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At least 1,657 records · Page 92

Position Paper - pFLogger: The Parallel Fortran Logging framework for HPC Applications

In the context of high performance computing (HPC), software investments in support of text-based diagnostics, which monitor a running application, are typically limited compared to those for other types of IO. Examples of such diagnostics include reiteration of configuration parameters, progress indicators, simple metrics (e.g., mass conservation, convergence of solvers, etc.), and timers. To some degree, this difference in priority is justifiable as other forms of output are the primary products of a scientific model and, due to their large data volume, much more likely to be a significant performance concern. In contrast, text-based diagnostic content is generally not shared beyond the individual or group running an application and is most often used to troubleshoot when something goes wrong. We suggest that a more systematic approach enabled by a logging facility (or logger) similar to those routinely used by many communities would provide significant value to complex scientific applications. In the context of high-performance computing, an appropriate logger would provide specialized support for distributed and shared-memory parallelism and have low performance overhead. In this paper, we present our prototype implementation of pFlogger a parallel Fortran-based logging framework, and assess its suitability for use in a complex scientific application.

Fortran↗

POSITION PAPER - pFLogger: The Parallel Fortran Logging Framework for HPC Applications

In the context of high performance computing (HPC), software investments in support of text-based diagnostics, which monitor a running application, are typically limited compared to those for other types of IO. Examples of such diagnostics include reiteration of configuration parameters, progress indicators, simple metrics (e.g., mass conservation, convergence of solvers, etc.), and timers. To some degree, this difference in priority is justifiable as other forms of output are the primary products of a scientific model and, due to their large data volume, much more likely to be a significant performance concern. In contrast, text-based diagnostic content is generally not shared beyond the individual or group running an application and is most often used to troubleshoot when something goes wrong. We suggest that a more systematic approach enabled by a logging facility (or 'logger') similar to those routinely used by many communities would provide significant value to complex scientific applications. In the context of high-performance computing, an appropriate logger would provide specialized support for distributed and shared-memory parallelism and have low performance overhead. In this paper, we present our prototype implementation of pFlogger - a parallel Fortran-based logging framework, and assess its suitability for use in a complex scientific application.

Clune, Thomas L.↗

pFlogger: The Parallel Fortran Logging Utility

In the context of high performance computing (HPC), software investments in support of text-based diagnostics, which monitor a running application, are typically limited compared to those for other types of IO. Examples of such diagnostics include reiteration of configuration parameters, progress indicators, simple metrics (e.g., mass conservation, convergence of solvers, etc.), and timers. To some degree, this difference in priority is justifiable as other forms of output are the primary products of a scientific model and, due to their large data volume, much more likely to be a significant performance concern. In contrast, text-based diagnostic content is generally not shared beyond the individual or group running an application and is most often used to troubleshoot when something goes wrong. We suggest that a more systematic approach enabled by a logging facility (or 'logger)' similar to those routinely used by many communities would provide significant value to complex scientific applications. In the context of high-performance computing, an appropriate logger would provide specialized support for distributed and shared-memory parallelism and have low performance overhead. In this paper, we present our prototype implementation of pFlogger - a parallel Fortran-based logging framework, and assess its suitability for use in a complex scientific application.

Clune, Tom↗

Dynamic Analysis of the hFan, a Parallel Hybrid Electric Turbofan Engine

NASA and a variety of aerospace industry stakeholders are investing in conceptual studies of electrified aircraft, including parallel hybrid electric aircraft such as the Subsonic Ultra Green Aircraft Research (SUGAR) Volt. At this point, little of the work published in the literature has examined the transient behavior of the turbomachinery in these systems. This paper describes a control system built around the hFan, the parallel hybrid electric turbofan engine designed for the SUGAR Volt concept aircraft. This control system is used to show that the hFan, running with its baseline concept of operations, is capable of transient operation throughout the envelope. The design parameters of this controller are varied to assess the amount of operability margin built into the engine design, and whether this margin can be reduced to enable more aggressive designs, that may feature better fuel economy. Further, studies are performed as parameters for the hFan electric motor are varied to determine how the motor impacts the engine's need for transient operability margin. The studies suggest that the engine may be redesigned with as much as a 3% reduction in high pressure compressor stall margin. It was also demonstrated that appropriate design and control of the electric motor may be able to buy an additional 0.5% stall margin reduction or a turbine inlet temperature reduction of 35 degR, as tested at the sea-level static condition.

turboelectric↗

Dynamic Analysis of the hFan, a Parallel Hybrid Electric Turbofan Engine

NASA and a variety of aerospace industry stakeholders are investing in conceptual studies of electrified aircraft, including parallel hybrid electric aircraft such as the Subsonic Ultra Green Aircraft Research (SUGAR) Volt. At this point, little of the work published in the literature has examined the transient behavior of the turbomachinery in these systems. This paper describes a control system built around the hFan, the parallel hybrid electric turbofan engine designed for the SUGAR Volt concept aircraft. This control system is used to show that the hFan, running with its baseline concept of operations, is capable of transient operation throughout the envelope. The design parameters of this controller are varied to assess the amount of operability margin built into the engine design, and whether this margin can be reduced to enable more aggressive designs, that may feature better fuel economy. Further, studies are performed as parameters for the hFan electric motor are varied to determine how the motor impacts the engine's need for transient operability margin. The studies suggest that the engine may be redesigned with as much as a 3% reduction in high pressure compressor stall margin. It was also demonstrated that appropriate design and control of the electric motor may be able to buy an additional 0.5% stall margin reduction or a turbine inlet temperature reduction of 35 R, as tested at the sea-level static condition.

SUGAR Volt↗

Parallel Grand-Canonical Monte Carlo (ParaGrandMC) User’s Manual Version 2.0

This manual describes the commands and command line options for the Parallel Grand Canonical Monte Carlo version 2.0 (ParaGrandMC.2.0) simulation code. This is a highly scalable parallel FORTRAN 2003 code for simulating the thermodynamic evolution of materials at the atomic level, and predicting their thermodynamic state, phase diagram, chemical composition and mechanical properties. The code is specifically designed to simulate multi-component alloy systems, predict solid-state phase transformations such as austenite-martensite transformations, precipitate formation, recrystallization, capillary effects at interfaces, surface absorption, etc., which can aid the design of novel metallic alloys. While the software is mainly tailored for modeling metal alloys, it can also be used for other types of solid-state systems, and to some degree for liquid or gaseous systems, including multiphase systems forming solid-liquid-gas interfaces. In addition to performing Monte Carlo (MC) simulations, the code can also perform Molecular Dynamics (MD) and Langevin Dynamics (LD) simulations, which can be combined and interchanged with MC for faster and more efficient system evolution. A detailed description of the MC part of the code is provided in the NASA ParaGrandMC report: NASA/CR–2016-219202; http://www.sti.nasa.gov.

High performance computing↗

Enabling Thread Safety and Parallelism in the Program to Optimize Simulated Trajectories II

Development of the Program to Optimize Simulated Trajectories (POST) began in the 1970s. Since then, it has become widely utilized across NASA, industry, and academia to solve a variety of atmospheric ascent and entry problems. Its successor, POST2, has undergone many upgrades since its release in the 1990s. Recently, there has been an increasing desire to take advantage of the advances in parallel computing for both offline and online systems. Thus, modifications were made to allow POST2 to simulate multiple trajectories simultaneously without adversely affecting results. This capability is leveraged to calculate optimization solutions in parallel as opposed to sequentially. A demonstration of the benefits is presented using a small set of POST2 regression tests, as well as a project simulating a human-scale Lunar lander.

R. Anthony Williams↗

Enabling Thread Safety and Parallelism in the Program to Optimize Simulated Trajectories II

Development of the Program to Optimize Simulated Trajectories (POST) began in the 1970s. Since then, it has become widely utilized across NASA, industry, and academia to solve a variety of atmospheric ascent and entry problems. Its successor, POST2, has undergone many upgrades since its release in the 1990s. Recently, there has been an increasing desire to take advantage of the advances in parallel computing for both offline and online systems. Thus, modifications were made to allow POST2 to simulate multiple trajectories simultaneously without adversely affecting results. This capability is leveraged to calculate optimization solutions in parallel as opposed to sequentially. A demonstration of the benefits is presented using a small set of POST2 regression tests, as well as a project simulating a human-scale Lunar lander.

Anthony Williams↗

Electron Acceleration and Heating during Magnetic Reconnection in the Earth's Quasi-parallel Bow Shock

We perform a 2.5-dimensional particle-in-cell simulation of a quasi-parallel shock, using parameters for the Earth's bow shock, to examine electron acceleration and heating due to magnetic reconnection. The shock transition region evolves from the ion-coupled reconnection dominant stage to the electron-only reconnection dominant stage, as time elapses. The electron temperature enhances locally in each reconnection site, and ion-scale magnetic islands generated by ion-coupled reconnection show the most significant enhancement of the electron temperature. The electron energy spectrum shows a power law, with a power-law index around 6. We perform electron trajectory tracing to understand how they are energized. Some electrons interact with multiple electron-only reconnection sties, and Fermi acceleration occurs during multiple reflections. Electrons trapped in ion-scale magnetic islands can be accelerated in another mechanism. Islands move in the shock transition region, and electrons can obtain larger energy from the in-plane electric field than the electric potential in those islands. These newly found energization mechanisms in magnetic islands in the shock can accelerate electrons to energies larger than the achievable energies by the conventional energization due to the parallel electric field and shock drift acceleration. This study based on the selected particle analysis indicates that the maximum energy in the nonthermal electrons is achieved through acceleration in ion-scale islands, and electron-only reconnection accounts for no more than half of the maximum energy, as the lifetime of sub-ion-scale islands produced by electron-only reconnection is several times shorter than that of ion-scale islands.

Solar magnetic reconnection↗

Parametric Modeling and Mission Performance Analysis of a True Parallel Hybrid Turboprop Aircraft for Freighter Operations

Hybrid-electric propulsion systems for short-haul, cargo carrying aircraft have emerged as promising solutions for an environmentally sustainable future for commercial aviation. The novel propulsion architecture presents significant complexity and requires the development of new methodologies to account for the unique coupling and integration between critical design variables. This paper presents a comprehensive study on the modeling, performance assessment, and design space exploration of a C-130H freighter aircraft retrofitted with a parallel hybrid electric powertrain. Details on the development of parametric models for both the baseline and true parallel hybrid (TPH) aircraft and the integrated electrified aircraft propulsion (EAP) system sizing approach are presented along with detailed performance analyses of payload/range capabilities for short-haul cargo missions. For 2030, 2040, and 2050 EAP technology levels, the TPH C-130H configuration with a ~2.12 MW class EAP system has a range capability of 485-1,028 nautical miles and block fuel savings of 27-44%.

efficiency↗

Oblique Instability of Quasi-Parallel Whistler Waves in the Presence of Cold and Warm Electron Populations

Whistler waves propagating nearly parallel to the ambient magnetic field experience a nonlinear instability due to transverse currents when the background plasma has a population of sufficiently low energy electrons. Intriguingly, this nonlinear process may generate oblique electrostatic waves, including whistlers near the resonance cone with properties resembling oblique chorus waves in the Earth’s magnetosphere. Focusing on the generation of oblique whistlers, earlier analysis of the instability is extended here to the case where low-energy background plasma consists of both a “cold” population with energy of a few eV and a “warm” electron component with energy of the order of 100 eV. This is motivated by spacecraft observations in the Earth’s magnetosphere where oblique chorus waves were shown to interact resonantly with the warm electrons. The main new results are: 1) the instability producing oblique electrostatic waves is sensitive to the shape of the electron distribution at low energies. In the whistler range of frequencies, two distinct peaks in the growth rate are typically present for the model considered: a peak associated with the warm electron population at relatively low wavenumbers and a peak associated with the cold electron population at relatively high wavenumbers; 2) overall, the instability producing oblique whistler waves near the resonance cone persists (with a reduced growth rate) even in the cases where the temperature of the cold population is relatively high, including cases where cold population is absent and only the warm population is included; 3) particle-in-cell simulations show that the instability leads to heating of the background plasma and formation of characteristic plateau and beam features in the parallel electron distribution function in the range of energies resonant with the instability. The plateau/beam features have been previously detected in spacecraft observations of oblique chorus waves. However, they have been attributed to external sources and have been proposed to be the mechanism generating oblique chorus. In the present scenario, the causality link is reversed and the instability generating oblique whistler waves is shown to be a possible mechanism for formation of the plateau and beam features.

Vadim Roytershteyn↗

High-Performance Computation of Distributed-Memory Parallel 3D Voronoi and Delaunay Tessellation

Computing a Voronoi or Delaunay tessellation from a set of points is a core part of the analysis of many simulated and measured datasets: N-body simulations, molecular dynamics codes, and LIDAR point clouds are just a few examples. Such computational geometry methods are common in data analysis and visualization; but as the scale of simulations and observations surpasses billions of particles, the existing serial and shared-memory algorithms no longer suffice. A distributed-memory scalable parallel algorithm is the only feasible approach. The primary contribution of this paper is a new parallel Delaunay and Voronoi tessellation algorithm that automatically determines which neighbor points need to be exchanged among the subdomains of a spatial decomposition. Other contributions include periodic and wall boundary conditions, comparison of our method using two popular serial libraries, and application to numerous science datasets.

97 MATHEMATICS AND COMPUTING↗

Administering truncated receive functions in a parallel messaging interface

Administering truncated receive functions in a parallel messaging interface (`PMI`) of a parallel computer comprising a plurality of compute nodes coupled for data communications through the PMI and through a data communications network, including: sending, through the PMI on a source compute node, a quantity of data from the source compute node to a destination compute node; specifying, by an application on the destination compute node, a portion of the quantity of data to be received by the application on the destination compute node and a portion of the quantity of data to be discarded; receiving, by the PMI on the destination compute node, all of the quantity of data; providing, by the PMI on the destination compute node to the application on the destination compute node, only the portion of the quantity of data to be received by the application; and discarding, by the PMI on the destination compute node, the portion of the quantity of data to be discarded.

97 MATHEMATICS AND COMPUTING↗

Parallel macromolecular delivery and biochemical/electrochemical interface to cells employing nanostructures

Systems and methods are described for parallel macromolecular delivery and biochemical/electrochemical interface to whole cells employing carbon nanostructures including nanofibers and nanotubes. A method includes providing a first material on at least a first portion of a first surface of a first tip of a first elongated carbon nanostructure; providing a second material on at least a second portion of a second surface of a second tip of a second elongated carbon nanostructure, the second elongated carbon nanostructure coupled to, and substantially parallel to, the first elongated carbon nanostructure; and penetrating a boundary of a biological sample with at least one member selected from the group consisting of the first tip and the second tip.

59 BASIC BIOLOGICAL SCIENCES↗

A Many-Task Parallel Approach for Multiscale Simulations of Subsurface Flow and Reactive Transport

Continuum-scale models have long been used to study subsurface flow, transport, and reactions but lack the ability to resolve processes that are governed by pore-scale mixing. Recently, pore-scale models, which explicitly resolve individual pores and soil grains, have been developed to more accurately model pore-scale phenomena, particularly reaction processes that are controlled by local mixing. However, pore-scale models are prohibitively expensive for modeling application-scale domains. This motivates the use of a hybrid multiscale approach in which continuum- and pore-scale codes are coupled either hierarchically or concurrently within an overall simulation domain (time and space). This approach is naturally suited to an adaptive, loosely-coupled many-task methodology with three potential levels of concurrency. Each individual code (pore- and continuum-scale) can be implemented in parallel; multiple semi-independent instances of the pore-scale code are required at each time step providing a second level of concurrency; and Monte Carlo simulations of the overall system to represent uncertainty in material property distributions provide a third level of concurrency. We have developed a hybrid multiscale model of a mixing-controlled reaction in a porous medium wherein the reaction occurs only over a limited portion of the domain. Loose, minimally-invasive coupling of pre-existing parallel continuum- and pore-scale codes has been accomplished by an adaptive script-based workflow implemented in the Swift workflow system. We describe here the methods used to create the model system, adaptively control multiple coupled instances of pore- and continuum-scale simulations, and maximize the scalability of the overall system. We present results of numerical experiments conducted on NERSC supercomputing systems; our results demonstrate that loose many-task coupling provides a scalable solution for multiscale subsurface simulations with minimal overhead.

high performance computing↗

Storing files in a parallel computing system using list-based index to identify replica files

Improved techniques are provided for storing files in a parallel computing system using a list-based index to identify file replicas. A file and at least one replica of the file are stored in one or more storage nodes of the parallel computing system. An index for the file comprises at least one list comprising a pointer to a storage location of the file and a storage location of the at least one replica of the file. The file comprises one or more of a complete file and one or more sub-files. The index may also comprise a checksum value for one or more of the file and the replica(s) of the file. The checksum value can be evaluated to validate the file and/or the file replica(s). A query can be processed using the list.

97 MATHEMATICS AND COMPUTING↗

Parallel grid population

Parallel population of a grid with a plurality of objects using a plurality of processors. One example embodiment is a method for parallel population of a grid with a plurality of objects using a plurality of processors. The method includes a first act of dividing a grid into n distinct grid portions, where n is the number of processors available for populating the grid. The method also includes acts of dividing a plurality of objects into n distinct sets of objects, assigning a distinct set of objects to each processor such that each processor determines by which distinct grid portion(s) each object in its distinct set of objects is at least partially bounded, and assigning a distinct grid portion to each processor such that each processor populates its distinct grid portion with any objects that were previously determined to be at least partially bounded by its distinct grid portion.

97 MATHEMATICS AND COMPUTING↗

Establishing a group of endpoints in a parallel computer

A parallel computer executes a number of tasks, each task includes a number of endpoints and the endpoints are configured to support collective operations. In such a parallel computer, establishing a group of endpoints receiving a user specification of a set of endpoints included in a global collection of endpoints, where the user specification defines the set in accordance with a predefined virtual representation of the endpoints, the predefined virtual representation is a data structure setting forth an organization of tasks and endpoints included in the global collection of endpoints and the user specification defines the set of endpoints without a user specification of a particular endpoint; and defining a group of endpoints in dependence upon the predefined virtual representation of the endpoints and the user specification.

97 MATHEMATICS AND COMPUTING↗