Streaming Live Neuronal Simulation Data into Visualization and Analysis

Oehrl, Simon; Müller, Jan; Weyers, Benjamin; Eppler, Jochen Martin; Plesser, Hans Ekkehard; Schnathmeier, Jan; Hentschel, Bernd; Vierjahn, Tom; Peyser, Alexander; Kuhlen, Torsten

doi:10.1007/978-3-030-02465-9_18

Contribution to a conference proceedings/Contribution to a book

FZJ-2019-00745

Streaming Live Neuronal Simulation Data into Visualization and Analysis

Oehrl, S. (Corresponding author) ; Müller, J. ; Schnathmeier, J. ; Eppler, J. M.FZJ* ; Peyser, A.FZJ* ; Plesser, H. E.FZJ* ; Weyers, B. ; Hentschel, B. ; Kuhlen, T. ; Vierjahn, T.

2018
Springer International Publishing Cham
ISBN: 978-3-030-02464-2 (print), 978-3-030-02465-9 (electronic)

High Performance Computing / Yokota, Rio (Editor) [0000-0001-7573-7873] ; Cham : Springer International Publishing, 2018, Chapter 18 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-030-02464-2=978-3-030-02465-9 ; doi:10.1007/978-3-030-02465-9
ISC High Performance 2018, Frankfurt, Germany, 24 Jun 2018 - 28 Jun 2018 Cham : Springer International Publishing, Lecture Notes in Computer Science 11203, 258 - 272 (2018) [10.1007/978-3-030-02465-9_18]

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Please use a persistent id in citations: http://hdl.handle.net/2128/21393 doi:10.1007/978-3-030-02465-9_18

Abstract: Neuroscientists want to inspect the data their simulations are producing while these are still running. This will on the one hand save them time waiting for results and therefore insight. On the other, it will allow for more efficient use of CPU time if the simulations are being run on supercomputers. If they had access to the data being generated, neuroscientists could monitor it and take counter-actions, e.g., parameter adjustments, should the simulation deviate too much from in-vivo observations or get stuck.As a first step toward this goal, we devise an in situ pipeline tailored to the neuroscientific use case. It is capable of recording and transferring simulation data to an analysis/visualization process, while the simulation is still running. The developed libraries are made publicly available as open source projects. We provide a proof-of-concept integration, coupling the neuronal simulator NEST to basic 2D and 3D visualization.KeywordsNeuroscientific simulation In situ visualization

Note: Article attached has a 12 month embargo (until 25.1.2020): https://www.springer.com/de/open-access/authors-rights/self-archiving-policy/2124

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Appears in the scientific report 2018

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