The cloud and other new computational methods to improve molecular modelling

O Korb, PW Finn, G Jones - Expert opinion on drug discovery, 2014 - Taylor & Francis
Introduction: Industrial, as well as academic, drug discovery efforts are usually supported by
computational modelling techniques. Many of these techniques, such as virtual high …

Simultaneous multiprocessing in a software-defined heterogeneous FPGA

J Nunez-Yanez, S Amiri, M Hosseinabady… - The Journal of …, 2019 - Springer
Heterogeneous chips that combine CPUs and FPGAs can distribute processing so that the
algorithm tasks are mapped onto the most suitable processing element. New software …

Bringing Auto-Tuning to HIP: Analysis of Tuning Impact and Difficulty on AMD and Nvidia GPUs

M Lurati, S Heldens, A Sclocco… - European Conference on …, 2024 - Springer
Many studies have focused on developing and improving auto-tuning algorithms for Nvidia
Graphics Processing Units (GPUs), but the effectiveness and efficiency of these approaches …

A semi-Lagrangian method for the direct numerical simulation of crystallization and precipitation at the pore scale

S Perez, JM Etancelin, P Poncet - arXiv preprint arXiv:2409.05449, 2024 - arxiv.org
This article introduces a new efficient particle method for the numerical simulation of
crystallization and precipitation at the pore scale of real rock geometries extracted by X-Ray …

Exploiting auto-tuning to analyze and improve performance portability on many-core architectures

J Price, S McIntosh-Smith - … ExaComm, HCPM, HPC-IODC, IWOPH, IXPUG …, 2017 - Springer
Performance portability has rapidly become one of the key concerns for application
developers targeting modern computer architectures. Although there are various …

Understanding performance portability of OpenACC for supercomputers

S Sawadsitang, J Lin, S See, F Bodin… - 2015 IEEE …, 2015 - ieeexplore.ieee.org
Scientific applications need to be moved among supercomputers, such as Tianhe-2 and
TSUBAME 2.5. OpenACC provides a directive-based approach for a single source code …

A walking dwarf on the clouds

LF Manfroi, M Ferro, AM Yokoyama… - 2013 IEEE/ACM 6th …, 2013 - ieeexplore.ieee.org
Scientific computing often requires high performance and distributed computational
resources to perform large scale experiments in order to achieve accurate results in due …

Automatic generation of optimized OpenCL codes using OCLoptimizer

JF Fabeiro, D Andrade, BB Fraguela… - The computer …, 2015 - academic.oup.com
The eruption of multicore processors and several kinds of accelerators has generalized the
interest in parallel programming. The OpenCL standard is very appealing because it …

Particle and data-driven approaches for reactive micrometric processes: application to CO2 mineral storage with uncertainty quantification.

S Perez - 2023 - theses.hal.science
Studying reactive flows in porous media is essential to manage the geochemical effects of
CO2 capture and storage in natural underground reservoirs. Through homogenization of the …

Computing element evolution towards Exascale and its impact on legacy simulation codes

GJL Colin de Verdière - The European Physical Journal A, 2015 - Springer
In the light of the current race towards the Exascale, this article highlights the main features
of the forthcoming computing elements that will be at the core of next generations of …