A large-scale whole visual system model integrated by PLATO and its implementation on high performance computer

Abstract

Event Abstract Back to Event A large-scale whole visual system model integrated by PLATO and its implementation on high performance computer Keiichiro Inagaki1*, Takayuki Kannon2, Yoshimi Kamiyama3, Shunji Satoh4, Nilton Kamiji2, Daiki Sone3, Kazuki Urabe4 and Shiro Usui2 1 RIKEN, Computational Science Research Program, Japan 2 RIKEN Brain Science Institute, Japan 3 Aichi Prefectural University, Japan 4 University of Electro-Communications, Japan To understand the details of visual function, a large-scale system model that reflects anatomical and neurophysiological characteristics of visual system needs to be implemented. Though numerous computational models of various brain areas related with the visual function have been proposed, it is important to integrate those models into a large-scale visual system model in order to understand the details of visual function. Currently, we have been developing eye movement, optics, retina, and visual cortex models, and integrating into a large-scale whole visual system model on the PLATO (Platform for a coLlaborative brAin sysTem mOdeling) environment to understand visual processing underlying perception, illusion, learning and memory. In the eye movement model, the saccade related pathway, burst neurons, omnipause neurons, integrator neurons, and eye plant, were explicitly described to generate both saccade and microsaccade with drift eye movement. In the eye optics model, realistic ±10deg spectral images (1000 x 1000 pixels) on the retina were calculated from an external image covering the spectral ranges from 380 to 780 nm in 4 nm steps. The present retinal model consisted of approximately two million L, M, and S cone photoreceptors. In the retinal model, an alignment of those cones so-called “cone mosaic” was replicated. The visual cortex model was described as a filter model, and carried out motion detection. In the implementation on high performance computer (HPC), the simulation program of each model was transformed into efficient parallel version; each model was then connected with an interface system based on a common data format. Currently, we were using the netCDF as the common data format; this is expected to induce communication overhead due to file transaction in parallel simulation of HPC. The simulation of the models, and data exchange between the models was managed by the agent system of PLATO. We confirmed that the implemented models were worked as a large-scale visual system by visualizing the signal processing in each sub-system. We also made a performance and scalability analyses of the present model on the HPC in RIKEN consisting of 1024 CPU nodes (maximum 8192 processors). We obtained linear parallel performance, and transaction overhead of the common data format was small enough compared to the execution time of each model. Acknowledgments This research was supported by the next-generation integrated simulation of living matter', part of the development and use of the next-generation supercomputer project of the ministry of education, culture, sports, science and technology. Part of the simulation was conducted on the RIKEN Integrated Combined Cluster. Keywords: Large scale modeling Conference: 4th INCF Congress of Neuroinformatics, Boston, United States, 4 Sep - 6 Sep, 2011. Presentation Type: Demo Presentation Topic: Large scale modeling Citation: Inagaki K, Kannon T, Kamiyama Y, Satoh S, Kamiji N, Sone D, Urabe K and Usui S (2011). A large-scale whole visual system model integrated by PLATO and its implementation on high performance computer. Front. Neuroinform. Conference Abstract: 4th INCF Congress of Neuroinformatics. doi: 10.3389/conf.fninf.2011.08.00114 Copyright: The abstracts in this collection have not been subject to any Frontiers peer review or checks, and are not endorsed by Frontiers. They are made available through the Frontiers publishing platform as a service to conference organizers and presenters. The copyright in the individual abstracts is owned by the author of each abstract or his/her employer unless otherwise stated. Each abstract, as well as the collection of abstracts, are published under a Creative Commons CC-BY 4.0 (attribution) licence (https://creativecommons.org/licenses/by/4.0/) and may thus be reproduced, translated, adapted and be the subject of derivative works provided the authors and Frontiers are attributed. For Frontiers’ terms and conditions please see https://www.frontiersin.org/legal/terms-and-conditions. Received: 17 Oct 2011; Published Online: 19 Oct 2011. * Correspondence: Dr. Keiichiro Inagaki, RIKEN, Computational Science Research Program, Wako, Japan, kay@isc.chubu.ac.jp Login Required This action requires you to be registered with Frontiers and logged in. To register or login click here. Abstract Info Abstract The Authors in Frontiers Keiichiro Inagaki Takayuki Kannon Yoshimi Kamiyama Shunji Satoh Nilton Kamiji Daiki Sone Kazuki Urabe Shiro Usui Google Keiichiro Inagaki Takayuki Kannon Yoshimi Kamiyama Shunji Satoh Nilton Kamiji Daiki Sone Kazuki Urabe Shiro Usui Google Scholar Keiichiro Inagaki Takayuki Kannon Yoshimi Kamiyama Shunji Satoh Nilton Kamiji Daiki Sone Kazuki Urabe Shiro Usui PubMed Keiichiro Inagaki Takayuki Kannon Yoshimi Kamiyama Shunji Satoh Nilton Kamiji Daiki Sone Kazuki Urabe Shiro Usui Related Article in Frontiers Google Scholar PubMed Abstract Close Back to top Javascript is disabled. Please enable Javascript in your browser settings in order to see all the content on this page.