2013 Fiscal Year Final Research Report
A study on GPGPU acceleration of simultaneous processing heterogeneous tasks with mutual dependence relation
| Project/Area Number |
23300007
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| Research Category |
Grant-in-Aid for Scientific Research (B)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
Software
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| Research Institution | Osaka University |
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Principal Investigator |
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| Co-Investigator(Kenkyū-buntansha) |
INO Fumihiko 大阪大学, 大学院・情報科学研究科, 准教授 (90346172)
OKITA Masao 大阪大学, 大学院・情報科学研究科, 助教 (50563988)
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| Project Period (FY) |
2011-04-01 – 2014-03-31
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| Keywords | GPUコンピューティング / 汎用生体シミュレーション / PHML / 無閉路有向グラフ / 計算依存グラフ / 高速化 |
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| Research Abstract |
A general biophysical model here is a set of mathematical expressions (functions) and ordinary differential equations with variables that represent ion concentration in cells, electrical current of neurons and so on. The biophysical simulation calculates time variation of these variables. Flint is a simulator that numerically integrates heterogeneous biophysical models.
We propose two acceleration methods for Flint using a graphics processing unit (GPU). The first method interprets multiple bytecodes in parallel on the GPU. It automatically parallelizes the simulation using a level scheduling algorithm. The second method translates a model into a source code through the internal bytecode, which speeds up the compilation of the generated source codes, because the code size is diminished because of bytecode unification. The latter achieves a performance of 2.4 times higher than that of the former.
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[Presentation] Multilevel modeling of Physiological Systems and Simulation Platform : PhysioDesigner, Flint and Flint K3 service2012
Author(s)
Yoshiyuki Asai, Takeshi Abe, Masao Okita, Tomohiro Okuyama, Nobukazu Yoshioka, Shigetoshi Yokoyama, Masaru Nagaku, Kenichi Hagihara, and Hiroaki Kitano
Organizer
the 12th IEEE/IPSJ International Symposium on Applications and the Internet (SAINT 2012)
Place of Presentation
Izmir, Turkey
Year and Date
2012-07-17
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