dataset is the job scheduler traces collected from the Titan supercomputer from 01/01/2015 to 07/31/2019 (2015.csv - 2019.csv). These were collected using resource Utilization Report (RUR), a Cray-developed resource-usage data collection and reporting system. It contains the usage information of its critical resources (CPU, Memory, GPU, and I/O) of each running job on Titan during that period (https://ieeexplore.ieee.org/abstract/document/8891001). It includes ProjectAreas as additional information, every job is associated with a project ID. TheProjectAreas.csv dataset provides a mapping of the project ID to its domain science. GPU dataset has information regarding GPU failure on Titan. There have been some hardware-related issues in the GPUs in Titan that caused some GPUs to fail, sometimes irrecoverably during some job runs. This dataset provides information regarding these failures during the execution of the submitted jobs. GPUs on Titan are uniquely identified by a serial number (SN), and they are installed in a location. A GPU can be installed in a location, then removed from that location following a failure, and then re-installed in a different location after fixing the problem. If the failure can't be recovered, the GPU might be removed entirely from Titan. There are two prominent types of failures that resulted in the removal of GPUs from Titan: Double Bit Error (DBE) and Out of the Bus (OTB). The dataset (gc_full.csv) has seven attributes, we provided a short description of these attributes in the ReadMe file. To learn more about this dataset, please refer to the git repository https://github.com/olcf/TitanGPULife and the related publication (https://ieeexplore.ieee.org/abstract/document/9355319).

42 ENGINEERING↗
DOE OSTI2021

Investigation of Delayed Neutron Sensitivities for Several ICSBEP Benchmarks using MCNP

The effective delayed neutron (β$_{eff}$) is a very important parameter for reactor and criticality applications. This parameter is equal to the difference in reactivity between delayed critical ($k_{eff}$ = 1, which requires both prompt and delayed neutrons to achieve criticality) and prompt critical ($k_p$ = 1, which requires only prompt neutrons to achieve criticality). This is often referred to as the delayed critical "window" (the region of criticality between delayed and prompt critical). β$_{eff}$ is a reactor kinetics parameters and depends on the nuclides in the system that undergo fission as well as the spectral characteristics of the system. Measurements of β$_{eff}$ have been performed for many criticality experiments. The EUCLID (Experiments Underpinned by Computational Learning for Improvements in nuclear Data) project at Los Alamos National Laboratory (LANL) aims to constrain nuclear data by using a suite of measurement types beyond $k_{eff}$. Our team has recently investigated the use of pulsed spheres for nuclear data validation. Several other measurement methods are also of interest, including β$_{eff}$ (investigated here) and reactivity coefficients (investigated in a separate work at this same meeting). One focus of our work is to determine if other methods are complimentary to the critical experiments already utilized for nuclear data validation. This is important because if a method has similar sensitivities then it will not be particularly useful for nuclear data validation as it will provide the same information as the critical experiments already being used. Here "similar" could refer to several characteristics, one being the shape of a sensitivity profile over energy. In the future, these methods will be utilized (with both existing and new experiments) in machine learning algorithms for nuclear validation, similar to what is currently done for criticality experiments. In order to use a measurement type for nuclear validation, it is necessary to obtain cross-section sensitivities for that parameter. This work looks at one approach to estimate β$_{eff}$ sensitivities by utilizing $k_{eff}$ sensitivities within Monte Carlo N-Particle ® Code Version 6.2. This is applied to several criticality benchmarks. Results are compared and the benefits and limitations of this approach are discussed.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2020

Machine learning enabled lineshape analysis in optical two-dimensional coherent spectroscopy

Optical two-dimensional (2D) coherent spectroscopy excels in studying coupling and dynamics in complex systems. The dynamical information can be learned from lineshape analysis to extract the corresponding linewidth. However, it is usually challenging to fit a 2D spectrum, especially when the homogeneous and inhomogeneous linewidths are comparable. We implemented a machine learning algorithm to analyze 2D spectra to retrieve homogeneous and inhomogeneous linewidths. The algorithm was trained using simulated 2D spectra with known linewidth values. The trained algorithm can analyze both simulated (not used in training) and experimental spectra to extract the homogeneous and inhomogeneous linewidths. Finally, this approach can be potentially applied to 2D spectra with more sophisticated spectral features.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2020

Distributed fiber sensor and machine learning data analytics for pipeline protection against extrinsic intrusions and intrinsic corrosions

This paper presents an integrated technical framework to protect pipelines against both malicious intrusions and piping degradation using a distributed fiber sensing technology and artificial intelligence. A distributed acoustic sensing (DAS) system based on phase-sensitive optical time-domain reflectometry (φ-OTDR) was used to detect acoustic wave propagation and scattering along pipeline structures consisting of straight piping and sharp bend elbow. Signal to noise ratio of the DAS system was enhanced by femtosecond induced artificial Rayleigh scattering centers. Data harnessed by the DAS system were analyzed by neural network-based machine learning algorithms. The system identified with over 85% accuracy in various external impact events, and over 94% accuracy for defect identification through supervised learning and 71% accuracy through unsupervised learning.

Peng, Zhaoqiang↗
DOE OSTI2018

Representability of algebraic topology for biomolecules in machine learning based scoring and virtual screening

This work introduces a number of algebraic topology approaches, including multi-component persistent homology, multi-level persistent homology, and electrostatic persistence for the representation, characterization, and description of small molecules and biomolecular complexes. In contrast to the conventional persistent homology, multi-component persistent homology retains critical chemical and biological information during the topological simplification of biomolecular geometric complexity. Multi-level persistent homology enables a tailored topological description of inter- and/or intra-molecular interactions of interest. Electrostatic persistence incorporates partial charge information into topological invariants. These topological methods are paired with Wasserstein distance to characterize similarities between molecules and are further integrated with a variety of machine learning algorithms, including k-nearest neighbors, ensemble of trees, and deep convolutional neural networks, to manifest their descriptive and predictive powers for protein-ligand binding analysis and virtual screening of small molecules. Extensive numerical experiments involving 4,414 protein-ligand complexes from the PDBBind database and 128,374 ligand-target and decoy-target pairs in the DUD database are performed to test respectively the scoring power and the discriminatory power of the proposed topological learning strategies. It is demonstrated that the present topological learning outperforms other existing methods in protein-ligand binding affinity prediction and ligand-decoy discrimination.

Biochemistry & Molecular Biology↗
DOE OSTI2024

UNNT: A novel Utility for comparing Neural Net and Tree-based models

The use of deep learning (DL) is steadily gaining traction in scientific challenges such as cancer research. Advances in enhanced data generation, machine learning algorithms, and compute infrastructure have led to an acceleration in the use of deep learning in various domains of cancer research such as drug response problems. In our study, we explored tree-based models to improve the accuracy of a single drug response model and demonstrate that tree-based models such as XGBoost (eXtreme Gradient Boosting) have advantages over deep learning models, such as a convolutional neural network (CNN), for single drug response problems. However, comparing models is not a trivial task. To make training and comparing CNNs and XGBoost more accessible to users, we developed an open-source library called UNNT (A novel Utility for comparing Neural Net and Tree-based models). The case studies, in this manuscript, focus on cancer drug response datasets however the application can be used on datasets from other domains, such as chemistry.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Robust, automated sleep scoring by a compact neural network with distributional shift correction

Studying the biology of sleep requires the accurate assessment of the state of experimental subjects, and manual analysis of relevant data is a major bottleneck. Recently, deep learning applied to electroencephalogram and electromyogram data has shown great promise as a sleep scoring method, approaching the limits of inter-rater reliability. As with any machine learning algorithm, the inputs to a sleep scoring classifier are typically standardized in order to remove distributional shift caused by variability in the signal collection process. However, in scientific data, experimental manipulations introduce variability that should not be removed. For example, in sleep scoring, the fraction of time spent in each arousal state can vary between control and experimental subjects. We introduce a standardization method, mixture z-scoring, that preserves this crucial form of distributional shift. Using both a simulated experiment and mouse in vivo data, we demonstrate that a common standardization method used by state-of-the-art sleep scoring algorithms introduces systematic bias, but that mixture z-scoring does not. We present a free, open-source user interface that uses a compact neural network and mixture z-scoring to allow for rapid sleep scoring with accuracy that compares well to contemporary methods. This work provides a set of computational tools for the robust automation of sleep scoring.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2023

Smart Manufacturing Pathways for Industrial Decarbonization and Thermal Process Intensification

Rapid decarbonization is fast becoming the primary environmental and sustainability initiative for many economic sectors. Industry consumes more than 30 % of all primary energy in the United States and accounts for nearly 25 % of all greenhouse gas (GHG) emissions. More than 70 % of energy consumed by the industrial sector is related to thermal processes, which are also the largest contributors of carbon emissions, overwhelmingly due to the combustion of fossil fuels. Thermal process intensification (TPI) seeks to dramatically improve the energy performance of thermal systems through technology pillars focusing on alternative energy sources and processes, supplemental technologies, and waste heat management. The impacts of TPI have significant overlap with the goals of industrial decarbonization (ID) that seeks to phase out all GHG emissions from industrial activities. Emerging supplemental technologies such as smart manufacturing (SM) and the industrial internet of things (IoT) enable significant opportunities for the optimization of manufacturing processes. Combining strategies for TPI and ID with SM and IoT can open and enhance existing opportunities for saving time and energy via approaches such as tighter control of temperature zones, better adjustment of thermal systems for variations in production levels and feedstock properties, and increased process throughput. Data collected by smart processes will also enable new advanced solutions such as digital twins and machine learning algorithms to further improve thermal system savings. Herein, this paper examines the individual pathways of TPI, ID, and SM and how the combination of all three can accelerate energy and GHG reductions.

42 ENGINEERING↗
DOE OSTI2026

CalderaCast Web Interface

CalderaCast may be accessed as a web-based tool at the first link in the references section of this dataset. All of the necessary datasets to run the tool are built into the simulation software running behind the web interface. These input datasets are referenced by the additional links in the references section below. Many of those datasets are taken into machine-learning algorithms by the Caldera team and heavily processed to create internal datasets, which are then relied upon by the simulation to produce individual results. These internal datasets are not accessible and are not necessary for use of the CalderaCast tool.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
DOE OSTI2025

Data and Scripts associated with a manuscript on ecosystem responses to wildfires in the Columbia River Basin

This data package is associated with the publication “Ecosystem leaf area, gross primary production, and evapotranspiration responses to wildfire in the Columbia River Basin” submitted to Biogeosciences (Shi et al., 2024; doi: 10.22541/au.171053013.30286044/v1). In this research, data products, leaf area index (LAI), gross primary production (GPP), and evapotranspiration (ET), from the Moderate Resolution Imaging Spectroradiometer (MODIS) are used to quantify the resistance and resilience of different ecosystem types in the Columbia River Basin (CRB). A machine learning algorithm, random forest (RF), was used to examine the impacts of precipitation, vapor pressure deficit (VPD), and burn severity from Monitoring Trends in Burn Severity (MTBS) on ecosystem resilience. The data package includes the processed MODIS data products, precipitation, VPD, and burn severity in 138 fire regions in CRB and the input files for RF model training. This data package includes six folders. The MODIS products are included in three MODIS_* folders with shell scripts for data clipping and *ncl files for data processing: (1) “/MODIS_LAI_CRB”; (2) “/MODIS_GPP_CRB”; and (3) “/MODIS_ET_CRB”. All the processed data for each fire event are NetCDF formatted. The MTBS burn severity data and the shell and *ncl scripts used for data processing are in the folder named (4) “MTBS_fire”. The ERA meteorological fields and the data processing scritps are in (5) “ERA_Var_CR”. All the scripts for figure development are in the format of *ncl and in the folder (6) “paper_scripts”. See the file ending in “flmd.csv” for a list of all files contained in this data package and descriptions for each. Tabular column headers and units are described in the data dictionary file ending in “dd.csv”.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Harnessing autocatalytic reactions in polymerization and depolymerization

Abstract Autocatalysis and its relevance to various polymeric systems are discussed by taking inspiration from biology. A number of research directions related to synthesis, characterization, and multi-scale modeling are discussed in order to harness autocatalytic reactions in a useful manner for different applications ranging from chemical upcycling of polymers (depolymerization and reconstruction after depolymerization), self-generating micelles and vesicles, and polymer membranes. Overall, a concerted effort involving in situ experiments, multi-scale modeling, and machine learning algorithms is proposed to understand the mechanisms of physical and chemical autocatalysis. It is argued that a control of the autocatalytic behavior in polymeric systems can revolutionize areas such as kinetic control of the self-assembly of polymeric materials, synthesis of self-healing and self-immolative polymers, as next generation of materials for a sustainable circular economy. Graphic Abstract

36 MATERIALS SCIENCE↗
DOE OSTI2026

High-Fidelity Building Emulator

This dataset provides high-fidelity time series data for an emulated commercial office building sited in the Chicago, IL area during a Typical Meteorological Year (TMY). This dataset consists of air-side HVAC measurements and control inputs, and it includes normal operations as well as various implemented faults (with associated ground truth measurements) implemented on selected days. This data could be used to quantify and compare the impacts of different faults, and it could also be used as training or validation data for machine learning algorithms (e.g., reduced-order modelling, fault detection and diagnosis).

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
DOE OSTI2018

Alternate Null Hypothesis Correlation: A New Approach to Automatic Seismic Event Detection

This paper describes a new method of seismic signal detection that improves upon the conventional waveform correlation method. Recent studies suggested that a significant limiting factor in the application of waveform correlation to regional and global scale monitoring is the false alarm rate. The false alarms do not originate from detections on noise but rather from seismic arrivals with unrelated source locations. This article presents results from an approach to waveform correlation that exploits techniques from signal processing and machine learning to improve the accuracy of detecting seismic arrivals. We modify the detection model for waveform correlation such that transient signals from noncollocated seismicity are considered when designing the detectors. The new approach uses waveform templates from known catalog events to train a supervised machine learning algorithm that derives a new set of detectors to represent the unique characteristics of the template waveforms; these new detectors maximize the likelihood of detecting only the desired events, thereby minimizing false alarms. We train a waveform correlation template library for a single three-component seismic monitoring station. We then review results from applying the new detectors, known as alternate null hypothesis correlation (ANCorr) templates, to a test set of seismic waveforms. Finally, we compare ANCorr results with those from application of the conventional waveform correlation matched filter technique.

58 GEOSCIENCES↗
DOE OSTI2021

Learning crystal field parameters using convolutional neural networks

We present a deep machine learning algorithm to extract crystal field (CF) Stevens parameters from thermodynamic data of rare-earth magnetic materials. The algorithm employs a two-dimensional convolutional neural network (CNN) that is trained on magnetization, magnetic susceptibility and specific heat data that is calculated theoretically within the single-ion approximation and further processed using a standard wavelet transformation. We apply the method to crystal fields of cubic, hexagonal and tetragonal symmetry and for both integer and half-integer total angular momentum values J J of the ground state multiplet. We evaluate its performance on both theoretically generated synthetic and previously published experimental data on CeAgSb _2 2 , PrAgSb _2 2 and PrMg _2 2 Cu _9 9 , and find that it can reliably and accurately extract the CF parameters for all site symmetries and values of J J considered. This demonstrates that CNNs provide an unbiased approach to extracting CF parameters that avoids tedious multi-parameter fitting procedures.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2022

The Dark Machines Anomaly Score Challenge: Benchmark Data and Model Independent Event Classification for the Large Hadron Collider

We describe the outcome of a data challenge conducted as part of the Dark Machines (https://www.darkmachines.org) initiative and the Les Houches 2019 workshop on Physics at TeV colliders. The challenged aims to detect signals of new physics at the Large Hadron Collider (LHC) using unsupervised machine learning algorithms. First, we propose how an anomaly score could be implemented to define model-independent signal regions in LHC searches. We define and describe a large benchmark dataset, consisting of >1 billion simulated LHC events corresponding to 10\, fb^{-1} 10 f b − 1 of proton-proton collisions at a center-of-mass energy of 13 TeV. We then review a wide range of anomaly detection and density estimation algorithms, developed in the context of the data challenge, and we measure their performance in a set of realistic analysis environments. We draw a number of useful conclusions that will aid the development of unsupervised new physics searches during the third run of the LHC, and provide our benchmark dataset for future studies at https://www.phenoMLdata.org. Code to reproduce the analysis is provided at https://github.com/bostdiek/DarkMachines-UnsupervisedChallenge.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2015

PANTHER: Trajectory Analysis

We want to organize a body of trajectories in order to identify, search for, classify and predict behavior among objects such as aircraft and ships. Existing comparison functions such as the Fréchet distance are computationally expensive and yield counterintuitive results in some cases. We propose an approach using feature vectors whose components represent succinctly the salient information in trajectories. These features incorporate basic information such as total distance traveled and distance between start/stop points as well as geometric features related to the properties of the convex hull, trajectory curvature and general distance geometry. Additionally, these features can generally be mapped easily to behaviors of interest to humans that are searching large databases. Most of these geometric features are invariant under rigid transformation. We demonstrate the use of different subsets of these features to identify trajectories similar to an exemplar, cluster a database of several hundred thousand trajectories, predict destination and apply unsupervised machine learning algorithms.

42 ENGINEERING↗
DOE OSTI2016

Optimizing the Performance of Radionuclide Identification Software in the Hunt for Nuclear Security Threats

The Radionuclide Analysis Kit (RNAK), my team’s most recent nuclide identification software, is entering the testing phase. A question arises: will removing rare nuclides from the software’s library improve its overall performance? An affirmative response indicates fundamental errors in the software’s framework, while a negative response confirms the effectiveness of the software’s key machine learning algorithms. After thorough testing, I found that the performance of RNAK cannot be improved with the library choice effect, thus verifying the effectiveness of RNAK’s algorithms—multiple linear regression, Bayesian network using the Viterbi algorithm, and branch and bound search.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2018

Artificial Diversity and Defense Security (ADDSec) Final Report

Critical infrastructure systems continue to foster predictable communication patterns and static configurations over extended periods of time. The static nature of these systems eases the process of gathering reconnaissance information that can be used to design, develop, and launch attacks by adversaries. In this research effort, the early phases of an attack vector will be disrupted by randomizing application port numbers, IP addresses, and communication paths dynamically through the use of overlay networks within Industrial Control Systems (ICS). These protective measures convert static systems into "moving targets," adding an additional layer of defense. Additionally, we have developed a framework that automatically detects and defends against threats within these systems using an ensemble of machine learning algorithms that classify and categorize abnormal behavior. Our proof-of-concept has been demonstrated within a representative ICS environment. Performance metrics of our proof-of-concept have been captured with latency impacts of less than a millisecond, on average.

97 MATHEMATICS AND COMPUTING↗