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Running visualization and analysis algorithms on ATS-1 platforms is a critical step for supporting ATDM apps at the exascale level. We are leveraging VTK-m to port our algorithms to the ATS-specific hardware and ensuring that it runs well.
Presentation covering technologies and methods in genomics, bioinformatics, microbiome research, data visualization and biosurveillance
The Department of Energy (DOE) Office of Science (SC) operates dozens of national science user facilities that span many different disciplines. These facilities include accelerators, colliders, supercomputers, light sources and neutron sources, as well as facilities for studying the nanoworld, the environment, and the atmosphere. In Fiscal Year 2014 over 33,000 researchers from academia, industry, and government laboratories, spanning all fifty states and the District of Columbia, utilized these unique facilities to perform new scientific research. Each of these facilities generates vast amounts of scientific data, and the rate, size, and complexity of this data is rapidly increasing, thanks to advances in technology. A growing concern, which motivates this workshop, is the likely significant adverse impact on science programs that will result without significant advances in the capabilities needed to manage and gain knowledge from these collections of data. The purpose of this workshop, held 29 September 2015 through 1 October 2015 in Bethesda, MD, is to help the Advanced Scientific Computing Research (ASCR) and research community better understand needs related to the management, analysis, and visualization of experimental and observational data (EOD) collected and generated by experimental and observational science projects (EOS) at Office of Science user facilities.
The SNL ATDM Data and Visualization project is developing data management software to improve how applications store and exchange large datasets efficiently on Exascale platforms. The data portion of this project is composed of two related efforts: (1) production work focused on improving Sandia's IOSS library for mesh datasets and (2) research work focused on developing new communication software named FAODEL that enables applications in a workflow to exchange data more efficiently.
In this work, we propose function preserving projection (FPP), a new class of scalable linear projection techniques for finding interpretable structure in highdimensional datasets. Instead of focusing on preserving the structure of highdimensional points as traditional dimensionality reduction methods, we aim to find a 2D view of the data, in which human interpretable patterns of meaningful properties (that defined on the high-dimensional points, i.e., functions in a highdimensional domain) are revealed. Such a visual-centric approach introduces new avenues for exploratory data analysis and allows efficient implementation that provides a scalable tool for exploring potentially unknown or unexpected relationships in complex and large high-dimensional data (e.g., beyond millions of samples and tens of thousands of dimensions).
Diagram Image Retrieval - Identify and return visually similar images for a query diagram.
The XVis project brings together the key elements of research to enable scientific discovery at extreme scale. Scientific computing will no longer be purely about how fast computations can be performed. Energy constraints, processor changes, and I/O limitations necessitate significant changes in both the software applications used in scientific computation and the ways in which scientists use them. Components for modeling, simulation, analysis, and visualization must work together in a computational ecosystem, rather than working independently as they have in the past. This project provides the necessary research and infrastructure for scientific discovery in this new computational ecosystem by addressing four interlocking challenges: emerging processor technology, in situ integration, usability, and proxy analysis.
In the context of text-based analysis workflows, we propose that an effective analytic tool facilitates triage by a) enabling users to identify and set aside irrelevant content (i.e., reduce the complexity of information in a dataset) and b) develop a working mental model of which items are most relevant to the question at hand. This LDRD funded research developed a dataset that is enabling this team to evaluate propose normalized compression distance (NCD) as a task, user, and context-insensitive measure of categorization outcomes (Shannon entropy is reduced as order is imposed). Effective analytics tools help people impose order, reducing complexity in measurable ways. Our concept and research was documented in a paper accepted to the ACM conference "Beyond Time and Error: Novel Methods in Information Visualization Evaluation", part of the IEEE VisWeek Conference, Baltimore, MD, October 16-21, 2016. The paper is included as an appendix to this report.
This Laboratory Directed Research and Development (LDRD) effort performed fundamental Research and Development (R&D) to develop a robust radar processing algorithm capable of assessing the difference between an Unmanned Aerial System (UAS) and a biological target such as a bird, based on mathematics applied to the polarized radar returns of the target object, alone. The current threats of using such a UAS as a delivery platform for a host of destructive components is a major concern for the protection of various assets. Most recently, on 14th Sept. 2019, dozens of suicide or kamikaze drones (UAV-X) coordinated an attack on two Saudi oil facilities that demonstrated the potential to disrupt global oil supplies. While radar-based UAS detection systems can detect UAS at ranges greater than 1-km, the issues of excessive Nuisance/False Alarm Rates (NAR/FAR) from natural sources (birds in particular) has not been sufficiently addressed. In this effort we describe and utilize the Adaptive Polarization Difference Imaging-based (APDI) algorithms for the detection and automatic non-visual assessment of Unmanned Aerial System applications. Originally developed for optical imaging and sensing of polarization information in nature, the algorithms developed here are modified to serve for the target detection purposes in counter-UAS (cUAS) environments. We exploit the polarization statistics of the observing scene for detection and identification of changes within the scene and assess from these changes for UAS/bird classifications. Several cases are considered from independent data sources, including numerically generated data, anechoic chamber data as well as experimental radar data, to show the applicability of the techniques developed here. The methods developed in this effort are designed to be used in cUAS setups but have shown promise for a multitude of other radar-based classification uses as well.
This work was performed under a Cooperative Research and Development Agreement (CRADA) through the U.S. Department of Energy’s Gateway for Accelerated Innovations in Nuclear (GAIN) program in partnership with Oklo Inc., the industry participant. The broad goal of this project was to improve the visualization capabilities of OpenMC related to model development and simulation results. OpenMC is a Monte Carlo particle transport code that is developed and maintained by a broad community of contributors, of which Argonne National Laboratory plays a leading role.
Motivated by the need to improve visualizations of Earth's complex water cycle, this team embarked on non-trivial tasks to push from traditional methods of viewing data from simulations as static line graphs and contour plots into new realms with multiple dimensions (three spatial dimensions and the time component) viewable at once. To do this, we chose to feature the extremes in the general circulation of the atmosphere because these Earth system elements are short-lived, but impactful events. We used simulation data produced by the Department of Energy's (DOE) Energy Exascale Earth System Model (E3SM),which is designed to answer DOE science questions using DOE computing facilities. The E3SM project includes three sets of simulation experiments: cryosphere, bio-geochemical cycles, and the water cycle. The water cycle experiment campaign includes a set of simulations designed to understand how the water cycle will change in coming decades under a changing climate.
Many manufacturing industries require substantial capital and utilize energy intensive processes that involve complex phenomena. One example of such an industry is the steel industry, which is the fourth largest energy consuming industry in the U.S. By harnessing the power of High-Performance Computing (HPC) to enhance current simulation and visualization methods in the steel industry, it should be possible to increase resolution and/or decrease time of these methods by a factor of 1000. In this way, information can be obtained in a time frame that is useful for making business and engineering decisions, optimizing manufacturing processes and, ultimately, improving the completeness of U.S. industries. For example, if coke usage in blast furnaces were optimized such that the average coke rate was reduced from 797 lb/net tonne of hot metal (NTHM) to 604 lb/NTHM, costs could be reduced by $894 million/year. Additionally, members of the steel industry need the flexibility to efficiently operate blast furnaces at a range of production rates in order to meet fluctuating market demands. Large scale parameter studies can be utilized to discover workable operating parameters at a range of production rates.
Broad overview of non-traditional MCNP visualization approaches.
The credibility of an engineering model is of critical importance in large-scale projects. How concerned should an engineer be when reusing someone else's model when they may not know the author or be familiar with the tools that were used to create it? In this report, the authors advance engineers' capabilities for assessing models through examination of the underlying semantic structure of a model--the ontology. This ontology defines the objects in a model, types of objects, and relationships between them. In this study, two advances in ontology simplification and visualization are discussed and are demonstrated on two systems engineering models. These advances are critical steps toward enabling engineering models to interoperate, as well as assessing models for credibility. For example, results of this research show an 80% reduction in file size and representation size, dramatically improving the throughput of graph algorithms applied to the analysis of these models. Finally, four future problems are outlined in ontology research toward establishing credible models--ontology discovery, ontology matching, ontology alignment, and model assessment.
This project developed a web based visualization tool for comparing current and future nuclear fuel cycle options to low-carbon and conventional energy technologies in the United States. While nuclear power is well established as the gold-standard for baseload power production and also as the technology with the lowest overall carbon intensity of any commercial form of electricity generation. This project develop a web-based tool for electricity producers and consumers to compare renewable and conventional energy technologies to the conventional and advanced nuclear fuel cycle options. The work leveraged data on land use, carbon intensity, unit cost and pricing data for renewables from the open literature. Input data from the Advanced Fuel Cycle Cost Basis report will be used for current and advanced nuclear power systems. We coupled these data to energy flow and lifecycle models for user-selected energy generation and storage types. We will display economic comparisons from the perspectives of generators and consumers, as well as carbon production, land use, and reliability comparisons.
A great deal of progress has been made in improving the data reduction experience for the SANS instruments at the SNS and HFIR at ORNL. The existing data reduction toolset, drtsans, makes it possible to integrate data analysis and visualization tools into the data reduction scripts, thereby providing new opportunities for more automated data processing for users of the SNS and HFIR. Here, the first set of tools developed is described with usage examples.
The disparity between the computational speed and storage bandwidth, as demonstrated in Figure 1, is a well known problem that grows with each successive generation. The visualization community is principally responding to this issue by using in situ to reduce which data must be written to storage. However, other communities are taking different, possibly complementary approaches. In particular, data compression is a common general approach to reduce storage demands. Data compression technologies are typically not designed with post processing in mind. The principal metrics measured are compression ratio, the improved bandwidth to storage, and the error introduced. It is assumed that data is inflated to its full size before any post processing can happen. Although when talking about bandwidth disparities, HPC’s dirty little secret is that no part of the memory nor interconnect hardware is increasing at the rate of computation. For example, the Summit supercomputer has a peak computation rate almost 10 times its predecessor, Titan, but only about 4 times the memory, less than twice the aggregate memory bandwidth, and almost no improvement in the interconnect bisection bandwidth. Naively inflating data for post processing does not help with limitations in the memory and interconnect systems.
This report conducts a preliminary investigation of the available literature and summarizes some potential advanced measurement and visualization techniques for operating high-temperature heat pipe (HP) that can be implemented to support the United States (U.S.) Department of Energy (DOE) Microreactor Program (MRP). The primary objective for the extensive literature research is to investigate the possibilities and feasibility for the design and construction of an advanced experimental test facility with the aim of producing high-fidelity high-resolution heat pipe data during its operation. Based on the existing HP test facilities at Idaho National Laboratory (INL)—including the Single Primary Heat Extraction and Removal Emulator (SPHERE) and the Microreactor Agile Non-Nuclear Experimental Test Bed (MAGNET)—further efforts will be made to examine the technical feasibility to HP measurements and support the research, development, and demonstration (RD&D) process for an HP-cooled microreactor. Continuing collaborations with the Nuclear Energy Advanced Modeling and Simulation (NEAMS) program, other research institutes and universities are considered to be extremely important so that the experimental facility and resultant database can satisfy the validation needs of advanced heat pipe modeling codes being developed under DOE NEAMS program.