Fully Parallel Mesh I/O Using PETSc DMPlex with an Application to Waveform Modeling
Copyright policy )Fully Parallel Mesh I/O Using PETSc DMPlex with an Application to Waveform Modeling
Large-scale PDE simulations using high-order finite-element methods on unstructured meshes are an indispensable tool in science and engineering. The widely used open-source PETSc library offers an efficient representation of generic unstructured meshes within its DMPlex module. This paper details our recent implementation of parallel mesh reading and topological interpolation (computation of edges and faces from a cell-vertex mesh) into DMPlex. We apply these developments to seismic wave propagation scenarios on Mars as an example application. The principal motivation is to overcome single-node memory limits and reach mesh sizes which were impossible before. Moreover, we demonstrate that scalability of I/O and topological interpolation goes beyond 12'000 cores, and memory-imposed limits on mesh size vanish.
23 pages, 11 figures
- ETH Zurich Switzerland
- SUNY at Buffalo United States
FOS: Computer and information sciences, Parallel I/O, topological interpolation, Applications of graph theory, Unstructured mesh; Directed acyclic graph; Partitioning; Topological interpolation; Parallel I/O; PETSc; DMPlex; Seismic waveform modeling; Spectral-element method, Spectral-element method, Unstructured mesh, 65-04, 65Y05, 65M50, 05C90, 35L05, Seismic waveform modeling, Directed acyclic graph, spectral-element method, partitioning, Mesh generation, refinement, and adaptive methods for the numerical solution of initial value and initial-boundary value problems involving PDEs, FOS: Mathematics, Mathematics - Numerical Analysis, DMPlex, seismic waveform modeling, Parallel numerical computation, Numerical Analysis (math.NA), Software, source code, etc. for problems pertaining to numerical analysis, Topological interpolation, PETSc, parallel I/O, unstructured mesh, directed acyclic graph, Wave equation, Computer Science - Mathematical Software, Mathematical Software (cs.MS), Partitioning
FOS: Computer and information sciences, Parallel I/O, topological interpolation, Applications of graph theory, Unstructured mesh; Directed acyclic graph; Partitioning; Topological interpolation; Parallel I/O; PETSc; DMPlex; Seismic waveform modeling; Spectral-element method, Spectral-element method, Unstructured mesh, 65-04, 65Y05, 65M50, 05C90, 35L05, Seismic waveform modeling, Directed acyclic graph, spectral-element method, partitioning, Mesh generation, refinement, and adaptive methods for the numerical solution of initial value and initial-boundary value problems involving PDEs, FOS: Mathematics, Mathematics - Numerical Analysis, DMPlex, seismic waveform modeling, Parallel numerical computation, Numerical Analysis (math.NA), Software, source code, etc. for problems pertaining to numerical analysis, Topological interpolation, PETSc, parallel I/O, unstructured mesh, directed acyclic graph, Wave equation, Computer Science - Mathematical Software, Mathematical Software (cs.MS), Partitioning
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