{"id":"https://openalex.org/W2089265429","doi":"https://doi.org/10.1145/1006209.1006232","title":"Implementation and performance evaluation of CONFLEX-G","display_name":"Implementation and performance evaluation of CONFLEX-G","publication_year":2004,"publication_date":"2004-06-26","ids":{"openalex":"https://openalex.org/W2089265429","doi":"https://doi.org/10.1145/1006209.1006232","mag":"2089265429"},"language":"en","primary_location":{"id":"doi:10.1145/1006209.1006232","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1006209.1006232","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 18th annual international conference on Supercomputing","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081151816","display_name":"Yoshihiro Nakajima","orcid":"https://orcid.org/0000-0002-7422-730X"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Yoshihiro Nakajima","raw_affiliation_strings":["University of Tsukuba, Tsukuba, Japan",", University of Tsukuba, Tsukuba, Japan"],"affiliations":[{"raw_affiliation_string":"University of Tsukuba, Tsukuba, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":", University of Tsukuba, Tsukuba, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040254066","display_name":"Mitsuhisa Sato","orcid":"https://orcid.org/0000-0003-0543-7116"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Mitsuhisa Sato","raw_affiliation_strings":["University of Tsukuba, Tsukuba, Japan",", University of Tsukuba, Tsukuba, Japan"],"affiliations":[{"raw_affiliation_string":"University of Tsukuba, Tsukuba, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":", University of Tsukuba, Tsukuba, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028909220","display_name":"Midori Goto","orcid":"https://orcid.org/0000-0001-7739-0447"},"institutions":[{"id":"https://openalex.org/I136259955","display_name":"Toyohashi University of Technology","ror":"https://ror.org/04ezg6d83","country_code":"JP","type":"education","lineage":["https://openalex.org/I136259955"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hitoshi Goto","raw_affiliation_strings":["Toyohashi University of Technology, Toyohashi, Japan"],"affiliations":[{"raw_affiliation_string":"Toyohashi University of Technology, Toyohashi, Japan","institution_ids":["https://openalex.org/I136259955"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020716792","display_name":"Taisuke Boku","orcid":"https://orcid.org/0000-0001-8730-2228"},"institutions":[{"id":"https://openalex.org/I136259955","display_name":"Toyohashi University of Technology","ror":"https://ror.org/04ezg6d83","country_code":"JP","type":"education","lineage":["https://openalex.org/I136259955"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Taisuke Boku","raw_affiliation_strings":["Toyohashi University of Technology, Toyohashi, Japan"],"affiliations":[{"raw_affiliation_string":"Toyohashi University of Technology, Toyohashi, Japan","institution_ids":["https://openalex.org/I136259955"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100710410","display_name":"Daisuke Takahashi","orcid":"https://orcid.org/0000-0003-1357-5770"},"institutions":[{"id":"https://openalex.org/I136259955","display_name":"Toyohashi University of Technology","ror":"https://ror.org/04ezg6d83","country_code":"JP","type":"education","lineage":["https://openalex.org/I136259955"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Daisuke Takahashi","raw_affiliation_strings":["Toyohashi University of Technology, Toyohashi, Japan"],"affiliations":[{"raw_affiliation_string":"Toyohashi University of Technology, Toyohashi, Japan","institution_ids":["https://openalex.org/I136259955"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5081151816"],"corresponding_institution_ids":["https://openalex.org/I146399215"],"apc_list":null,"apc_paid":null,"fwci":0.4635,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.71233972,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"154","last_page":"163"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10742","display_name":"Peer-to-Peer Network Technologies","score":0.996999979019165,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9959999918937683,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/initialization","display_name":"Initialization","score":0.9097431302070618},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8273663520812988},{"id":"https://openalex.org/keywords/grid","display_name":"Grid","score":0.7451899647712708},{"id":"https://openalex.org/keywords/testbed","display_name":"Testbed","score":0.6639034748077393},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.6292251944541931},{"id":"https://openalex.org/keywords/grid-computing","display_name":"Grid computing","score":0.5925804972648621},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.5441440939903259},{"id":"https://openalex.org/keywords/cluster","display_name":"Cluster (spacecraft)","score":0.47959840297698975},{"id":"https://openalex.org/keywords/supercomputer","display_name":"Supercomputer","score":0.4624299108982086},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.45849812030792236},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.4407682716846466},{"id":"https://openalex.org/keywords/parametric-statistics","display_name":"Parametric statistics","score":0.4176541566848755},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3226318657398224},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.11096853017807007}],"concepts":[{"id":"https://openalex.org/C114466953","wikidata":"https://www.wikidata.org/wiki/Q6034165","display_name":"Initialization","level":2,"score":0.9097431302070618},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8273663520812988},{"id":"https://openalex.org/C187691185","wikidata":"https://www.wikidata.org/wiki/Q2020720","display_name":"Grid","level":2,"score":0.7451899647712708},{"id":"https://openalex.org/C31395832","wikidata":"https://www.wikidata.org/wiki/Q1318674","display_name":"Testbed","level":2,"score":0.6639034748077393},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.6292251944541931},{"id":"https://openalex.org/C70429105","wikidata":"https://www.wikidata.org/wiki/Q249999","display_name":"Grid computing","level":3,"score":0.5925804972648621},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.5441440939903259},{"id":"https://openalex.org/C164866538","wikidata":"https://www.wikidata.org/wiki/Q367351","display_name":"Cluster (spacecraft)","level":2,"score":0.47959840297698975},{"id":"https://openalex.org/C83283714","wikidata":"https://www.wikidata.org/wiki/Q121117","display_name":"Supercomputer","level":2,"score":0.4624299108982086},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.45849812030792236},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.4407682716846466},{"id":"https://openalex.org/C117251300","wikidata":"https://www.wikidata.org/wiki/Q1849855","display_name":"Parametric statistics","level":2,"score":0.4176541566848755},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3226318657398224},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.11096853017807007},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/1006209.1006232","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1006209.1006232","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 18th annual international conference on Supercomputing","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.5299999713897705,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W60075760","https://openalex.org/W1238971896","https://openalex.org/W1506032214","https://openalex.org/W1508963486","https://openalex.org/W1546968886","https://openalex.org/W1673352269","https://openalex.org/W2099525660","https://openalex.org/W2100136154","https://openalex.org/W2111996486","https://openalex.org/W2127116424","https://openalex.org/W2911179163","https://openalex.org/W4213257530","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2058965144","https://openalex.org/W2164382479","https://openalex.org/W2883256816","https://openalex.org/W2146343568","https://openalex.org/W98480971","https://openalex.org/W2150291671","https://openalex.org/W2013643406","https://openalex.org/W2027972911","https://openalex.org/W2171408034","https://openalex.org/W2157978810"],"abstract_inverted_index":{"CONFLEX-G":[0,17,33,53,129,161],"is":[1,96,104],"the":[2,30,58,75,85,93,99,102,108,114,145,154,169,172,176,197,201],"grid-enabled":[3],"version":[4],"of":[5,32,38,50,57,110,147,150,165,171,179,183,196,200],"a":[6,19,35,65,69,79,148,163,180],"molecular":[7,71],"conformational":[8],"space":[9],"search":[10,87],"program":[11],"called":[12,23],"CONFLEX.":[13],"We":[14],"have":[15],"implemented":[16],"using":[18],"grid":[20,36],"RPC":[21,100],"system":[22],"OmniRPC.":[24],"In":[25,44,89],"this":[26,90],"paper,":[27],"we":[28],"report":[29],"performance":[31,132,207],"in":[34,74,98,127,153,168],"testbed":[37],"several":[39],"geographically":[40],"distributed":[41],"PC":[42],"clusters.":[43],"order":[45],"to":[46,63,83,134],"explore":[47],"many":[48],"conformation":[49],"large":[51,181],"bio-molecules,":[52],"generates":[54],"trial":[55,66,187,202],"structures":[56],"molecules":[59],"and":[60,122,137,185],"allocates":[61],"jobs":[62],"optimize":[64],"structure":[67,188,203],"with":[68],"reliable":[70],"mechanics":[72],"method":[73],"grid.":[76,155],"OmniRPC":[77],"provides":[78],"restricted":[80],"persistence":[81],"model":[82],"support":[84],"parametric":[86],"applications.":[88],"model,":[91],"when":[92],"initialization":[94,115,123],"procedure":[95],"defined":[97],"module,":[101],"module":[103],"automatically":[105],"initialized":[106],"at":[107,124],"time":[109,199],"invocation":[111],"by":[112,143],"calling":[113],"procedure.":[116],"This":[117],"can":[118,130,138],"eliminate":[119],"unnecessary":[120],"communication":[121],"each":[125,186],"call":[126],"CONFLEX-G.":[128],"achieve":[131],"comparable":[133],"CONFLEX":[135],"MPI":[136],"exploit":[139],"more":[140],"computing":[141],"resources":[142],"allowing":[144],"use":[146],"cluster":[149],"multiple":[151],"clusters":[152],"The":[156,193],"experimental":[157],"result":[158],"shows":[159],"that":[160],"achieved":[162],"speedup":[164],"56.5":[166],"times":[167],"case":[170],"1BL1":[173],"molecule,":[174],"where":[175],"molecule":[177],"consists":[178],"number":[182],"atoms,":[184],"optimization":[189,198],"requires":[190],"significant":[191],"time.":[192],"load":[194],"imbalance":[195],"may":[204],"also":[205],"cause":[206],"degradation.":[208]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
