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At least 19 records

DICER: Data Intensive Computing Environment and Runtime for Evaluating Unprecedented Scale of Geospatial-Temporal Human Mobility Data

With the significant increase in sources and volume of human mobility data through commercial data vendors as well as microsimulation of cities, the scale of geospatial-temporal data to analyze and assess for mobility characterization has grown to the level of Big Data. There are mobility related commercial organizations deploying scalable computing, but often the system architecture, workflow, and intermediate processing components are not fully disclosed in relevant scope. Current research literature has a notable lack of studies demonstrating architectures and workflows for human mobility analytics that are implemented on a TeraByte scale of geospatial-temporal data. In this context, this paper presents a hyperscale-level system solution named DICER (Data Intensive Computing Environment and Runtime) for processing and analytics of geospatial-temporal data at big data scale. Although the cluster computing architecture of DICER with Apache Spark job running on Kubernetes cluster is not new, there are innovations in the workflow, hierarchical processing logic, and a wide range of intermediate preprocessing and mobility metrics calculation. We have performed case studies to validate the effectiveness of DICER system solution by performing detailed analytics and assessment of human mobility microsimulation output at three different scopes and scale, including a usecase with 16.97 TeraByte and 259.2 Billion rows of data. In addition, we have presented another case study of utilizing DICER to perform the same mobility processing and comparative analytics on large-scale commercially available geospatial-temporal data. All these case studies validate the efficiency and usefulness of DICER in computing population mobility characteristics from geospatial-temporal trajectory data at an unprecedented scale (not only just data volume, but also combination of: number of user entities, temporal frequency, spatial resolution, data duration).

De, Debraj↗

Leveraging Data Intensive Computing to Support Automated Event Services

A large portion of Earth Science investigations is phenomenon- or event-based, such as the studies of Rossby waves, mesoscale convective systems, and tropical cyclones. However, except for a few high-impact phenomena, e.g. tropical cyclones, comprehensive records are absent for the occurrences or events of these phenomena. Phenomenon-based studies therefore often focus on a few prominent cases while the lesser ones are overlooked. Without an automated means to gather the events, comprehensive investigation of a phenomenon is at least time-consuming if not impossible. An Earth Science event (ES event) is defined here as an episode of an Earth Science phenomenon. A cumulus cloud, a thunderstorm shower, a rogue wave, a tornado, an earthquake, a tsunami, a hurricane, or an EI Nino, is each an episode of a named ES phenomenon," and, from the small and insignificant to the large and potent, all are examples of ES events. An ES event has a finite duration and an associated geolocation as a function of time; its therefore an entity in four-dimensional . (4D) spatiotemporal space. The interests of Earth scientists typically rivet on Earth Science phenomena with potential to cause massive economic disruption or loss of life, but broader scientific curiosity also drives the study of phenomena that pose no immediate danger. We generally gain understanding of a given phenomenon by observing and studying individual events - usually beginning by identifying the occurrences of these events. Once representative events are identified or found, we must locate associated observed or simulated data prior to commencing analysis and concerted studies of the phenomenon. Knowledge concerning the phenomenon can accumulate only after analysis has started. However, except for a few high-impact phenomena. such as tropical cyclones and tornadoes, finding events and locating associated data currently may take a prohibitive amount of time and effort on the part of an individual investigator. And even for these high-impact phenomena, the availability of comprehensive records is still only a recent development. A major reason for the lack of comprehensive ,records for the majority of the ES phenomena is the perception that they do not pose immediate and/or severe threat to life and property and are thus not consistently tracked. monitored, and catalogued. Many phenomena even lack commonly accepted criteria for definitions. However. the lack of comprehensive records is also due to the increasingly prohibitive volume of observations and model data that must be examined. NASA Earth Observing System Data Information System (EOSDIS) alone archives several petabytes (PB) of satellite remote sensing data and steadily increases. All of these factors contribute to the difficulty of methodically identifying events corresponding to a given phenomenon and significantly impede systematic investigations. In the following we present a couple motivating scenarios, demonstrating the issues faced by Earth scientists studying ES phenomena.

Clune, Thomas L.↗

Final Report An in situ, streaming, data- and compute-intensive platform for experimental data

Data-intensive and compute-intensive applications are the two essential methods supporting the scientific discovery process. Until recently, the development of technologies supporting the corresponding schemes evolved along two independent paths. Born and matured before the Big Data era, high-performance computing (HPC) scientific-oriented applications were not designed for Big Data streaming frameworks. But an efficient processing framework offered by the Spark computational platform has resolved many of the barriers to enable compute-intensive applications from within a data-intensive environment. Our Phase I project extended Spark with pipelines that utilize HPC applications. As a result, the project immediately addressed emerging high-throughput experiments driven by a new generation of X-ray instruments. After successful completion of Phase I, we are in a strong position for proposing a successful Phase II project.

97 MATHEMATICS AND COMPUTING↗

Big Data, Big Solutions

Data—lots of data—generated in seconds and piling up on the internet, streaming and stored in countless databases. Big data is important for commerce, society and our nation’s security. Yet the volume, velocity, variety and veracity of data is simply too great for any single analyst to make sense of alone. It requires advanced, data-intensive computing. Simply put, data-intensive computing is the use of sophisticated computers to sort through mounds of information and present analysts with solutions in the form of graphics, scenarios, formulas, new hypotheses and more. This scientific capability is foundational to PNNL’s energy, environment and security missions. Senior Scientist and Division Director Bill Pike and his team are developing analytic tools that are used to solve important national challenges, including cyber systems defense, power grid control systems, intelligence analysis, climate change and scientific exploration.

97 MATHEMATICS AND COMPUTING↗

Summer Proceedings 2019

The Computer Science Research Institute (CSRI) brings university faculty and students to Sandia for focused collaborative research on Department of Energy (DOE) computer and computational science problems. The institute provides an opportunity for university researchers to learn about problems in computer and computational science at DOE laboratories. Participants conduct leading-edge research, interact with scientists and engineers at the laboratories, and help transfer results of their research to programs at the labs. Some specific CSRI research interest areas are: scalable solvers, optimization, adaptivity and mesh refinement, graph-based, discrete, and combinatorial algorithms, uncertainty estimation, mesh generation, dynamic load-balancing, virus and other malicious-code defense, visualization, scalable cluster computers and heterogeneous computers, data-intensive computing, environments for scalable computing, parallel input/output, advanced architectures, and theoretical computer science. The CSRI Summer Program includes the organization of a weekly seminar series and the publication of this summer proceedings.

97 MATHEMATICS AND COMPUTING↗

CSRI Summer Proceedings 2020

The Computer Science Research Institute (CSRI) brings university faculty and students to Sandia for focused collaborative research on Department of Energy (DOE) computer and computational science problems. The institute provides an opportunity for university researchers to learn about problems in computer and computational science at DOE laboratories. Participants conduct leading-edge research, interact with scientists and engineers at the laboratories, and help transfer results of their research to programs at the labs. Some specific CSRI research interest areas are: scalable solvers, optimization, adaptivity and mesh refinement, graph-based, discrete, and combinatorial algorithms, uncertainty estimation, mesh generation, dynamic load-balancing, virus and other malicious-code defense, visualization, scalable cluster computers, data-intensive computing, environments for scalable computing, parallel input/output, advanced architectures, and theoretical computer science. The CSRI Summer Program is organized by CSRI and typically includes the organization of a weekly seminar series and the publication of a summer proceedings. In 2020, the CSRI summer program was executed completely virtually; all student interns worked from home, due to the COVID-19 pandemic.

97 MATHEMATICS AND COMPUTING↗

Combining Hadoop with MPI to Solve Metagenomics Problems that are both Data- and Compute-intensive

Metagenomics, the study of all microbial species cohabitants in an environment, usually produces large amount of sequence data varying from several GBs to a few TBs. Analyzing metagenomics data includes both data-intensive and compute-intensive steps, making the entire process hard to scale. Here we aim to optimize a metagenomics application that partitions the shortgun metagenomics sequences based on their species of origin. Our solution combines MapReduce-based BioPig analytic toolkit with MPI to provide scalability in respective to both data and compute. We also made some improvements to the existing BioPig toolkit by using simplified data types and compressed k-mer storage. These optimizations leads up to 193× speedup for the computing-intensive step and 9.6× speedup over the entire pipeline. Our optimized application is also capable of processing datasets that are 16 times larger on the same hardware platform. These conclusions indicate integrating heterogeneous technologies such as Hadoop and MPI is quite efficient to solve large genomics problems that are both data-intensive and compute-intensive.

97 MATHEMATICS AND COMPUTING↗

A High-Throughput, Adaptive FFT Architecture for FPGA-Based Space-Borne Data Processors

Historically, computationally-intensive data processing for space-borne instruments has heavily relied on ground-based computing resources. But with recent advances in functional densities of Field-Programmable Gate-Arrays (FPGAs), there has been an increasing desire to shift more processing on-board; therefore relaxing the downlink data bandwidth requirements. Fast Fourier Transforms (FFTs) are commonly used building blocks for data processing applications, with a growing need to increase the FFT block size. Many existing FFT architectures have mainly emphasized on low power consumption or resource usage; but as the block size of the FFT grows, the throughput is often compromised first. In addition to power and resource constraints, space-borne digital systems are also limited to a small set of space-qualified memory elements, which typically lag behind the commercially available counterparts in capacity and bandwidth. The bandwidth limitation of the external memory creates a bottleneck for a large, high-throughput FFT design with large block size. In this paper, we present the Multi-Pass Wide Kernel FFT (MPWK-FFT) architecture for a moderately large block size (32K) with considerations to power consumption and resource usage, as well as throughput. We will also show that the architecture can be easily adapted for different FFT block sizes with different throughput and power requirements. The result is completely contained within an FPGA without relying on external memories. Implementation results are summarized.

Nguyen, Kayla↗

Cyber-Infrastructure for Data-Intensive Geospatial Computing

With the recent advent of heterogeneous High-performance Computing (HPC) to handle EO “Big Data” workloads, there is a need for a unified Cyber-infrastructure (CI) platform that can bridge the best of many HPC worlds. In this chapter, we discuss such a CI platform being developed at Geographic Information Science and Technology (GIST) group using novel and innovative techniques, and emerging technologies that are scalable to large-scale supercomputers. The CI platform utilizes a wide variety of computing such as GPGPU, distributed, real-time and cluster computing, which are being brought together architecturally to enable data-driven analysis, scientific understanding of earth system models, and research collaboration. This development addresses the need for close integration of EO and other geospatial information in the face of growing volumes of the data, and facilitates spatio-temporal analysis of disparate and dynamic data streams. Horizontal scalability and linear throughput are supported in the heart of the platform itself. It is being used to support very broad application areas, ranging from high-resolution settlement mapping, national bioenergy infrastructure to urban information and mobility systems. The platform provides spatio-temporal decision support capabilities in planning, policy and operational missions for US federal agencies. Also, the platform is designed to be functionally and technologically sustainable for continued support of the US energy and environment mission for the coming decades.

Karthik, Rajasekar↗

HP upgrade operational streamlining

New computer technology and resources must be successfully integrated into CDSLR station operations to manage new complex operational tracking requirements, support the on site production of new data products, support ongoing station performance improvements, and to support new station communication requirements. The NASA CDSLR Network is in the process of upgrading station computer resources with HP UNIX workstations, designed to automate a wide range of operational station requirements. The primary HP upgrade objective was to relocate computer intensive data system tasks from the controller computer to a new advanced computer environment designed to meet the new data system requirements. The HP UNIX environment supports fully automated real time data communications, data management, data processing, and data quality control. Automated data compression procedures are used to improve the efficiency of station data communications. In addition, the UNIX environment supports a number of semi-automated technical and administrative operational station tasks. The x window user interface generates multiple simultaneous color graphics displays, providing direct operator visibility and control over a wide range of operational station functions.

Edge, David R.↗

A Framework for Neural Network Inference on FPGA-Centric SmartNICs

FPGA-based SmartNICs offer great potential to significantly improve the performance of high-performance computing and warehouse data processing by tightly coupling support for reconfigurable data-intensive computation with cross-node communication, thereby mitigating the von Neumann bottleneck. Existing work, however, has been generally been limited in that it assumes an accelerator model where kernels are offloaded to SmartNICs, but most control tasks are left to the CPUs. This leads to frequent waiting, inferior performance, and scaling challenges. In this work, we propose a new distributive data-centric computing framework, named FCsN, for reconfigurable SmartNIC-based systems. Through a lightweight task circulation execution model and its implementation architecture, FCsN allows the complete detaching of kernel execution, control logic, system scheduling, and network communication to the SmarNICs. This boosts performance by: (i) avoiding the control dependency with CPUs and (ii) supporting streaming kernel execution and network communication at line rate and in a very fine-grained manner. We demonstrate the efficiency and flexibility of FCsN using various types of neural network applications including graph neural networks; as these last are both irregular and data intensive they offer an especially robust demonstration. Evaluations using commonly-used neural network models and graph datasets show that a system with the support of FCsN can achieve, on average, 144 speedups over the MPI-based standard CPU baselines.

Guo, Anqi↗

NASA's Next Generation of Atmospheric Data Science

The Multi-Angle Imager for Aerosols (MAIA) and the Tropospheric Emission: Monitoring of Pollution(TEMPO) are NASA’s next-generation satellite missions for air quality monitoring. These missions will produce high-quality, high-resolution air quality data to support cross-displinary research. The MAIA mission is collaborating with health science researchers and epidemiologists to study the impacts of air quality on health outcomes. TEMPO aims to improve our understanding of tropospheric air pollution chemistry and our ability to make predictions about air quality and climate forcing. TEMPO will offer hourly measurements of tropospheric ozone, aerosols, and clouds focused on North America at high-spatial resolution, while MAIA will produce high-resolution measurements of speciated particulate matter targeting densely populated cities around the globe. Data from these missions will help improve our understanding of the sources, types, and interactions among the aerosols and trace gases that are polluting Earth’s atmosphere, as well as our understanding of the impact of air pollution on pollution on a wide range of important areas including human health, agriculture, weather, and climate change. The challenges of cross-disciplinary research, computationally expensive multi-variate analyses, and high-resolution data at both local and global scales are driving substantial changes across all of NASA’s Distributed Active Archive Centers (DAACs). High resolution data at scales such these requires a new approach to data ingest, archive, and publication. Like other NASA DAACs, the Atmospheric Science Data Center (ASDC), the DAAC that will be responsible for publishing MAIA and TEMPO data products has historically archived and distributed data on premise. DAACs of the future will archive and distribute data in the cloud, enabling them to remake themselves as research-focused data centers that will support on-demand, data-intensive computations for highly accurate retrospective analyses and predictions. Under the new paradigm, data formats and metadata must support on-demand spatial and temporal sub-setting, as well as other data transformation services such as re-gridding and re-sampling. This presentation will discuss work being done to address data formatting and metadata requirements in this dynamic new environment. In addition to the changes in data stewardship practices at the ASDC, the increased focus on supporting scientific research is driving changes in the relationship between DAACs and researchers. While the ASDC will continue to provide first rate data management and stewardship, it is increasingly focused on serving as a partner not only to the science teams that gather and produce the data it publishes, but to the researchers that use that data.

Beth Huffer↗

Efficient Reinforcement Learning for Real-Time Hardware-Based Energy System Experiments: Preprint

In the context of urgent climate challenges and the pressing need for rapid technology development, Reinforcement Learning (RL) stands as a compelling data-driven method for controlling real-world physical systems. However, RL implementation often entails time-consuming and computationally intensive data collection and training processes, rendering them inefficient for real-time applications that lack non-real-time models. To address these limitations, real-time emulation techniques have emerged as valuable tools for the lab-scale rapid prototyping of intricate energy systems. While emulated systems offer a bridge between simulation and reality, they too face constraints, hindering comprehensive characterization, testing, and development. In this research, we construct a surrogate model using limited data from simulated systems, enabling an efficient and effective training process for a Double Deep Q-Network (DDQN) agent for future deployment. Our approach is illustrated through a hydropower application, demonstrating the practical impact of our approach on climate-related technology development.

deep Q-learning↗

COLLABORATIVE DEVELOPMENT PROJECTS - PHOTONIC MEMORY CONTROLLER MODULE (P-MCM)

As computational density for high-performance computing and big-data services continues to scale, performance scalability of next generation computing systems is becoming increasingly constrained by limitations in memory access, power dissipation and chip packaging. The processor-memory communication bottleneck, a major challenge in current multicore processors due to limited pin-out and power budget, presents a detrimental scaling barrier to data-intensive computing. A consortium team of small businesses and leading researchers that includes experts from photonics processor-memory architecture, III/V photonic laser design/fabrication, silicon photonics design/fabrication, photonics packaging and assembly, and FPGA-based high-performance memory controller IP development – to collaboratively develop a commercialization path for a Photonic Memory Controller Module (P-MCM).

97 MATHEMATICS AND COMPUTING↗

Silicon compatible Sn-based resistive switching memory

Large banks of cheap, fast, non-volatile, energy efficient, scalable solid-state memories are an increasingly essential component for today's data intensive computing. Conductive-bridge random access memory (CBRAM) – which involves voltage driven formation and dissolution of Cu or Ag filaments in a Cu (or Ag) anode/dielectric (HfO 2 or Al 2 O 3 )/inert cathode device – possesses the necessary attributes to fit the requirements. Cu and Ag are, however, fast diffusers and known contaminants in silicon microelectronics. In this paper, employing a criterion for electrode metal selection applicable to cationic filamentary devices and using first principles calculations for estimating diffusion barriers in HfO 2 , we identify tin (Sn) as a rational, silicon CMOS compatible replacement for Cu and Ag anodes in CBRAM devices. We then experimentally fabricate Sn based CBRAM devices and demonstrate very fast, steep-slope memory switching as well as threshold switching, comparable to Cu or Ag based devices. Furthermore, time evolution of the cationic filament formation along with the switching mechanism is discussed based on time domain measurements (I vs. t) carried out under constant voltage stress. Finally, the time to threshold is shown to be a function of both the voltage stress (V stress ) as well as the initial leakage current (I 0 ) through the device.

42 ENGINEERING↗

Data Summarization and Inference at Scale

This is the final report for the DOE ASCR grant SC-0022260, Data Summarization and Inference at Scale, PI: Alex Pothen, Purdue University. The goal of the project was to solve data-intensive and compute-intensive problems in the physical sciences, engineering, information science, data science, etc. by designing and implementing new algorithms that could work with a subset of the data. The four subgoals were: (a) The solution of problems where the data is too large to be stored in the memory of a computer. In this streaming model of computation, the data arrives as a stream of elements to the computer, each element is processed as it arrives, and a decision is made to discard the data or to store it; only a small subset of the data proportional to the size of the output solution is stored, and when all the data has been streamed, a solution to the problem is computed from the stored subset. (b) The use of machine learning methods to compute solutions to data-intensive problems. The use of GPUs is critical to obtain high performance on machine learning tasks, but their memory sizes are smaller relative to that of CPUs. For large-scale problems, the data is sampled many times, and small samples are used with repetition, for robustness, to compute solutions to inference tasks. This sampling reduces the memory required to solve the problem, but attention is needed to avoid slow convergence to the solutions, and reduced accuracy of inference. We propose submodular optimization, Large Language Models, and physics-informed neural networks to enable GPU computations here. (c) Modeling and visualization of high-dimensional data using interpretable features. Clinical proteomic data sets from immunology for the detection of cancer and other diseases are temporal and high-dimensional, and algorithms for visualizing these data sets using clinically interpretable features are lacking. We propose methods that compute distances based on the optimal transportation problem and graph edit distances to address this problem. We also propose the use of optimal transport-based distances, spatial statistics, and network structure to classify image data sets, We apply these algorithms to electron micrographs of the peripheral nervous system in the digestive tract. (d) The design of data-intensive algorithms on emerging architectures, specifically, noisy, intermediate-scale quantum (NISQ) devices. Quantum computers offer the possibility of exploring large solution spaces due to the principle of superposition, but current quantum computers are limited by few qubits, short coherence times due to noise, poor interconections among the qubits, etc. We propose the use of the divide and conquer paradigm to solve large-scale problems, wherein collections of small subproblems are solved on the quantum devices, and the solutions to the subproblems are integrated into a solution for the original problem on a classical computer.

97 MATHEMATICS AND COMPUTING↗

Mochi: Composing Data Services for High-Performance Computing Environments

Technology enhancements and the growing breadth of application workflows running on high-performance computing (HPC) platforms drive the development of new data services that provide high performance on these new platforms, provide capable and productive interfaces and abstractions for a variety of applications, and are readily adapted when new technologies are deployed. The Mochi framework enables composition of specialized distributed data services from a collection of connectable modules and subservices. Rather than forcing all applications to use a one-size-fits-all data staging and I/O software configuration, Mochi allows each application to use a data service specialized to its needs and access patterns. This paper introduces the Mochi framework and methodology. The Mochi core components and microservices are described. Examples of the application of the Mochi methodology to the development of four specialized services are detailed. Finally, a performance evaluation of a Mochi core component, a Mochi microservice, and a composed service providing an object model is performed. The paper concludes by positioning Mochi relative to related work in the HPC space and indicating directions for future work.

97 MATHEMATICS AND COMPUTING↗

2019 Budget Request for the DOE Computational Science Graduate Fellowship (CSGF) Grant

The Department of Energy Computational Science Graduate Fellowship (DOE CSGF) is necessary to meet the continual challenging national workforce needs that arise as computational science and engineering problems continue to grow in scope and complexity. Computational science and engineering (CSE) is a multidisciplinary approach that uses scientific computing to solve practical problems methods and to supply technical tools across the scientific discovery spectrum. In particular, the DOE CSGF emphasizes high-performance computing (HPC) that enables CSE that advances science and engineering in directions important to the DOE and the economy in general. Over the past half-century, HPC has been an essential tool for DOE’s success. During this period, important missions, such as nuclear stockpile stewardship, have turned to HPC as an essential technology. Entire science disciplines, such as biology and cosmology, have been transformed through the augmentation of scientific observation via HPC. At government laboratories and in industry, DOE CSGF alumni are helping push traditional HPC boundaries while contributing to discoveries in high-energy physics, renewable energy, fusion-reactor design, additive manufacturing, nanomaterials for next-generation batteries and transistors, and turbine and advanced nuclear reactor modeling. In addition, HPC is used to address national health needs that will eventually point to cures both by helping cancer researchers manage and analyze huge troves of data, by simulating biological mechanisms, and by accelerating drug development — including continuing to rise to the challenge of pandemic-related research. A 2023 report from the ASCAC Subcommittee on American Competitiveness and Innovation to the ASCR office, “Can the United States Maintain Its Leadership in High-Performance Computing?” says of the Program, “The CSGF program provides a barometer for disciplines that will be of interest to future DOE computing.” An explosion in scientific and technological data has driven the need for increasingly sophisticated HPC to transform those data into scientific understanding. With access to more and more data and the proliferation of HPC, Machine Learning and Artificial Intelligence are experiencing a renaissance, complementing the now well-established use of computational simulation. Indeed, in its September 2020 subcommittee report on “AI/ML, Data Intensive Science and High-Performance Computing”, the DOE Advanced Scientific Computing Advisory Committee (ASCAC) explicitly called for a fellowship program to train computational and data scientists to tackle exascale and data-intensive computing challenges. This collaboration of empirical and theory-based modeling will increasingly inform federal policymakers whose decisions affect American society and future generations, and it requires highly skilled and intellectually agile computational scientists who can support the fast-moving DOE National Laboratory research environment. In fact, the DOE CSGF program has explicitly and consistently addressed this need.

97 MATHEMATICS AND COMPUTING↗