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At least 1,297 records · Page 72

Tuning HDF5 subfiling performance on parallel file systems

Subfiling is a technique used on parallel file systems to reduce locking and contention issues when multiple compute nodes interact with the same storage target node. Subfiling provides a compromise between the single shared file approach that instigates the lock contention problems on parallel file systems and having one file per process, which results in generating a massive and unmanageable number of files. In this paper, we evaluate and tune the performance of recently implemented subfiling feature in HDF5. In specific, we explain the implementation strategy of subfiling feature in HDF5, provide examples of using the feature, and evaluate and tune parallel I/O performance of this feature with parallel file systems of the Cray XC40 system at NERSC (Cori) that include a burst buffer storage and a Lustre disk-based storage. We also evaluate I/O performance on the Cray XC30 system, Edison, at NERSC. Our results show performance benefits of 1.2X to 6X performance advantage with subfiling compared to writing a single shared HDF5 file. We present our exploration of configurations, such as the number of subfiles and the number of Lustre storage targets to storing files, as optimization parameters to obtain superior I/O performance. Based on this exploration, we discuss recommendations for achieving good I/O performance as well as limitations with using the subfiling feature.

97 MATHEMATICS AND COMPUTING↗

Anomaly Detection for Resilient Control Systems Using Fuzzy-Neural Data Fusion Engine

Resilient control systems in critical infrastructures require increased cyber-security and state-awareness. One of the necessary conditions for achieving the desired high level of resiliency is timely reporting and understanding of the status and behavioral trends of the control system. This paper describes the design and development of a neural-network based data-fusion system for increased state-awareness of resilient control systems. The proposed system consists of a dedicated data-fusion engine for each component of the control system. Each data-fusion engine implements three-layered alarm system consisting of: (1) conventional threshold-based alarms, (2) anomalous behavior detector using self-organizing maps, and (3) prediction error based alarms using neural network based signal forecasting. The proposed system was integrated with a model of the Idaho National Laboratory Hytest facility, which is a testing facility for hybrid energy systems. Experimental results demonstrate that the implemented data fusion system provides timely plant performance monitoring and cyber-state reporting.

97 MATHEMATICS AND COMPUTING↗

GDSCalc: A Web-Based Application for Evaluating Discrete Graph Dynamical Systems

Discrete dynamical systems are used to model various realistic systems in network science, from social unrest in human populations to regulation in biological networks. A common approach is to model the agents of a system as vertices of a graph, and the pairwise interactions between agents as edges. Agents are in one of a finite set of states at each discrete time step and are assigned functions that describe how their states change based on neighborhood relations. Full characterization of state transitions of one system can give insights into fundamental behaviors of other dynamical systems. In this work, we describe a discrete graph dynamical systems (GDSs) application called GDSCalc for computing and characterizing system dynamics. It is an open access system that is used through a web interface. We provide an overview of GDS theory. This theory is the basis of the web application; i.e., an understanding of GDS provides an understanding of the software features, while abstracting away implementation details. We present a set of illustrative examples to demonstrate its use in education and research. Finally, we compare GDSCalc with other discrete dynamical system software tools. Our perspective is that no single software tool will perform all computations that may be required by all users; tools typically have particular features that are more suitable for some tasks. We situate GDSCalc within this space of software tools.

97 MATHEMATICS AND COMPUTING↗

Installation of Computerized Procedure System and Advanced Alarm System in the Human Systems Simulation Laboratory

This report describes the installation of two advanced control room technologies, an advanced alarm system and a computerized procedure system, into the Human Systems Simulation Laboratory (HSSL). Installation of these technologies enables future phases of this research by providing a platform to systematically evaluate the effect of these technologies on operator and plant performance.

60 APPLIED LIFE SCIENCES↗

HPC Annual Report 2017

Sandia National Laboratories has a long history of significant contributions to the high performance community and industry. Our innovative computer architectures allowed the United States to become the first to break the teraFLOP barrier—propelling us to the international spotlight. Our advanced simulation and modeling capabilities have been integral in high consequence US operations such as Operation Burnt Frost. Strong partnerships with industry leaders, such as Cray, Inc. and Goodyear, have enabled them to leverage our high performance computing (HPC) capabilities to gain a tremendous competitive edge in the marketplace. As part of our continuing commitment to providing modern computing infrastructure and systems in support of Sandia missions, we made a major investment in expanding Building 725 to serve as the new home of HPC systems at Sandia. Work is expected to be completed in 2018 and will result in a modern facility of approximately 15,000 square feet of computer center space. The facility will be ready to house the newest National Nuclear Security Administration/Advanced Simulation and Computing (NNSA/ASC) Prototype platform being acquired by Sandia, with delivery in late 2019 or early 2020. This new system will enable continuing advances by Sandia science and engineering staff in the areas of operating system R&D, operation cost effectiveness (power and innovative cooling technologies), user environment and application code performance.

97 MATHEMATICS AND COMPUTING↗

Experiences with High-Level Programming Directives for Porting Applications to GPUs. In: Facing the Multicore--Challenge II, Lecture Notes in Computer Science.

HPC systems now exploit GPUs within their compute nodes to accelerate program performance. As a result, high-end application development has become extremely complex at the node level. In addition to restructuring the node code to exploit the cores and specialized devices, the programmer may need to choose a programming model such as OpenMP or CPU threads in conjunction with an accelerator programming model to share and manage the different node resources. This comes at a time when programmer productivity and the ability to produce portable code has been recognized as a major concern. In order to offset the high development cost of creating CUDA or OpenCL kernels, directives have been proposed for programming accelerator devices, but their implications are not well known. In this paper, we evaluate the state of the art accelerator directives to program several applications kernels, explore transformations to achieve good performance, and examine the expressivity and performance penalty of using high-level directives versus CUDA. We also compare our results to OpenMP implementations to understand the benefits of running the kernels in the accelerator versus CPU cores.

CUDA Implementation↗

Efficient and robust stability analysis in the internal energy, volume, and moles (UVN) space

Hydrodynamic simulation of fluids in vessels is often based on the internal energy (U), volume (V), and the number of moles of all components ( re N = N 1 , N 2 , ..., N n ) as the working variables to determine the thermodynamic state by finding the global maximum of entropy. The procedure of finding the equilibrium state may be divided into two steps: stability analysis and phase-split computations. Stability analysis is performed first, and the phase-split computation proceeds if the system is unstable. Most of the past work on UVN space has been based on phase-split computations, while the stability analysis is barely investigated. Furthermore, previous studies for the stability analysis use only Newton's method to solve the non-linear algebraic equations. We present an efficient and robust approach for stability analysis where UVN is specified. The successive substitution iteration (SSI) is used to provide good initial guesses for Newton's method. The proposed approach results in a reduced number of unknowns and does not require a large number of iterations to achieve convergence in Newton's method. Overall, our proposed formulation is compatible with different equations of state and is applicable to both pure component and multi-components. The robustness and efficiency of the algorithm for stability analysis are demonstrated in various examples.

02 PETROLEUM↗

Phase stability and thermodynamic database validation in a set of non-equiatomic Al-Co-Cr-Fe-Nb-Ni high-entropy alloys

A series of six high-entropy alloys in non-equiatomic proportions were produced to study the phase stability across a range of compositions within the Al-Co-Cr-Fe-Nb-Ni system. Phase identification was performed using SEM, TEM, and XRD and computational tools were employed for comparison to the experimental findings. Complex microstructures were obtained following exposure at 900 °C with precipitation of Laves, NiAl, γ' and δ phases. Primary and secondary Laves populations were identified and found to become more stable with increasing Fe and Nb content. Additions of Nb promoted the formation of thin, plate-like, δ phase at the expense of the secondary Laves. The NiAl phase was observed to precipitate in the alloys with high Fe content, above the γ' solvus temperature. Overall, the thermodynamic predictions using Thermo-Calc with the TCNi8 database were accurate with respect to identifying the phase composition, while TTNi8 provided good phase stability results. Furthermore, significant differences were observed with respect to the solvus temperatures of the precipitate phases.

36 MATERIALS SCIENCE↗

Open-source framework for power system transmission and distribution dynamics co-simulation

The promise of the smart grid entails more interactions between the transmission and distribution networks, and there is an immediate need for tools to provide the comprehensive modelling and simulation required to integrate operations at both transmission and distribution levels. Existing electromagnetic transient simulators can perform simulations with integration of transmission and distribution systems, but the computational burden is high for large-scale system analysis. For transient stability analysis, currently there are only separate tools for simulating transient dynamics of the transmission and distribution systems. In this paper, we introduce an open source co-simulation framework “Framework for Network Co-Simulation” (FNCS), together with the decoupled simulation approach that links existing transmission and distribution dynamic simulators through FNCS. FNCS is a middleware interface and framework that manages the interaction and synchronization of the transmission and distribution simulators. Preliminary testing results show the validity and capability of the proposed open-source co-simulation framework and the decoupled co-simulation methodology.

Huang, Renke↗

Magnetizability and rotational g tensors for density fitted local second-order Møller-Plesset perturbation theory using gauge-including atomic orbitals

In this paper, we present theory and implementation of an efficient program for calculating magnetizabilities and rotational g tensors of closed-shell molecules at the level of local second-order Møller-Plesset perturbation theory (MP2) using London orbitals. Density fitting is employed to factorize the electron repulsion integrals with ordinary Gaussians as fitting functions. The presented program for the calculation of magnetizabilities and rotational g tensors is based on a previous implementation of NMR shielding tensors reported by S. Loibl and M. Schütz [J. Chem. Phys. 137, 084107 (2012)]. Extensive test calculations show (i) that the errors introduced by density fitting are negligible, and (ii) that the errors of the local approximation are still rather small, although larger than for nuclear magnetic resonance (NMR) shielding tensors. Electron correlation effects for magnetizabilities are tiny for most of the molecules considered here. MP2 appears to overestimate the correlation contribution of magnetizabilities such that it does not constitute an improvement over Hartree-Fock (when comparing to higher-order methods like CCSD(T)). For rotational g tensors the situation is different and MP2 provides a significant improvement in accuracy over Hartree-Fock. The computational performance of the new program was tested for two extended systems, the larger comprising about 2200 basis functions. It turns out that a magnetizability (or rotational g tensor) calculation takes about 1.5 times longer than a corresponding NMR shielding tensor calculation.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Cluster perturbation theory X: A parallel implementation of Lagrangian perturbation series for the coupled cluster singles and doubles ground-state energy through fifth order

We describe an efficient implementation of cluster perturbation and Møller-Plesset Lagrangian energy series through fifth order that target the coupled cluster singles and doubles energy utilizing the resolution of the identity approximation. We illustrate the computational performance of the implementation by performing ground state energy calculations on systems with up to 1200 basis functions using a single node and by comparison to conventional CCSD calculations. We further show that our hybrid MPI/OMP parallel implementation that also utilizes graphical processing units can be used to obtain fifth order energies on systems with almost 1200 basis functions with a 90 minute "time to solution" running on Frontier at Oak Ridge National Laboratory.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Composite Power System Reliability with Renewables and Customer Flexibility

Composite Power System Reliability is defined as the computational procedure that quantifies the probability that the power system will perform the function of delivering electric power to customers adequately, on a continuous basis and with an acceptable quality. This definition leaves many details undefined and exemplifies the ambiguity in reliability analysis. The increasing deployment of wind and PV creates additional uncertainties that make reliability analysis a rather complex issue. Because of increased uncertainty the need for composite reliability analysis and utilization of results in power system planning is critical. New approaches are emerging for dealing with these problems from the operational point of view, including demand response programs, tapping on customer and distributed resource flexibility and new control approaches. The key question to be addressed is: how the new operational paradigms affect composite power system reliability. Here, this paper presents the ongoing work of the IEEE Composite System Reliability Task Force of the IEEE PES Reliability, Risk, Probability Application (RRPA) Subcommittee.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Bayesian Framework for Multi-Timescale State Estimation in Low-Observable Distribution Systems

To support the smart grid paradigm, there has been a significant increase in sensor deployments and metering infrastructure in distribution systems. However, the measurements provided by these sensors and metering devices are typically sampled at different rates and could suffer from losses during the aggregation process. It is crucial to effectively reconcile the time-series measurements for a reliable state estimation. While weighted least squares has been the traditional approach for state estimation, sparsity-based approaches like matrix completion have become popular due to their superior performance in low-observability conditions. This paper proposes a Bayesian framework for both multi-timescale data aggregation and matrix completion based state estimation. Specifically, the multiscale time-series data aggregated from heterogenous sources are reconciled using a multitask Gaussian process that exploits the spatio-temporal correlations. Here, the resulting consistent timeseries alongwith the confidence bound on the imputations are fed into a Bayesian matrix completion method augmented with linearized power-flow constraints to accurately estimate the states in low-observability conditions. Results on three phase unbalanced IEEE 37 and IEEE 123 bus test systems reveal the superior performance of the proposed Bayesian framework. The computational complexity for the proposed Bayesian framework is also quantified.

42 ENGINEERING↗

A Supervised Machine Learning Approach to Control Energy Storage Devices

This paper introduces a supervised machine learning approach to predict and schedule the real-time operation mode of the next operation interval for residential PV/Battery systems controlled by mode-based controllers. The performance of the mode-based economic model-predictive control (EMPC) approach is used as the benchmark. The residential load and PV data used in the paper are 1-minute data downloaded from the the Pecan Street Project website. The optimal operation mode for each control interval is first derived from the historical data used as the training set. Then, four machine learning algorithms (i.e. neural network, support vector machine, logistic regression, and random forest algorithms) are applied. We compared the performance of the four algorithms when using different number of features and length of the training sets extracted from different months of the year. Simulation results show that using the machine learning approach can effectively improve the performance of the mode-based control system and reduce the computation effort of local controllers because the training can be completed on a cloud-based Machine Learning engine. Furthermore, the work presented in this paper paves the way for using a shared-learning platform to design controllers of residential PV/storage systems. This may significantly reduce the cost for implementing such systems.

25 ENERGY STORAGE↗

SU-D-12A-07: Optimization of a Moving Blocker System for Cone-Beam Computed Tomography Scatter Correction

Purpose: A moving blocker based strategy has shown promising results for scatter correction in cone-beam computed tomography (CBCT). Different parameters of the system design affect its performance in scatter estimation and image reconstruction accuracy. The goal of this work is to optimize the geometric design of the moving block system. Methods: In the moving blocker system, a blocker consisting of lead strips is inserted between the x-ray source and imaging object and moving back and forth along rotation axis during CBCT acquisition. CT image of an anthropomorphic pelvic phantom was used in the simulation study. Scatter signal was simulated by Monte Carlo calculation with various combinations of the lead strip width and the gap between neighboring lead strips, ranging from 4 mm to 80 mm (projected at the detector plane). Scatter signal in the unblocked region was estimated by cubic B-spline interpolation from the blocked region. Scatter estimation accuracy was quantified as relative root mean squared error by comparing the interpolated scatter to the Monte Carlo simulated scatter. CBCT was reconstructed by total variation minimization from the unblocked region, under various combinations of the lead strip width and gap. Reconstruction accuracy in each condition is quantified by CT number error as comparing to a CBCT reconstructed from unblocked full projection data. Results: Scatter estimation error varied from 0.5% to 2.6% as the lead strip width and the gap varied from 4mm to 80mm. CT number error in the reconstructed CBCT images varied from 12 to 44. Highest reconstruction accuracy is achieved when the blocker lead strip width is 8 mm and the gap is 48 mm. Conclusions: Accurate scatter estimation can be achieved in large range of combinations of lead strip width and gap. However, image reconstruction accuracy is greatly affected by the geometry design of the blocker.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Application Experiences on a GPU-Accelerated Arm-based HPC Testbed

This paper assesses and reports the experience of ten teams working to port, validate, and benchmark several High Performance Computing applications on a novel GPU-accelerated Arm testbed system. The testbed consists of eight NVIDIA Arm HPC Developer Kit systems, each one equipped with a server-class Arm CPU from Ampere Computing and two data center GPUs from NVIDIA Corp. The systems are connected together using InfiniBand interconnect. The selected applications and mini-apps are written using several programming languages and use multiple accelerator-based programming models for GPUs such as CUDA, OpenACC, and OpenMP offloading. Working on application porting requires a robust and easy-to-access programming environment, including a variety of compilers and optimized scientific libraries. The goal of this work is to evaluate platform readiness and assess the effort required from developers to deploy well-established scientific workloads on current and future generation Arm-based GPU-accelerated HPC systems. The reported case studies demonstrate that the current level of maturity and diversity of software and tools is already adequate for large-scale production deployments.

Elwasif, Wael↗

coloring v.1.0

SAND2024-02435O The software coloring allows applications written in the C++ language to generate publication-quality 2D plots. Its functionality is similar to Microsoft Excel's chart functionality or the Python language's matplotlib package. The value of coloring is that it is written purely in C++ and thus can be compiled on systems where Python is not available and linked into high performance computing software. For drawing shapes onto an image, coloring uses the mathematical definition of quadratic Bezier splines and uses Newton's method to search for the closest point on a spline to a given query point. This is then used to do accurate sub-pixel sampling to get clean, non-pixelated images. For working with the actual plot data, coloring has basic statistical methods such as finding maxima and minima as well as axis scaling such as logarithms. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

Ibanez, Daniel↗