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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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All sourcesNASA NTRSDOE OSTI
DOE OSTI2013

JAva GUi for Applied Research (JAGUAR) v 3.0

JAGUAR is a Java software tool for automatically rendering a graphical user interface (GUI) from a structured input specification. It is designed as a plug-in to the Eclipse workbench to enable users to create, edit, and externally execute analysis application input decks and then view the results. JAGUAR serves as a GUI for Sandia's DAKOTA software toolkit for optimization and uncertainty quantification. It will include problem (input deck)set-up, option specification, analysis execution, and results visualization. Through the use of wizards, templates, and views, JAGUAR helps uses navigate the complexity of DAKOTA's complete input specification. JAGUAR is implemented in Java, leveraging Eclipse extension points and Eclipse user interface. JAGUAR parses a DAKOTA NIDR input specification and presents the user with linked graphical and plain text representations of problem set-up and option specification for DAKOTA studies. After the data has been input by the user, JAGUAR generates one or more input files for DAKOTA, executes DAKOTA, and captures and interprets the results

Chan, Ethan↗
DOE OSTI2013

DAKOTA JAGUAR User's Manual (V.3.0)

JAGUAR (JAva GUi for Applied Research) is a Java software tool providing an advanced text editor and graphical user interface (GUI) to manipulate DAKOTA (Design Analysis Kit for Optimization and Terascale Applications) input specifications. This document focuses on the features necessary to use JAGUAR.

Adams, Brian M.↗
DOE OSTI2015

LIHE Spectral Dynamics and Jaguar Data Acquisition System Measurement Assurance Results 2014

The Light Initiated High Explosive (LIHE) facility performs high rigor, high consequence impulse testing for the nuclear weapons (NW) community. To support the facility mission, LIHE's extensive data acquisition system (DAS) is comprised of several discrete components as well as a fully integrated system. Due to the high consequence and high rigor of the testing performed at LIHE, a measurement assurance plan (MAP) was developed in collaboration with NW system customers to meet their data quality needs and to provide assurance of the robustness of the LIHE DAS. While individual components of the DAS have been calibrated by the SNL Primary Standards Laboratory (PSL), the integrated nature of this complex system requires verification of the complete system, from end-to-end. This measurement assurance plan (MAP) report documents the results of verification and validation procedures used to ensure that the data quality meets customer requirements.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗
DOE OSTI2023

On the detectability of strong lensing in near-infrared surveys

We present new lensing frequency estimates for existing and forthcoming deep near-infrared surveys, including those from JWST and VISTA. The estimates are based on the JAdes extragalactic Ultradeep Artificial Realisations (JAGUAR) galaxy catalogue accounting for the full photometry and morphologies for each galaxy. Due to the limited area of the JAGUAR simulations, they are less suited to wide-area surveys; however, we also present extrapolations to the surveys carried out by Euclid and the Nancy Grace Roman Space Telescope. The methodology does not make assumptions about the nature of the lens itself and probes a wide range of lens masses. The lenses and sources are selected from the same catalogue and extend the analysis from the visible bands into the near-infrared. After generating realistic simulated lensed sources and selecting those that are detectable with SNR > 20, we verify the lensing frequency expectations against published lens samples selected in the visible, finding them to be broadly consistent. We find that JWST could yield ~65 lensed systems in COSMOS-Web, of which ~25 per cent have source redshifts >4. Deeper, narrower programs (e.g. JADES-Medium) will probe more typical source galaxies (in flux and mass) but will find fewer systems (~25). Of the surveys we investigate, we find 55–80 per cent have detectable multiple imaging. Forthcoming NIR surveys will likely reveal new and diverse strong lens systems including lensed sources that are at higher redshift (JWST) and dustier, more massive and older (Euclid NISP) than those typically detected in the corresponding visible surveys.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2014

I/O Router Placement and Fine-Grained Routing on Titan to Support Spider II

The Oak Ridge Leadership Computing Facility (OLCF) introduced the concept of Fine-Grained Routing in 2008 to improve I/O performance between the Jaguar supercomputer and Spider, OLCF s center-wide Lustre file system. Fine-grained routing organizes I/O paths to minimize congestion. Jaguar has since been upgraded to Titan, providing more than a ten-fold improvement in peak performance. To support the center s increased computational capacity and I/O demand, the Spider file system has been replaced with Spider II. Building on the lessons learned from Spider, an improved method for placing LNET routers was developed and implemented for Spider II. The fine-grained routing scripts and configuration have been updated to provide additional optimizations and better match the system setup. This paper presents a brief history of fine-grained routing at OLCF, an introduction to the architectures of Titan and Spider II, methods for placing routers in Titan, and details about the fine-grained routing configuration.

Ezell, Matthew A↗
DOE OSTI2015

Small Improvements Make a Big Difference

Modeling and simulation completed on ORNL supercomputers (Jaguar and Titan) improved highway fuel efficiency, taking a concept from design to market in 18 months.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
DOE OSTI2013

Evaluating the performance of parallel subsurface simulators: An illustrative example with PFLOTRAN

To better inform the subsurface scientist on the expected performance of parallel simulators, this work investigates performance of the reactive multiphase flow and multicomponent biogeochemical transport code PFLOTRAN as it is applied to several realistic modeling scenarios run on the Jaguar supercomputer. After a brief introduction to the code's parallel layout and code design, PFLOTRAN's parallel performance (measured through strong and weak scalability analyses) is evaluated in the context of conceptual model layout, software and algorithmic design, and known hardware limitations. PFLOTRAN scales well (with regard to strong scaling) for three realistic problem scenarios: (1) in situ leaching of copper from a mineral ore deposit within a 5-spot flow regime, (2) transient flow and solute transport within a regional doublet, and (3) a real-world problem involving uranium surface complexation within a heterogeneous and extremely dynamic variably saturated flow field. Weak scalability is discussed in detail for the regional doublet problem, and several difficulties with its interpretation are noted.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2013

Accelerating virtual high-throughput ligand docking: current technology and case study on a petascale supercomputer

In this paper, we give the current state of high-throughput virtual screening. We describe a case study of using a task-parallel Message Passing Interface version of AutoDock4 to run a virtual high-throughput screen of one million compounds on the Jaguar Cray XK6 Supercomputer at Oak Ridge National Laboratory. We include a description of scripts developed to increase the efficiency of the predocking file preparation and postdocking analysis. A detailed tutorial, scripts, and source code for this Message Passing Interface version of AutoDock4 are available online at http://www.bio.utk.edu/baudrylab/autodockmpi.htm.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2013

Dynamic load balancing for petascale quantum Monte Carlo applications: The Alias method

Diffusion Monte Carlo is the most accurate widely used Quantum Monte Carlo method for the electronic structure of materials, but it requires frequent load balancing or population redistribution steps to maintain efficiency and avoid accumulation of systematic errors on parallel machines. The load balancing step can be a significant factor affecting performance, and will become more important as the number of processing elements increases. We propose a new dynamic load balancing algorithm, the Alias Method, and evaluate it theoretically and empirically. An important feature of the new algorithm is that the load can be perfectly balanced with each process receiving at most one message. It is also optimal in the maximum size of messages received by any process. We also optimize its implementation to reduce network contention, a process facilitated by the low messaging requirement of the algorithm. Empirical results on the petaflop Cray XT Jaguar supercomputer at ORNL showing up to 30% improvement in performance on 120,000 cores. The load balancing algorithm may be straightforwardly implemented in existing codes. The algorithm may also be employed by any method with many near identical computational tasks that requires load balancing.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2013

SCORPIO: A scalable two-phase parallel I/O library with application to a large scale subsurface simulator

Inefficient parallel I/O is known to be a major bottleneck among scientific applications employed on supercomputers as the number of processor cores grows into the thousands. Our prior experience indicated that parallel I/O libraries such as HDF5 that rely on MPI-IO do not scale well beyond 10K processor cores, especially on parallel file systems (like Lustre) with single point of resource contention. Our previous optimization efforts for a massively parallel multi-phase and multi-component subsurface simulator (PFLOTRAN) led to a two-phase I/O approach at the application level where a set of designated processes participate in the I/O process by splitting the I/O operation into a communication phase and a disk I/O phase. The designated I/O processes are created by splitting the MPI global communicator into multiple sub-communicators. The root process in each sub-communicator is responsible for performing the I/O operations for the entire group and then distributing the data to rest of the group. This approach resulted in over 25X speedup in HDF I/O read performance and 3X speedup in write performance for PFLOTRAN at over 100K processor cores on the ORNL Jaguar supercomputer. This research describes the design and development of a general purpose parallel I/O library called Scorpio that incorporates our optimized two-phase I/O approach. The library provides a simplified higher level abstraction to the user, sitting atop existing parallel I/O libraries (such as HDF5) and implements optimized I/O access patterns that can scale on larger number of processors. Performance results with standard benchmark problems and PFLOTRAN indicate that our library is able to maintain the same speedups as before with the added flexibility of being applicable to a wider range of I/O intensive applications.

Sreepathi, Sarat↗
DOE OSTI2013

A lightweight I/O scheme to facilitate spatial and temporal queries of scientific data analytics

In the era of petascale computing, more scientific applications are being deployed on leadership scale computing platforms to enhance the scientific productivity. Many I/O techniques have been designed to address the growing I/O bottleneck on large-scale systems by handling massive scientific data in a holistic manner. While such techniques have been leveraged in a wide range of applications, they have not been shown as adequate for many mission critical applications, particularly in data postprocessing stage. One of the examples is that some scientific applications generate datasets composed of a vast amount of small data elements that are organized along many spatial and temporal dimensions but require sophisticated data analytics on one or more dimensions. Including such dimensional knowledge into data organization can be beneficial to the efficiency of data post-processing, which is often missing from exiting I/O techniques. In this study, we propose a novel I/O scheme named STAR (Spatial and Temporal AggRegation) to enable high performance data queries for scientific analytics. STAR is able to dive into the massive data, identify the spatial and temporal relationships among data variables, and accordingly organize them into an optimized multi-dimensional data structure before storing to the storage. This technique not only facilitates the common access patterns of data analytics, but also further reduces the application turnaround time. In particular, STAR is able to enable efficient data queries along the time dimension, a practice common in scientific analytics but not yet supported by existing I/O techniques. In our case study with a critical climate modeling application GEOS-5, the experimental results on Jaguar supercomputer demonstrate an improvement up to 73 times for the read performance compared to the original I/O method.

Tian, Yuan↗
DOE OSTI2013

DynaM: Dynamic Multiresolution Data Representation for Large-Scale Scientific Analysis

Fast growing large-scale systems enable scientific applications to run at a much larger scale and accordingly produce gigantic volumes of simulation output. Such data imposes a grand challenge to post-processing tasks such as visualization and data analysis, because these tasks are often performed at a host machine that is remotely located and equipped with much less memory and storage resources. During the simulation runs, it is also desirable for scientists to be able to interactively monitor and steer the progress of simulation. This requires scientific data to be represented in an efficient form for initial exploration and computation steering. In this paper, we propose DynaM a software framework that can represent scientific data in a multiresolution form, and dynamically organize data blocks into an optimized layout for efficient scientific analysis. DynaM supports a convolution-based multiresolution data representation for abstracting scientific data for visualization at a wide spectrum of resolution. To support the efficient generation and retrieval of different data granularities from such representation, a dynamic data organization in DynaM is enabled to cater distinct peculiarities of different size data blocks for efficient and balanced I/O performance. Our experimental results demonstrate that DynaM can efficiently represent large scientific dataset and speed up the visualization of multidimensional scientific data. An up to 29 times speedup is achieved on Jaguar supercomputer at Oak Ridge National Laboratory.

Tian, Yuan↗
DOE OSTI2015

Comparative I/O workload characterization of two leadership class storage clusters. In: PDSW '15 Proceedings of the 10th Parallel Data Storage Workshop

The Oak Ridge Leadership Computing Facility (OLCF) is a leader in large-scale parallel file system development, design, deployment and continuous operation. For the last decade, the OLCF has designed and deployed two large center-wide parallel file systems. The first instantiation, Spider 1, served the Jaguar supercomputer and its predecessor, Spider 2, now serves the Titan supercomputer, among many other OLCF computational resources. The OLCF has been rigorously collecting file and storage system statistics from these Spider systems since their transition to production state. In this paper we present the collected I/O workload statistics from the Spider 2 system and compare it to the Spider 1 data. Our analysis show that the Spider 2 workload is more more write-heavy I/O compared to Spider 1 (75% vs. 60%, respectively). The data also show the OLCF storage policies such as periodic purges are effectively managing the capacity resource of Spider 2. Furthermore, due to improvements in tdm_multipath and ib_srp software, we are utilizing the Spider 2 system bandwidth and latency resources more effectively. The Spider 2 bandwidth usage statistics shows that our system is working within the design specifications. However, it is also evident that our scientific applications can be more effectively served by a burst buffer storage layer. All the data has been collected by monitoring tools developed for the Spider ecosystem. We believe the observed data set and insights will help us better design the next-generation Spider file and storage system. It will also be helpful to the larger community for building more effective large-scale file and storage systems.

Gunasekaran, Raghul↗
DOE OSTI2015

NIDR (New Input Deck Reader) V2.0 2

NIDR (New Input Deck Reader) is a facility for processing block-structured input to large programs. NIDR was written to simplify maintenance of DAKOTA (a program for uncertainty quantification and optimization), to provide better error checking of input and to allow use of aliases in the input. While written to support DAKOTA input conventions, NIDR itself is independent of DAKOTA and can be used in many kinds of programs. The initial version of NIDR was copyrighted in 2008. We have since extended NIDR to support a graphical user interface called Jaguar for DAKOTA. In the Review and Approval process for an updated paper on NIDR, the Classification Approver states that a new copyright assertion should be performed.processing input to programs. NIDR is not primarily for military applications.

Gay, David↗
DOE OSTI2014

Massively Parallel, Three-Dimensional Transport Solutions for the k-Eigenvalue Problem

We have implemented a new multilevel parallel decomposition in the Denovo dis- crete ordinates radiation transport code. In concert with Krylov subspace iterative solvers, the multilevel decomposition allows concurrency over energy in addition to space-angle, enabling scalability beyond the limits imposed by the traditional KBA space-angle partitioning. Furthermore, a new Arnoldi-based k-eigenvalue solver has been implemented. The added phase-space concurrency combined with the high- performance Krylov and Arnoldi solvers has enabled weak scaling to O(100K) cores on the Jaguar XK6 supercomputer. The multilevel decomposition provides sucient parallelism to scale to exascale computing and beyond.

Arnoldi↗
DOE OSTI2013

High Performance Computing Facility Operational Assessment, 2012 Oak Ridge Leadership Computing Facility

Oak Ridge National Laboratory’s Leadership Computing Facility (OLCF) continues to deliver the most powerful resources in the United States for open science. At 2.33 petaflops peak performance, the Cray XT Jaguar delivered more than 1.4 billion core hours in calendar year (CY) 2012 to researchers around the world for performing computational simulations relevant to national and energy security; advancing the frontiers of knowledge in physical sciences and areas of biological, medical, environmental, and computer sciences; and providing world-class research facilities for the nation’s science enterprise. OLCF users achieved numerous wide-ranging research accomplishments and technological innovations in 2012. It is not possible to fully summarize the breadth and impact of their productivity within this brief report—OLCF researchers published more than 300 research articles in 2012 alone. Here we identify selected accomplishments that advance the state of the art in science and engineering research and development. The work was recognized through peer-review publications in notable journals such as Science, Nature, and The Proceedings of the National Academy of Sciences (PNAS), among the many noted in this report. Exploration of the nuclear landscape carried out by Innovative and Novel Computational Impact on Theory and Experiment (INCITE) researchers and their theoretical prediction of isotopes were featured in Nature in 2012 (see Section 3.2.2). On the other end of the physical-scale spectrum, researchers executed a 22,000-year transient Earth System Model simulation that explained the misleading lag of carbon dioxide behind Antarctic temperature records and pointed to carbon dioxide’s role in driving global climate change over glacial cycles. This deglaciation study and related work by OLCF users were featured in Nature and PNAS in 2012 (see Section 3.2.3). Other representative achievements by OLCF users include generation of spectroscopic and photometric data for more accurate distance measurements, necessary for planning future National Science Foundation and Department of Energy (DOE) missions such as the Large Synoptic Survey Telescope and the Palomar Transient Factory; calculations to enable the experimental verification of Bose glass; and screening of 2 million compounds against a targeted receptor in a matter of days, as opposed to the months that would be required for computing clusters, creating a vast library of molecular compounds that can be used for future screenings of potential drug candidates. These and other accomplishments are described in Section 3.

OA↗