{"metadata":{"_oai":{"id":"oai:ipsj.ixsq.nii.ac.jp:00075550","sets":["1164:2240:6352:6493"]},"path":["6493"],"owner":"11","recid":"75550","title":["インタプリタ型汎用生体シミュレータinsilicoSimのGPUによる高速化"],"pubdate":{"attribute_name":"公開日","attribute_value":"2011-07-20"},"_buckets":{"deposit":"6c7071ad-d642-4c27-a46e-e408bd24316a"},"_deposit":{"id":"75550","pid":{"type":"depid","value":"75550","revision_id":0},"owners":[11],"status":"published","created_by":11},"item_title":"インタプリタ型汎用生体シミュレータinsilicoSimのGPUによる高速化","author_link":["0","0"],"item_titles":{"attribute_name":"タイトル","attribute_value_mlt":[{"subitem_title":"インタプリタ型汎用生体シミュレータinsilicoSimのGPUによる高速化"},{"subitem_title":"Accelerating Interpreter of General Biophysical Simulatior ‘insilicoSim’ on the GPU","subitem_title_language":"en"}]},"item_keyword":{"attribute_name":"キーワード","attribute_value_mlt":[{"subitem_subject":"GPU","subitem_subject_scheme":"Other"}]},"item_type_id":"4","publish_date":"2011-07-20","item_4_text_3":{"attribute_name":"著者所属","attribute_value_mlt":[{"subitem_text_value":"大阪大学大学院情報科学研究科コンピュータサイエンス専攻／日本学術振興会特別研究員DC"},{"subitem_text_value":"大阪大学大学院情報科学研究科コンピュータサイエンス専攻"},{"subitem_text_value":"沖縄科学技術研究基盤整備機構オープンバイオロジーユニット"},{"subitem_text_value":"沖縄科学技術研究基盤整備機構オープンバイオロジーユニット"},{"subitem_text_value":"大阪大学大学院基礎工学研究科機能創成専攻"},{"subitem_text_value":"大阪大学大学院情報科学研究科コンピュータサイエンス専攻"}]},"item_4_text_4":{"attribute_name":"著者所属(英)","attribute_value_mlt":[{"subitem_text_value":"Department of Computer Science, Graduate School of Information Science and Technology, Osaka University / Research Fellow of the Japan Society for the Promotion of Science","subitem_text_language":"en"},{"subitem_text_value":"Department of Computer Science, Graduate School of Information Science and Technology, Osaka University","subitem_text_language":"en"},{"subitem_text_value":"Open Biology Unit, Okinawa Institute of Science and Technology","subitem_text_language":"en"},{"subitem_text_value":"Open Biology Unit, Okinawa Institute of Science and Technology","subitem_text_language":"en"},{"subitem_text_value":"Department of Mechanical Science and Bioengineering, Graduate School of Engineering Science, Osaka University","subitem_text_language":"en"},{"subitem_text_value":"Department of Computer Science, Graduate School of Information Science and Technology, Osaka University","subitem_text_language":"en"}]},"item_language":{"attribute_name":"言語","attribute_value_mlt":[{"subitem_language":"jpn"}]},"item_publisher":{"attribute_name":"出版者","attribute_value_mlt":[{"subitem_publisher":"情報処理学会","subitem_publisher_language":"ja"}]},"publish_status":"0","weko_shared_id":-1,"item_file_price":{"attribute_name":"Billing file","attribute_type":"file","attribute_value_mlt":[{"url":{"url":"https://ipsj.ixsq.nii.ac.jp/record/75550/files/IPSJ-HPC11130009.pdf"},"date":[{"dateType":"Available","dateValue":"2013-07-20"}],"format":"application/pdf","billing":["billing_file"],"filename":"IPSJ-HPC11130009.pdf","filesize":[{"value":"871.8 kB"}],"mimetype":"application/pdf","priceinfo":[{"tax":["include_tax"],"price":"660","billingrole":"5"},{"tax":["include_tax"],"price":"330","billingrole":"6"},{"tax":["include_tax"],"price":"0","billingrole":"14"},{"tax":["include_tax"],"price":"0","billingrole":"44"}],"accessrole":"open_date","version_id":"43683f56-b26d-4eaf-9c6e-a730f351803a","displaytype":"detail","licensetype":"license_note","license_note":"Copyright (c) 2011 by the Information Processing Society of Japan"}]},"item_4_creator_5":{"attribute_name":"著者名","attribute_type":"creator","attribute_value_mlt":[{"creatorNames":[{"creatorName":"奥山, 倫弘"},{"creatorName":"置田, 真生"},{"creatorName":"安部, 武志"},{"creatorName":"浅井, 義之"},{"creatorName":"野村, 泰伸"},{"creatorName":"萩原, 兼一"}],"nameIdentifiers":[{}]}]},"item_4_creator_6":{"attribute_name":"著者名(英)","attribute_type":"creator","attribute_value_mlt":[{"creatorNames":[{"creatorName":"Tomohiro, Okuyama","creatorNameLang":"en"},{"creatorName":"Masao, Okita","creatorNameLang":"en"},{"creatorName":"Takeshi, Abe","creatorNameLang":"en"},{"creatorName":"Yoshiyuki, Asai","creatorNameLang":"en"},{"creatorName":"Taishin, Nomura","creatorNameLang":"en"},{"creatorName":"Kenichi, Hagihara","creatorNameLang":"en"}],"nameIdentifiers":[{}]}]},"item_4_source_id_9":{"attribute_name":"書誌レコードID","attribute_value_mlt":[{"subitem_source_identifier":"AN10463942","subitem_source_identifier_type":"NCID"}]},"item_4_textarea_12":{"attribute_name":"Notice","attribute_value_mlt":[{"subitem_textarea_value":"SIG Technical Reports are nonrefereed and hence may later appear in any journals, conferences, symposia, etc."}]},"item_resource_type":{"attribute_name":"資源タイプ","attribute_value_mlt":[{"resourceuri":"http://purl.org/coar/resource_type/c_18gh","resourcetype":"technical report"}]},"item_4_description_7":{"attribute_name":"論文抄録","attribute_value_mlt":[{"subitem_description":"insilicoSim は多数の多様な常微分方程式から構成されるヘテロな生体モデルを扱う汎用生体シミュレータである．多様なモデルを扱うために，このシミュレータはシミュレーションに関わる数式を表す独自形式のバイトコード用インタプリタとして動作する．本稿ではこのインタプリタを GPU（Graphics Processing Unit） に実装し，シミュレーションを高速化する手法を述べる．数式間のデータ依存に基づくレベルスケジューリングを用い，相互依存のない数式を並列計算する．スレッド間での処理の分岐を避けるために，類似した式を同じワープのスレッドに割り当てる．また，ワープごとにバイトコードを単一化し，メモリ参照を削減する．結果，約 4000 個の式を含むモデルを CPU での単一コアと比べ 13.6 倍高速にシミュレーションできた．","subitem_description_type":"Other"}]},"item_4_description_8":{"attribute_name":"論文抄録(英)","attribute_value_mlt":[{"subitem_description":"insilicoSim is a general biophysical simulator for heterogeneous biophysical models that are consists of many and manifold ordinary differential equations. In order to simulate a variety of models, this simulator operates as an interpreter for an internal byte code representation of simulation related mathematical expressions (MEs). This paper describes an acceleration method of this simulator by implementing its interpreter on the graphics processing unit (GPU). We use level scheduling under the constraint of data dependence among MEs to compute independent MEs in parallel. Our method assigns similar MEs to threads in the same warp to reduce divergent branches. We also reduce memory access by unifying byte codes interpreted by a warp. Our method simulates a model containing 4000 MEs 13.6X faster than that on a core of the CPU.","subitem_description_type":"Other"}]},"item_4_biblio_info_10":{"attribute_name":"書誌情報","attribute_value_mlt":[{"bibliographicPageEnd":"8","bibliographic_titles":[{"bibliographic_title":"研究報告ハイパフォーマンスコンピューティング（HPC）"}],"bibliographicPageStart":"1","bibliographicIssueDates":{"bibliographicIssueDate":"2011-07-20","bibliographicIssueDateType":"Issued"},"bibliographicIssueNumber":"9","bibliographicVolumeNumber":"2011-HPC-130"}]},"relation_version_is_last":true,"weko_creator_id":"11"},"id":75550,"updated":"2025-01-21T21:08:57.618461+00:00","links":{},"created":"2025-01-18T23:32:37.656854+00:00"}