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Your search keyword '"Houzeaux, Guillaume"' showing total 5 results
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5 results on '"Houzeaux, Guillaume"'

1. Alya towards Exascale: Optimal OpenACC Performance of the Navier-Stokes Finite Element Assembly on GPUs

Author

Owen, Herbert, Ernst, Dominik, Gruber, Thomas, Lemkuhl, Oriol, Houzeaux, Guillaume, Gasparino, Lucas, and Wellein, Gerhard

Subjects
Computer Science - Distributed, Parallel, and Cluster Computing, Computer Science - Performance
Abstract

This paper addresses the challenge of providing portable and highly efficient code structures for CPU and GPU architectures. We choose the assembly of the right-hand term in the incompressible flow module of the High-Performance Computational Mechanics code Alya, which is one of the two CFD codes in the Unified European Benchmark Suite. Starting from an efficient CPU-code and a related OpenACC-port for GPUs we successively investigate performance potentials arising from code specialization, algorithmic restructuring and low-level optimizations. We demonstrate that only the combination of these different dimensions of runtime optimization unveils the full performance potential on the GPU and CPU. Roofline-based performance modelling is applied in this process and we demonstrate the need to investigate new optimization strategies if a classical roofline limit such as memory bandwidth utilization is achieved, rather than stopping the process. The final unified OpenACC-based implementation boosts performance by more than 50x on an NVIDIA A100 GPU (achieving approximately 2.5 TF/s FP64) and a further factor of 5x for an Intel Icelake based CPU-node (achieving approximately 1.0 TF/s FP64). The insights gained in our manual approach lays ground implementing unified but still highly efficient code structures for related kernels in Alya and other applications. These can be realized by manual coding or automatic code generation frameworks.

Published
2024

5. HPC Framework for Performing in Silico Trials Using a 3D Virtual Human Cardiac Population as Means to Assess Drug-Induced Arrhythmic Risk.

Author

Aguado-Sierra J, Brigham R, Baron AK, Gomez PD, Houzeaux G, Guerra JM, Carreras F, Filgueiras-Rama D, Vazquez M, Iaizzo PA, Iles TL, and Butakoff C

Subjects
Female, Male, Humans, Animals, Swine, Heart, Electrocardiography, Action Potentials, Azithromycin adverse effects, Hydroxychloroquine adverse effects
Abstract

Following the 3 R's principles of animal research-replacement, reduction, and refinement-a high-performance computational framework was produced to generate a platform to perform human cardiac in-silico clinical trials as means to assess the pro-arrhythmic risk after the administrations of one or combination of two potentially arrhythmic drugs. The drugs assessed in this study were hydroxychloroquine and azithromycin. The framework employs electrophysiology simulations on high-resolution three-dimensional, biventricular human heart anatomies including phenotypic variabilities, so as to determine if differential QT-prolongation responds to drugs as observed clinically. These simulations also reproduce sex-specific ionic channel characteristics. The derived changes in the pseudo-electrocardiograms, calcium concentrations, as well as activation patterns within 3D geometries were evaluated for signs of induced arrhythmia. The virtual subjects could be evaluated at two different cycle lengths: at a normal heart rate and at a heart rate associated with stress as means to analyze the proarrhythmic risks after the administrations of hydroxychloroquine and azithromycin. Additionally, a series of experiments performed on reanimated swine hearts utilizing Visible Heart ® methodologies in a four-chamber working heart model were performed to verify the arrhythmic behaviors observed in the in silico trials.The obtained results indicated similar pro-arrhythmic risk assessments within the virtual population as compared to published clinical trials (21% clinical risk vs 21.8% in silico trial risk). Evidence of transmurally heterogeneous action potential prolongations after providing a large dose of hydroxychloroquine was found as the observed mechanisms for elicited arrhythmias, both in the in vitro and the in silico models. The proposed workflow for in silico clinical drug cardiotoxicity trials allows for reproducing the complex behavior of cardiac electrophysiology in a varied population, in a matter of a few days as compared to the months or years it requires for most in vivo human clinical trials. Importantly, our results provided evidence of the common phenotype variants that produce distinct drug-induced arrhythmogenic outcomes., (© 2024. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.)

Published
2024
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