Commit 635e7c31 authored by Matthieu Schaller's avatar Matthieu Schaller
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Added James Willis' Parco 2017 paper.

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@article {ref:PG_cell_orientations,
author = {Gonnet, Pedro},
title = {A simple algorithm to accelerate the computation of non-bonded interactions in cell-based molecular dynamics simulations},
journal = {Journal of Computational Chemistry},
volume = {28},
number = {2},
publisher = {Wiley Subscription Services, Inc., A Wiley Company},
issn = {1096-987X},
url = {http://dx.doi.org/10.1002/jcc.20563},
doi = {10.1002/jcc.20563},
pages = {570--573},
keywords = {molecular dynamics, cell list, neighbor list},
year = {2007},
}
@article{ref:Verlet_list,
title = {Computer "Experiments" on Classical Fluids. I. Thermodynamical Properties of Lennard-Jones Molecules},
author = {Verlet, Loup},
journal = {Phys. Rev.},
volume = {159},
issue = {1},
pages = {98--103},
numpages = {0},
year = {1967},
month = {Jul},
publisher = {American Physical Society},
doi = {10.1103/PhysRev.159.98},
url = {https://link.aps.org/doi/10.1103/PhysRev.159.98}
}
@article{ref:Cell_list,
title = "New method for searching for neighbors in molecular dynamics computations",
journal = "Journal of Computational Physics",
volume = "13",
number = "3",
pages = "430 - 432",
year = "1973",
note = "",
issn = "0021-9991",
doi = "http://dx.doi.org/10.1016/0021-9991(73)90046-6",
url = "http://www.sciencedirect.com/science/article/pii/0021999173900466",
author = "B Quentrec and C Brot",
}
@book{ref:Cell_linked_list,
title={Computer simulation of liquids},
author={Allen, M.P. and Tildesley, D.J.},
isbn={9780198553755},
lccn={87001555},
series={Oxford science publications},
url={https://books.google.co.uk/books?id=ibURAQAAIAAJ},
year={1987},
publisher={Clarendon Press}
}
@inproceedings{ref:SWIFT_PASC,
author = {Schaller, Matthieu and Gonnet, Pedro and Chalk, Aidan B. G. and Draper, Peter W.},
title = {SWIFT: Using Task-Based Parallelism, Fully Asynchronous Communication, and Graph Partition-Based Domain Decomposition for Strong Scaling on More Than 100,000 Cores},
booktitle = {Proceedings of the Platform for Advanced Scientific Computing Conference},
series = {PASC '16},
year = {2016},
isbn = {978-1-4503-4126-4},
location = {Lausanne, Switzerland},
pages = {2:1--2:10},
articleno = {2},
numpages = {10},
url = {http://doi.acm.org/10.1145/2929908.2929916},
doi = {10.1145/2929908.2929916},
acmid = {2929916},
publisher = {ACM},
address = {New York, NY, USA},
keywords = {Asynchronous data transfer, Cosmology, Extreme scaling, Fluid dynamics, Physics, Smooth Particle Hydrodynamics, Task-based parallelism},
}
@article{ref:PG_Pseudo_Verlet_list,
author = {Pedro Gonnet},
title = {Pseudo-Verlet lists: a new, compact neighbour list representation},
journal = {Molecular Simulation},
volume = {39},
number = {9},
pages = {721-727},
year = {2013},
doi = {10.1080/08927022.2012.762097},
URL = {
http://dx.doi.org/10.1080/08927022.2012.762097
},
eprint = {
http://dx.doi.org/10.1080/08927022.2012.762097
}
}
@article{ref:SIMD_Pair_interactions,
author = {{P{\'a}ll}, S. and {Hess}, B.},
title = "{A flexible algorithm for calculating pair interactions on SIMD architectures}",
journal = {Computer Physics Communications},
archivePrefix = "arXiv",
eprint = {1306.1737},
primaryClass = "physics.comp-ph",
year = 2013,
month = dec,
volume = 184,
pages = {2641-2650},
doi = {10.1016/j.cpc.2013.06.003},
adsurl = {http://adsabs.harvard.edu/abs/2013CoPhC.184.2641P},
adsnote = {Provided by the SAO/NASA Astrophysics Data System}
}
@article{ref:Mod_cell_linked_list,
title = "Near-neighbor calculations using a modified cell-linked list method",
journal = "Computer Physics Communications",
volume = "119",
number = "2",
pages = "135 - 148",
year = "1999",
note = "",
issn = "0010-4655",
doi = "http://dx.doi.org/10.1016/S0010-4655(98)00203-3",
url = "http://www.sciencedirect.com/science/article/pii/S0010465598002033",
author = "William Mattson and Betsy M. Rice",
}
@ARTICLE{ref:SPH_review,
author = {{Price}, D.~J.},
title = "{Smoothed particle hydrodynamics and magnetohydrodynamics}",
journal = {Journal of Computational Physics},
archivePrefix = "arXiv",
eprint = {1012.1885},
primaryClass = "astro-ph.IM",
year = 2012,
month = feb,
volume = 231,
pages = {759-794},
doi = {10.1016/j.jcp.2010.12.011},
adsurl = {http://adsabs.harvard.edu/abs/2012JCoPh.231..759P},
adsnote = {Provided by the SAO/NASA Astrophysics Data System}
}
@article{ref:SWIFT_SIAM,
title={Efficient and scalable algorithms for smoothed particle hydrodynamics on hybrid shared/distributed-memory architectures},
author={Gonnet, Pedro},
journal={SIAM Journal on Scientific Computing},
volume={37},
number={1},
pages={C95--C121},
year={2015},
publisher={SIAM}
}
@Article{ref:FFTW,
author = {Frigo, Matteo and Johnson, Steven~G.},
title = {The Design and Implementation of {FFTW3}},
journal = {Proceedings of the IEEE},
year = 2005,
volume = 93,
number = 2,
pages = {216--231},
note = {Special issue on ``Program Generation, Optimization, and Platform Adaptation''}
}
@article{ref:Luigi_Gadget,
author = {Fabio Baruffa and
Luigi Iapichino and
Nicolay J. Hammer and
Vasileios Karakasis},
title = {Performance Optimisation of Smoothed Particle Hydrodynamics Algorithms
for Multi/Many-Core Architectures},
journal = {CoRR},
volume = {abs/1612.06090},
year = {2016},
url = {http://arxiv.org/abs/1612.06090},
timestamp = {Wed, 07 Jun 2017 14:40:36 +0200},
biburl = {http://dblp.uni-trier.de/rec/bib/journals/corr/BaruffaIHK16},
bibsource = {dblp computer science bibliography, http://dblp.org}
}
@article{ref:Gadget,
author = "Springel, Volker",
title = "{The Cosmological simulation code GADGET-2}",
journal = "Mon. Not. Roy. Astron. Soc.",
volume = "364",
year = "2005",
pages = "1105-1134",
doi = "10.1111/j.1365-2966.2005.09655.x",
eprint = "astro-ph/0505010",
archivePrefix = "arXiv",
primaryClass = "astro-ph",
}
@manual{ref:intel_intrinsics_guide,
note = "{\url{https://software.intel.com/sites/landingpage/IntrinsicsGuide/}}"
}
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