{ "types" : { "Bookmark" : { "pluralLabel" : "Bookmarks" }, "Publication" : { "pluralLabel" : "Publications" }, "GoldStandardPublication" : { "pluralLabel" : "GoldStandardPublications" }, "GoldStandardBookmark" : { "pluralLabel" : "GoldStandardBookmarks" }, "Tag" : { "pluralLabel" : "Tags" }, "User" : { "pluralLabel" : "Users" }, "Group" : { "pluralLabel" : "Groups" }, "Sphere" : { "pluralLabel" : "Spheres" } }, "properties" : { "count" : { "valueType" : "number" }, "date" : { "valueType" : "date" }, "changeDate" : { "valueType" : "date" }, "url" : { "valueType" : "url" }, "id" : { "valueType" : "url" }, "tags" : { "valueType" : "item" }, "user" : { "valueType" : "item" } }, "items" : [ { "type" : "Bookmark", "id" : "https://puma.ub.uni-stuttgart.de/url/499715738bc015d7117ad11e7c398bbf/droessler", "tags" : [ "arbeiten","docs","dokumente","fdm","kollaboratives","paper","schreiben","shared","software","texteditor" ], "intraHash" : "499715738bc015d7117ad11e7c398bbf", "label" : "Authorea", "user" : "droessler", "description" : "Write, cite, collaborate, host data, and publish all in one place.", "date" : "2017-05-22 13:59:51", "changeDate" : "2017-05-22 11:59:51", "count" : 1, "url" : "https://www.authorea.com" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/212bbebb35041c50aeb84aec3177a1311/ralfschneider", "tags" : [ "MPI","collective","communication","hybrid","memory","model","myown","programming","shared" ], "intraHash" : "12bbebb35041c50aeb84aec3177a1311", "interHash" : "942d7e4eea20dfc15b05fa5663d95a48", "label" : "MPI Collectives for Multi-core Clusters: Optimized Performance of the Hybrid MPI+ MPI Parallel Codes", "user" : "ralfschneider", "description" : "", "date" : "2021-09-28 11:26:33", "changeDate" : "2021-09-28 09:26:33", "count" : 4, "pub-type": "inproceedings", "booktitle": "Proceedings of the 48th International Conference on Parallel Processing: Workshops","series": "ICPP 2019","publisher":"ACM","address":"New York, NY, USA", "year": "2019", "url": "https://doi.org/10.1145/3339186.3339199", "author": [ "Huan Zhou","José Gracia","Ralf Schneider" ], "authors": [ {"first" : "Huan", "last" : "Zhou"}, {"first" : "José", "last" : "Gracia"}, {"first" : "Ralf", "last" : "Schneider"} ], "pages": "18:1-18:10","abstract": "The advent of multi-/many-core processors in clusters advocates hybrid parallel programming,\r\nwhich combines Message Passing Interface (MPI) for inter-node parallelism with a shared\r\nmemory model for on-node parallelism. Compared to the traditional hybrid approach\r\nof MPI plus OpenMP, a new, but promising hybrid approach of MPI plus MPI-3 shared-memory\r\nextensions (MPI+MPI) is gaining attraction. We describe an algorithmic approach for\r\ncollective operations (with allgather and broadcast as concrete examples) in the context\r\nof hybrid MPI+MPI, so as to minimize memory consumption and memory copies. With this\r\napproach, only one memory copy is maintained and shared by on-node processes. This\r\nallows the removal of unnecessary on-node copies of replicated data that are required\r\nbetween MPI processes when the collectives are invoked in the context of pure MPI.\r\nWe compare our approach of collectives for hybrid MPI+MPI and the traditional one\r\nfor pure MPI, and also have a discussion on the synchronization that is required to\r\nguarantee data integrity. The performance of our approach has been validated on a\r\nCray XC40 system (Cray MPI) and NEC cluster (Open MPI), showing that it achieves comparable\r\nor better performance for allgather operations. We have further validated our approach\r\nwith a standard computational kernel, namely distributed matrix multiplication, and\r\na Bayesian Probabilistic Matrix Factorization code.", "isbn" : "9781450371964", "numpages" : "10", "articleno" : "18", "location" : "Kyoto, Japan", "doi" : "10.1145/3339186.3339199", "bibtexKey": "10.1145/3339186.3339199" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/26f2573707b7dcfc6f4bca2c835514afc/dr.romanklinger", "tags" : [ "annotation","competition","german","myown","reviews","sentiment","shared" ], "intraHash" : "6f2573707b7dcfc6f4bca2c835514afc", "interHash" : "d300125ffafa16b57fbbf8cdc49645b5", "label" : "IGGSA Shared Tasks on German Sentiment Analysis", "user" : "dr.romanklinger", "description" : "", "date" : "2017-03-31 18:24:06", "changeDate" : "2017-04-27 21:14:33", "count" : 3, "pub-type": "inproceedings", "booktitle": "Workshop Proceedings of the 12th Edition of the KONVENS Conference","publisher":"University of Hildesheim","address":"Hildesheim, Germany", "year": "2014", "url": "http://opus.bsz-bw.de/ubhi/volltexte/2014/319/pdf/04_01.pdf", "author": [ "Josef Ruppenhofer","Roman Klinger","Julia Maria Struß","Jonathan Sonntag","Michael Wiegand" ], "authors": [ {"first" : "Josef", "last" : "Ruppenhofer"}, {"first" : "Roman", "last" : "Klinger"}, {"first" : "Julia Maria", "last" : "Struß"}, {"first" : "Jonathan", "last" : "Sonntag"}, {"first" : "Michael", "last" : "Wiegand"} ], "editor": [ "Gertrud Faaß","Josef Ruppenhofer" ], "editors": [ {"first" : "Gertrud", "last" : "Faaß"}, {"first" : "Josef", "last" : "Ruppenhofer"} ], "bibtexKey": "Ruppenhofer2014" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2acaeb11d14c4660cf46562d774a35c88/dr.romanklinger", "tags" : [ "bionlp","competition","gene","myown","ner","protein","shared","task" ], "intraHash" : "acaeb11d14c4660cf46562d774a35c88", "interHash" : "0ea467a70be81bfd732b176d2a684615", "label" : "Overview of BioCreative II Gene Mention Recognition", "user" : "dr.romanklinger", "description" : "", "date" : "2017-03-31 18:24:06", "changeDate" : "2017-04-27 21:14:27", "count" : 2, "pub-type": "article", "journal": "Genome Biology", "year": "2008", "url": "http://genomebiology.com/2008/9/S2/S2", "author": [ "Larry Smith","Lorraine K. Tanabe","Rie Johnson nee Ando","Cheng-Ju Juo","I-Fang Chung","Chun-Nan Hsu","Yu-Shi Lin","Roman Klinger","Christoph M. Friedrich","Kuzman Ganchev","Manabu Torii","Hongfang Liu","Barry Haddow","Craig A. Struble","Richard J. Povinelli","Andreas Vlachos","William A. Baumgartner Jr.","Lawrence Hunter","Bob Carpenter","Richard Tzong-Han Tsai","Hong jie Dai","Feng Liu","Yifei Chen","Chengjie Sun","Sophia Katrenko","Pieter Adriaans","Christian Blaschke","Rafel Torres Perez","Mariana Neves","Preslav Nakov","Anna Divoli","Manuel Mana","Jacinto Mata-Vazquez","W. John Wilbur" ], "authors": [ {"first" : "Larry", "last" : "Smith"}, {"first" : "Lorraine K.", "last" : "Tanabe"}, {"first" : "Rie Johnson", "last" : "nee Ando"}, {"first" : "Cheng-Ju", "last" : "Juo"}, {"first" : "I-Fang", "last" : "Chung"}, {"first" : "Chun-Nan", "last" : "Hsu"}, {"first" : "Yu-Shi", "last" : "Lin"}, {"first" : "Roman", "last" : "Klinger"}, {"first" : "Christoph M.", "last" : "Friedrich"}, {"first" : "Kuzman", "last" : "Ganchev"}, {"first" : "Manabu", "last" : "Torii"}, {"first" : "Hongfang", "last" : "Liu"}, {"first" : "Barry", "last" : "Haddow"}, {"first" : "Craig A.", "last" : "Struble"}, {"first" : "Richard J.", "last" : "Povinelli"}, {"first" : "Andreas", "last" : "Vlachos"}, {"first" : "William A.", "last" : "Baumgartner Jr."}, {"first" : "Lawrence", "last" : "Hunter"}, {"first" : "Bob", "last" : "Carpenter"}, {"first" : "Richard Tzong-Han", "last" : "Tsai"}, {"first" : "Hong", "last" : "jie Dai"}, {"first" : "Feng", "last" : "Liu"}, {"first" : "Yifei", "last" : "Chen"}, {"first" : "Chengjie", "last" : "Sun"}, {"first" : "Sophia", "last" : "Katrenko"}, {"first" : "Pieter", "last" : "Adriaans"}, {"first" : "Christian", "last" : "Blaschke"}, {"first" : "Rafel Torres", "last" : "Perez"}, {"first" : "Mariana", "last" : "Neves"}, {"first" : "Preslav", "last" : "Nakov"}, {"first" : "Anna", "last" : "Divoli"}, {"first" : "Manuel", "last" : "Mana"}, {"first" : "Jacinto", "last" : "Mata-Vazquez"}, {"first" : "W. John", "last" : "Wilbur"} ], "volume": "9","number": "Suppl 2","pages": "S2.2-S2.18", "doi" : "10.1186/gb-2008-9-s2-s2", "bibtexKey": "Larry2008" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/2dccb0302d8b765b1450e86f4b2798951/amerwafai", "tags" : [ "HLRS","SCOPE","absolute","and","calculation","cell","colored","core","distributed","dynamic","force","gather","intel","interaction","law","linked","memory","molecular","myown","newton","operation","optimization","parallel","parallelization","performance","phi","processing","range","scatter","shared","short","site","third","xeon","yellow" ], "intraHash" : "dccb0302d8b765b1450e86f4b2798951", "interHash" : "902fd5f88d25cf9f9a271091a6bbd41a", "label" : "Optimized Force Calculation of Molecular Dynamics Simulations for the Intel Xeon Phi", "user" : "amerwafai", "description" : "", "date" : "2016-01-29 09:34:55", "changeDate" : "2016-01-29 08:41:13", "count" : 1, "pub-type": "conference", "booktitle": "Euro-Par 2015: Parallel Processing","series": "LNCS","address":"Vienna, Austria", "year": "2015", "url": "", "author": [ "Nikola Tchipev","Amer Wafai","Colin W. Glass","Wolfgang Eckhardt","Alexander Heinecke","Hans-Joachim Bungartz","Philipp Neumann" ], "authors": [ {"first" : "Nikola", "last" : "Tchipev"}, {"first" : "Amer", "last" : "Wafai"}, {"first" : "Colin W.", "last" : "Glass"}, {"first" : "Wolfgang", "last" : "Eckhardt"}, {"first" : "Alexander", "last" : "Heinecke"}, {"first" : "Hans-Joachim", "last" : "Bungartz"}, {"first" : "Philipp", "last" : "Neumann"} ], "editor": [ "Jesper Larsson Träff","Sascha Hunold","Francesco Versaci" ], "editors": [ {"first" : "Jesper Larsson", "last" : "Träff"}, {"first" : "Sascha", "last" : "Hunold"}, {"first" : "Francesco", "last" : "Versaci"} ], "volume": "9233","abstract": "We provide details on the shared-memory parallelization for manycore architectures of the molecular dynamics framework ls1-mardyn, including an optimization of the SIMD vectorization for multi-centered molecules. The novel shared-memory parallelization scheme allows to re- tain Newton's third law optimization and exhibits very good scaling on many-core devices such as a full Xeon Phi card running 240 threads. The Xeon Phi can thus be exploited and delivers comparable performance as IvyBridge nodes in our experiments.", "date-added" : "2015-08-19 09:05:42 +0000", "date-modified" : "2015-08-19 09:10:27 +0000", "bibtexKey": "wafai15" } , { "type" : "Publication", "id" : "https://puma.ub.uni-stuttgart.de/bibtex/235141c76888b71eb1199caedc8b1690d/kamranidrees", "tags" : [ "Communication","Distributed","Framework","HLRS","MPI","One-sided","PGAS","Runtime","SCOPE","Shared","myown" ], "intraHash" : "35141c76888b71eb1199caedc8b1690d", "interHash" : "02610572e0588fd46e720c34a5a4973c", "label" : "DART-MPI: An MPI-based Implementation of a PGAS Runtime System", "user" : "kamranidrees", "description" : "", "date" : "2015-10-19 14:20:20", "changeDate" : "2015-11-19 14:17:23", "count" : 2, "pub-type": "inproceedings", "booktitle": "Proceedings of the 8th International Conference on Partitioned Global Address Space Programming Models","series": "PGAS '14","publisher":"ACM","address":"New York, NY, USA", "year": "2014", "url": "http://doi.acm.org/10.1145/2676870.2676875", "author": [ "Huan Zhou","Yousri Mhedheb","Kamran Idrees","Colin W. Glass","José Gracia","Karl Fürlinger" ], "authors": [ {"first" : "Huan", "last" : "Zhou"}, {"first" : "Yousri", "last" : "Mhedheb"}, {"first" : "Kamran", "last" : "Idrees"}, {"first" : "Colin W.", "last" : "Glass"}, {"first" : "José", "last" : "Gracia"}, {"first" : "Karl", "last" : "Fürlinger"} ], "pages": "3:1--3:11", "location" : "Eugene, OR, USA", "acmid" : "2676875", "isbn" : "978-1-4503-3247-7", "numpages" : "11", "articleno" : "3", "doi" : "10.1145/2676870.2676875", "bibtexKey": "Zhou:2014:DMI:2676870.2676875" } ] }