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| Titel |
Porting marine ecosystem model spin-up using transport matrices to GPUs |
| VerfasserIn |
E. Siewertsen, J. Piwonski, T. Slawig |
| Medientyp |
Artikel
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| Sprache |
Englisch
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| ISSN |
1991-959X
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| Digitales Dokument |
URL |
| Erschienen |
In: Geoscientific Model Development ; 6, no. 1 ; Nr. 6, no. 1 (2013-01-08), S.17-28 |
| Datensatznummer |
250017356
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| Publikation (Nr.) |
 copernicus.org/gmd-6-17-2013.pdf |
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| Zusammenfassung |
| We have ported an implementation of the spin-up for marine ecosystem
models based on transport matrices to graphics
processing units (GPUs). The original implementation was designed
for distributed-memory architectures and uses the
Portable, Extensible Toolkit for Scientific Computation (PETSc) library
that is based on the Message Passing Interface (MPI) standard. The
spin-up computes a steady seasonal cycle of ecosystem tracers
with climatological ocean circulation data as forcing. Since the
transport is linear with respect to the tracers, the resulting
operator is represented by matrices. Each
iteration of the spin-up involves two matrix-vector multiplications
and the evaluation of the used biogeochemical model. The original
code was written in C and Fortran. On the GPU, we use the
Compute Unified Device Architecture (CUDA)
standard, a customized version of PETSc and a commercial CUDA
Fortran compiler. We describe the extensions to PETSc and the
modifications of the original C and Fortran codes that had to be
done. Here we make use of freely available libraries for the GPU.
We analyze the computational effort of the main parts of the spin-up
for two exemplar ecosystem models and compare the overall
computational time to those necessary on different CPUs. The results
show that a consumer GPU can compete with a significant number of
cluster CPUs without further code optimization. |
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