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

@article{Hammond2014EvaluatingTP,
  title={Evaluating the performance of parallel subsurface simulators: An illustrative example with PFLOTRAN},
  author={Glenn Edward Hammond and Peter Lichtner and Richard Tran Mills},
  journal={Water Resources Research},
  year={2014},
  volume={50},
  pages={208 - 228}
}
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… 
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References

SHOWING 1-10 OF 83 REFERENCES
PFLOTRAN: Reactive Flow & Transport Code for Use on Laptops to Leadership-Class Supercomputers
PFLOTRAN, a next-generation reactive flow and transport code for modeling subsurface processes, has been designed from the ground up to run efficiently on machines ranging from leadership-class…
Achieving High Sustained Performance in an Unstructured Mesh CFD Application
This paper highlights a three-year project by an interdisciplinary team on a legacy F77 computational fluid dynamics code, with the aim of demonstrating that implicit unstructured grid simulations…
Parallel computing simulation of fluid flow in the unsaturated zone of Yucca Mountain, Nevada.
Scalable Modeling of Carbon Tetrachloride Migration at the Hanford Site Using the STOMP Simulator
TLDR
A scalable implementation of a multifluid subsurface flow and transport simulator, STOMP, with capabilities for volatile organic compounds is developed, developed to allow for both sequential and scalable processing and to depend on domain scientists for code parallelization and scalable linear system solvers.
Supercomputers and their use in modeling subsurface solute transport modeling
TLDR
In this review, recent applications of supercomputers to solute transport problems are presented, based mostly on the assumption of a dilute solute, allowing the governing equations to be decoupled.
Application of Jacobian-free Newton–Krylov with physics-based preconditioning to biogeochemical transport
Stochastic simulation of uranium migration at the Hanford 300 Area.
Analysis of subsurface contaminant migration and remediation using high performance computing
Coupled 3-D thermo-hydro-mechanical analysis of geotechnological in situ tests
Field‐scale model for the natural attenuation of uranium at the Hanford 300 Area using high‐performance computing
High‐resolution, three‐dimensional, reactive flow and transport simulations are carried out to describe the migration of hexavalent uranium [U(VI)] at the Hanford 300 Area bordering the Columbia…
...
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