{"id":"https://openalex.org/W2127024638","doi":"https://doi.org/10.1177/1094342009106188","title":"Hybrid Message-Passing and Shared-Memory Programming in a Molecular Dynamics Application On Multicore Clusters","display_name":"Hybrid Message-Passing and Shared-Memory Programming in a Molecular Dynamics Application On Multicore Clusters","publication_year":2009,"publication_date":"2009-06-02","ids":{"openalex":"https://openalex.org/W2127024638","doi":"https://doi.org/10.1177/1094342009106188","mag":"2127024638"},"language":"en","primary_location":{"id":"doi:10.1177/1094342009106188","is_oa":false,"landing_page_url":"https://doi.org/10.1177/1094342009106188","pdf_url":null,"source":{"id":"https://openalex.org/S60606485","display_name":"The International Journal of High Performance Computing Applications","issn_l":"1094-3420","issn":["1094-3420","1741-2846"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320017","host_organization_name":"SAGE Publishing","host_organization_lineage":["https://openalex.org/P4310320017"],"host_organization_lineage_names":["SAGE Publishing"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The International Journal of High Performance Computing Applications","raw_type":"journal-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/A5086321313","display_name":"Martin Chorley","orcid":"https://orcid.org/0000-0001-8744-260X"},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Martin J. Chorley","raw_affiliation_strings":["SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,\rUK,","SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,UK#TAB#"],"affiliations":[{"raw_affiliation_string":"SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,\rUK,","institution_ids":["https://openalex.org/I79510175"]},{"raw_affiliation_string":"SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,UK#TAB#","institution_ids":["https://openalex.org/I79510175"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034009645","display_name":"David Walker","orcid":"https://orcid.org/0000-0002-1360-6330"},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"David W. Walker","raw_affiliation_strings":["SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,\rUK","SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,UK#TAB#"],"affiliations":[{"raw_affiliation_string":"SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,\rUK","institution_ids":["https://openalex.org/I79510175"]},{"raw_affiliation_string":"SCHOOL OF COMPUTER SCIENCE, CARDIFF UNIVERSITY, CARDIFF,UK#TAB#","institution_ids":["https://openalex.org/I79510175"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112855194","display_name":"Martyn F. Guest","orcid":null},"institutions":[{"id":"https://openalex.org/I79510175","display_name":"Cardiff University","ror":"https://ror.org/03kk7td41","country_code":"GB","type":"education","lineage":["https://openalex.org/I79510175"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Martyn F. Guest","raw_affiliation_strings":["ARCCA, CARDIFF UNIVERSITY, CARDIFF, UK"],"affiliations":[{"raw_affiliation_string":"ARCCA, CARDIFF UNIVERSITY, CARDIFF, UK","institution_ids":["https://openalex.org/I79510175"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5086321313"],"corresponding_institution_ids":["https://openalex.org/I79510175"],"apc_list":null,"apc_paid":null,"fwci":1.8743,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.86434585,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"23","issue":"3","first_page":"196","last_page":"211"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1708","display_name":"Hardware and Architecture"},"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/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1708","display_name":"Hardware and Architecture"},"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/T11181","display_name":"Advanced Data Storage Technologies","score":0.9990000128746033,"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/T10829","display_name":"Interconnection Networks and Systems","score":0.9987000226974487,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/infiniband","display_name":"InfiniBand","score":0.9681591391563416},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8691411018371582},{"id":"https://openalex.org/keywords/gigabit-ethernet","display_name":"Gigabit Ethernet","score":0.7713712453842163},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.635691225528717},{"id":"https://openalex.org/keywords/multi-core-processor","display_name":"Multi-core processor","score":0.5970580577850342},{"id":"https://openalex.org/keywords/ethernet","display_name":"Ethernet","score":0.5537192821502686},{"id":"https://openalex.org/keywords/message-passing","display_name":"Message passing","score":0.5200654864311218},{"id":"https://openalex.org/keywords/programming-paradigm","display_name":"Programming paradigm","score":0.5027320384979248},{"id":"https://openalex.org/keywords/latency","display_name":"Latency (audio)","score":0.5015735626220703},{"id":"https://openalex.org/keywords/shared-memory","display_name":"Shared memory","score":0.4548417329788208},{"id":"https://openalex.org/keywords/computer-architecture","display_name":"Computer architecture","score":0.4276658296585083},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.22570481896400452}],"concepts":[{"id":"https://openalex.org/C2781030343","wikidata":"https://www.wikidata.org/wiki/Q922437","display_name":"InfiniBand","level":2,"score":0.9681591391563416},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8691411018371582},{"id":"https://openalex.org/C2776379158","wikidata":"https://www.wikidata.org/wiki/Q1069084","display_name":"Gigabit Ethernet","level":3,"score":0.7713712453842163},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.635691225528717},{"id":"https://openalex.org/C78766204","wikidata":"https://www.wikidata.org/wiki/Q555032","display_name":"Multi-core processor","level":2,"score":0.5970580577850342},{"id":"https://openalex.org/C172173386","wikidata":"https://www.wikidata.org/wiki/Q79984","display_name":"Ethernet","level":2,"score":0.5537192821502686},{"id":"https://openalex.org/C854659","wikidata":"https://www.wikidata.org/wiki/Q1859284","display_name":"Message passing","level":2,"score":0.5200654864311218},{"id":"https://openalex.org/C34165917","wikidata":"https://www.wikidata.org/wiki/Q188267","display_name":"Programming paradigm","level":2,"score":0.5027320384979248},{"id":"https://openalex.org/C82876162","wikidata":"https://www.wikidata.org/wiki/Q17096504","display_name":"Latency (audio)","level":2,"score":0.5015735626220703},{"id":"https://openalex.org/C133875982","wikidata":"https://www.wikidata.org/wiki/Q764810","display_name":"Shared memory","level":2,"score":0.4548417329788208},{"id":"https://openalex.org/C118524514","wikidata":"https://www.wikidata.org/wiki/Q173212","display_name":"Computer architecture","level":1,"score":0.4276658296585083},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.22570481896400452},{"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/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0}],"mesh":[],"locations_count":6,"locations":[{"id":"doi:10.1177/1094342009106188","is_oa":false,"landing_page_url":"https://doi.org/10.1177/1094342009106188","pdf_url":null,"source":{"id":"https://openalex.org/S60606485","display_name":"The International Journal of High Performance Computing Applications","issn_l":"1094-3420","issn":["1094-3420","1741-2846"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320017","host_organization_name":"SAGE Publishing","host_organization_lineage":["https://openalex.org/P4310320017"],"host_organization_lineage_names":["SAGE Publishing"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The International Journal of High Performance Computing Applications","raw_type":"journal-article"},{"id":"pmh:oai:http://orca.cardiff.ac.uk:7376","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306401195","display_name":"ORCA Online Research @Cardiff (Cardiff University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79510175","host_organization_name":"Cardiff University","host_organization_lineage":["https://openalex.org/I79510175"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.453.3206","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.453.3206","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://cacs.usc.edu/education/cs653/Chorley-09-MPI-OMP-MD-IJHPCA09.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.869.6000","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.869.6000","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://orca.cf.ac.uk/7376/1/chorley2009.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.884.4215","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.884.4215","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://martinjc.com/wp-content/papercite-data/pdf/chorley2009.pdf","raw_type":"text"},{"id":"pmh:oai:http://orca-dev.cardiff.ac.uk:7376","is_oa":false,"landing_page_url":"https://orca.cardiff.ac.uk/id/eprint/7376/","pdf_url":null,"source":{"id":"https://openalex.org/S4306401195","display_name":"ORCA Online Research @Cardiff (Cardiff University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79510175","host_organization_name":"Cardiff University","host_organization_lineage":["https://openalex.org/I79510175"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":20,"referenced_works":["https://openalex.org/W187875479","https://openalex.org/W1506478314","https://openalex.org/W1552387776","https://openalex.org/W1575350781","https://openalex.org/W1963882433","https://openalex.org/W2018388996","https://openalex.org/W2046001409","https://openalex.org/W2069756337","https://openalex.org/W2071220401","https://openalex.org/W2098482419","https://openalex.org/W2112300879","https://openalex.org/W2130251611","https://openalex.org/W2134402700","https://openalex.org/W2163715620","https://openalex.org/W2536939761","https://openalex.org/W2798546785","https://openalex.org/W3046179202","https://openalex.org/W4250119831","https://openalex.org/W4253621724","https://openalex.org/W4254638342"],"related_works":["https://openalex.org/W2144740242","https://openalex.org/W2043143850","https://openalex.org/W2056476515","https://openalex.org/W2314805133","https://openalex.org/W2354106728","https://openalex.org/W1483070390","https://openalex.org/W2127024638","https://openalex.org/W2117014006","https://openalex.org/W2260766729","https://openalex.org/W2174039648"],"abstract_inverted_index":{"Hybrid":[0],"programming,":[1],"whereby":[2],"shared-memory":[3],"and":[4,59,80,122],"message-passing":[5],"programming":[6,62],"techniques":[7],"are":[8,112],"combined":[9],"within":[10],"a":[11,20],"single":[12],"parallel":[13],"application,":[14],"has":[15,53,69,87],"often":[16],"been":[17,54,70,88],"discussed":[18],"as":[19],"method":[21],"for":[22,43],"increasing":[23],"code":[24],"performance":[25,41,65,102,111],"on":[26,46,72,93,104],"clusters":[27,44,76],"of":[28,66,119],"symmetric":[29],"multiprocessors":[30],"(SMPs).":[31],"This":[32],"paper":[33],"examines":[34],"whether":[35],"the":[36,94,115,120],"hybrid":[37,60,85,121],"model":[38,86],"brings":[39],"any":[40],"benefits":[42],"based":[45],"multicore":[47,75],"processors.":[48],"A":[49],"molecular":[50],"dynamics":[51],"application":[52,68],"parallelized":[55],"using":[56,77],"both":[57,78],"MPI":[58,123],"MPI/OpenMP":[61],"models.":[63],"The":[64,84,108],"this":[67],"examined":[71],"two":[73],"high-end":[74],"Infiniband":[79,106],"Gigabit":[81,96],"Ethernet":[82,97],"interconnects.":[83,107],"found":[89],"to":[90,114],"perform":[91],"well":[92],"higher-latency":[95],"connection,":[98],"but":[99],"offers":[100],"no":[101],"benefit":[103],"low-latency":[105],"changes":[109],"in":[110],"attributed":[113],"differing":[116],"communication":[117],"profiles":[118],"codes.":[124]},"counts_by_year":[{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
