A Collaborative Simulation-Analysis Workflow for Computational Neuroscience Using HPC

Senk, Johanna; Denker, Michael; Lührs, Anna; Amblet, Olivier; Stokes, Alan Barry; Grün, Sonja; Weyers, Benjamin; Yegenoglu, Alper; Rostami, Vahid; Diesmann, Markus; Brukau, Yury; Davison, Andrew; Zielasko, Daniel; Schuller, Bernd; Lester, David Roland; van Albada, Sacha; Quaglio, Pietro; Rowley, Andrew

doi:10.1007/978-3-319-53862-4_21

Contribution to a conference proceedings/Contribution to a book

FZJ-2017-02102

A Collaborative Simulation-Analysis Workflow for Computational Neuroscience Using HPC

Senk, J. (Corresponding author)FZJ* ; Yegenoglu, A. (Corresponding author)FZJ* ; Amblet, O. ; Brukau, Y. ; Davison, A. ; Lester, D. R. ; Lührs, A.FZJ* ; Quaglio, P.FZJ* ; Rostami, V.FZJ* ; Rowley, A. ; Schuller, B.FZJ* ; Stokes, A. B. ; van Albada, S.FZJ* ; Zielasko, D. ; Diesmann, M.FZJ* ; Weyers, B. ; Denker, M.FZJ* ; Grün, S.FZJ*

2017
Springer International Publishing Cham
ISBN: 978-3-319-53861-7 (print), 978-3-319-53862-4 (electronic)

High-Performance Scientific Computing / Di Napoli, Edoardo (Editor) ; Cham : Springer International Publishing, 2017, Chapter 21 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-319-53861-7=978-3-319-53862-4 ; doi:10.1007/978-3-319-53862-4
Jülich Aachen Research Alliance (JARA) High-Performance Computing Symposium, JHPCS '16, Aachen, Germany, 4 Oct 2016 - 5 Oct 2016 Cham : Springer International Publishing, Lecture Notes in Computer Science 10164, 243 - 256 (2017) [10.1007/978-3-319-53862-4_21]

This record in other databases:

Please use a persistent id in citations: doi:10.1007/978-3-319-53862-4_21

Abstract: Workflows for the acquisition and analysis of data in the natural sciences exhibit a growing degree of complexity and heterogeneity, are increasingly performed in large collaborative efforts, and often require the use of high-performance computing (HPC). Here, we explore the reasons for these new challenges and demands and discuss their impact with a focus on the scientific domain of computational neuroscience. We argue for the need of software platforms integrating HPC systems that allow scientists to construct, comprehend and execute workflows composed of diverse data generation and processing steps using different tools. As a use case we present a concrete implementation of such a complex workflow, covering diverse topics such as HPC-based simulation using the NEST software, access to the SpiNNaker neuromorphic hardware platform, complex data analysis using the Elephant library, and interactive visualization methods for facilitating further analysis. Tools are embedded into a web-based software platform under development by the Human Brain Project, called the Collaboratory. On the basis of this implementation, we discuss the state of the art and future challenges in constructing large, collaborative workflows with access to HPC resources.

Classification: