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ExtraPeak: Advanced Automatic Performance Modeling for HPC Applications [chapter]

Alexandru Calotoiu, Marcin Copik, Torsten Hoefler, Marcus Ritter, Sergei Shudler, Felix Wolf
2020 Lecture Notes in Computational Science and Engineering  
This article summarizes the results of the two projects Catwalk, which aimed to create tools that automate key activities of the performance modeling process, and ExtraPeak, which built upon the results  ...  Unfortunately, the difficulties of creating such models manually and the effort involved render performance modeling a topic limited to a relatively small community of experts.  ...  Catwalk The most important goal of Catwalk was to provide an automated method for constructing performance models.  ... 
doi:10.1007/978-3-030-47956-5_15 fatcat:d7ogrnpaargzzbpee43bgoq2ya

Understanding the Scalability of Molecular Simulation Using Empirical Performance Modeling [chapter]

Sergei Shudler, Jadran Vrabec, Felix Wolf
2019 Lecture Notes in Computer Science  
[27] used both Score-P and Extra-P to analyze the scalability of the whole UG4 framework, which simulates drug diffusion through the human skin.  ...  Empirical performance modeling is a proven technique for automated generation of performance models from the results of code benchmarking.  ... 
doi:10.1007/978-3-030-17872-7_8 fatcat:h6ekqtzyjvcbfi6ishcw4olppe

Code generation approaches for parallel geometric multigrid solvers

Harald Köstler, Marco Heisig, Nils Kohl, Sebastian Kuckuk, Martin Bauer, Ulrich Rüde
2020 Analele Stiintifice ale Universitatii Ovidius Constanta: Seria Matematica  
As an example the numerical solution of an elliptic partial differential equation via generated geometric multigrid solvers is considered.  ...  This is mainly due to the increasing parallelism and heterogeneity in modern computer architectures and to the more realistic physical and mathematical models that have to be processed.  ...  This research has been funded partly by the Federal Ministry of Education and Research of Germany (BMBF) through the HPC2SE project and partly by the Deutsche Forschungsgemeinschaft (DFG) in its priority  ... 
doi:10.2478/auom-2020-0038 fatcat:rr63bsabc5cbbbcw7eljtr3gzy

Anatomically Detailed and Large-Scale Simulations Studying Synapse Loss and Synchrony Using NeuroBox

Markus Breit, Martin Stepniewski, Stephan Grein, Pascal Gottmann, Lukas Reinhardt, Gillian Queisser
2016 Frontiers in Neuroanatomy  
MATERIALS AND METHODS In this section we will introduce the tools and methods used for the simulations performed in Section 3.  ...  A combination of neuron and network generating tools (Section 2.1), synapse distribution algorithms, a new approach for numerical discretization of the network topology and a parallel computing framework  ...  ACKNOWLEDGMENTS We want to thank Michael Hoffer for the helpful discussions and support around all VRL-based developments.  ... 
doi:10.3389/fnana.2016.00008 pmid:26903818 pmcid:PMC4751272 fatcat:v2xuqveygvck7izuyw4db2cytm

Lightweight, semi-automatic variability extraction: a case study on scientific computing

Alexander Grebhahn, Christian Kaltenecker, Christian Engwer, Norbert Siegmund, Sven Apel
2021 Empirical Software Engineering  
Such alternative artifacts can speed up performance of the simulation or make it amenable to other use cases, without modifying the overall structure of the simulation.  ...  We evaluate the practicality of VORM—especially, as it is very lightweight but possibly imprecise—by means of a case study on the DUNE numerics framework and two simulations from the realm of physical  ...  Acknowledgements This work has been supported by the German Research Foundation (DFG), as part of the Priority Programme 1648 "Software for Exascale Computing", under the contract AP 206/7 and Pervolution  ... 
doi:10.1007/s10664-020-09922-8 fatcat:yujaqyh2xbd27nlwsj7btuo5ke

A Framework for Big Data Analytical Process and Mapping—BAProM: Description of an Application in an Industrial Environment

Giovanni Gravito de Carvalho Chrysostomo, Marco Vinicius Bhering de Aguiar Vallim, Leilton Santos da Silva, Leandro A. Silva, Arnaldo Rabello de Aguiar Vallim Filho
2020 Energies  
This paper presents an application of a framework for Big Data Analytical Process and Mapping—BAProM—consisting of four modules: Process Mapping, Data Management, Data Analysis, and Predictive Modeling  ...  The real-world application showed the practical feasibility of the framework, particularly the effectiveness of the analytical workbench, for pre-processing and exploratory analysis, as well as the combined  ...  The funders had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript, or in the decision to publish the results.  ... 
doi:10.3390/en13226014 fatcat:loxougpimffjdmxw555d6xdyii

Extreme-scale Multigrid Components within PETSc [article]

Dave A. May, Patrick Sanan, Karl Rupp, Matthew G. Knepley, Barry F. Smith
2016 arXiv   pre-print
Multilevel preconditioners represent a family of scalable techniques for solving discrete PDEs of this type and thus are the method of choice for high-resolution simulations.  ...  We provide an overview of the design and implementation of this functionality, together with several use cases highlighting the benefits of agglomeration.  ...  , and perform publicly and display publicly, by or on behalf of the Government.  ... 
arXiv:1604.07163v1 fatcat:gpnszozdfzhepjv7xrkqmdvj7y

A novel mesh generator for the numerical simulation of multi-scale physics in neurons [article]

(:Unkn) Unknown, University, My, Gillian GQ Queisser
Mesh generation routines are compiled into a versatile and fully automated reconstruct-and-simulation toolbox for multi-scale physics to be utilized on high-performance or regular computing infrastructures  ...  First-principle numerical simulations on the neuronal reconstructions reveal that intracellular Calcium dynamics are effected by morphological features of the neurons, for instance a change of endoplasmic  ...  simulation framework ug4 [171, 74] amongst others.  ... 
doi:10.34944/dspace/4723 fatcat:obyguewn2falhjvt5nckqhxrye

Towards "On the Go" Matching of Linked Open Data Ontologies

Isabel F. Cruz, Matteo Palmonari, Federico Caimi, Cosmin Stroe
2011 International Joint Conference on Artificial Intelligence  
The semantic extension is based on the adoption of the S-Match semantic matching tool and on the use of a specifically designed faceted ontology codifying domain specific knowledge.  ...  In this paper we summarize our experience in providing a semantic extension to the geo-catalogue of the Autonomous Province of Trento (PAT) in Italy.  ...  We wish to thank all the contributors to the project.  ... 
dblp:conf/ijcai/CruzPCS11 fatcat:62apmemu2zgirduzh6zomuw7wi

Changing land use in an uncertain climate: impacts on surface water and groundwater in the Goulburn River NSW [article]

Julia Imrie, University, The Australian National, University, The Australian National
As a key contribution to the United Nations (UN) sustainable development goals, the UN high-level panel on water (HLPW) in 2018 identified as a priority the prevention of degradation and pollution of rivers  ...  to separate them from the impacts of climate change, natural [...]  ...  The results varied from in the Sydney Basin developed a model of the aquifer framework of multilayered Triassic Hawkesbury sandstone porous rock aquifers.  ... 
doi:10.25911/5da986e1660f9 fatcat:lu5qik7jjvfw7mfdwrvjks7r3a

Electromagnetic Measurements with the KATRIN Pre-Spectrometer

Florian Habermehl
The KArlsruhe TRItium Neutrino (KATRIN) Experiment will investigate the 'electron antineutrino' mass with a sensitivity of 200meV/c2.  ...  A key to reach this sensititvity is a significant improvement of the MAC-E filter (Magnetic Adiabatic Collimation with Electrostatic filter) technology for the energy analysis of beta decay electrons.  ...  The modifications performed in the framework of this thesis are of central importance for a better understanding of MAC-E filters as high resolution low background spectrometers for low-energy electrons  ... 
doi:10.5445/ir/1000013549 fatcat:3oqpg44tprfe5plttanwpd7meq