Advanced topics in cluster computing
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technical keywords↗
Engineering topics
Decyk, V. K.
Publications and source records attributed to Decyk, V. K..
Modernizing Fortran 77 legacy codes
Legacy software has great value since it is generally well debugged, produces results that are trusted and is actively meeting end-user goals. The amount of hidden expert knowledge embedded in such software can be significant, making its preservation important.
Fortran scientific programming↗
Implementation and Characterization of Three-Dimensional Particle-in-Cell Codes on Multiple-Instruction-Multiple-Data Massively Parallel Supercomputers
A three-dimensional electrostatic particle-in-cell (PIC) plasma simulation code has been developed on coarse-grain distributed-memory massively parallel computers with message passing communications. Our implementation is the generalization to three-dimensions of the general concurrent particle-in-cell (GCPIC) algorithm. In the GCPIC algorithm, the particle computation is divided among the processors using a domain decomposition of the simulation domain. In a three-dimensional simulation, the domain can be partitioned into one-, two-, or three-dimensional subdomains ("slabs," "rods," or "cubes") and we investigate the efficiency of the parallel implementation of the push for all three choices. The present implementation runs on the Intel Touchstone Delta machine at Caltech; a multiple-instruction-multiple-data (MIMD) parallel computer with 512 nodes. We find that the parallel efficiency of the push is very high, with the ratio of communication to computation time in the range 0.3%-10.0%. The highest efficiency (> 99%) occurs for a large, scaled problem with 64(sup 3) particles per processing node (approximately 134 million particles of 512 nodes) which has a push time of about 250 ns per particle per time step. We have also developed expressions for the timing of the code which are a function of both code parameters (number of grid points, particles, etc.) and machine-dependent parameters (effective FLOP rate, and the effective interprocessor bandwidths for the communication of particles and grid points). These expressions can be used to estimate the performance of scaled problems--including those with inhomogeneous plasmas--to other parallel machines once the machine-dependent parameters are known.
Lyster, P. M.↗
Implementation of an Electromagnetic 3D Plasma Particle-in-Cell Code on a MIMD Parallel Computer
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PIC GCPOC algorithm electrostatic field↗
(abstract) 3D Electromagnetic Plasma Particle Simulations
A 3D electromagnetic plasma particle-in-cell code has been developed using the General Concurrent PIC algorithm. The GCPIC algorithm uses a domain decomposition to divide the computation among the processors. Particles must be exchanged between processors as they move. The efficiencies for 1-, 2-, and 3-dimensional partitions of the three dimensional domain are compared, and the algorithm is found to be very efficient even when a large fraction (e.g., 30%) of the particles must be exchanged at every time step. This PIC code has been used to perform simulations of a variety of space plasma physics problems. Results of three applications will be discussed: 1) plasma disturbances induced by moving conducting bodies in a magnetized plasma; 2) plasma plume interactions; and 3) solar wind termination shock.
electromagnetic plasma particles simulations 3D al↗
Two dimensional PIC simulations of plasma heating by the dissipation of Alfven waves
Two dimensional plasma particle simulations of the evolution of large amplitude circularly polarized Alfven waves propagating parallel to the magnetic field show that the waves decay via both one- and two- dimensional parametric decay instabilities. For parameters studied, one-dimensional processes dominate the simulations, but two-dimensional decay processes, including the recently predicted filamentation instability are also observed. The daughter waves generated by the parametric decay are primarily damped by the ions, leading to ion heating. The parametric decay processes efficiently convert the ordered fluid ion motion in the Alfven wave into ion thermal energy. These processes may be important for the dissipation of Alfven waves in the solar wind, the corona and other space plasma environments. The computations were performed on the Intel Touchstone parallel supercomputer.
Liewer, P. C.↗
Numerical studies of electron dynamics in oblique quasi-perpendicular collisionless shock waves
Linear and nonlinear electron damping of the whistler precursor wave train to low Mach number quasi-perpendicular oblique shocks is studied using a one-dimensional electromagnetic plasma simulation code with particle electrons and ions. In some parameter regimes, electrons are observed to trap along the magnetic field lines in the potential of the whistler precursor wave train. This trapping can lead to significant electron heating in front of the shock for low beta(e). Use of a 64-processor hypercube concurrent computer has enabled long runs using realistic mass ratios in the full particle in-cell code and thus simulate shock parameter regimes and phenomena not previously studied numerically.
Liewer, P. C.↗