{"id":"https://openalex.org/W4220806817","doi":"https://doi.org/10.1162/dint_a_00135","title":"Making Canonical Workflow Building Blocks Interoperable across Workflow Languages","display_name":"Making Canonical Workflow Building Blocks Interoperable across Workflow Languages","publication_year":2022,"publication_date":"2022-01-01","ids":{"openalex":"https://openalex.org/W4220806817","doi":"https://doi.org/10.1162/dint_a_00135"},"language":"en","primary_location":{"id":"doi:10.1162/dint_a_00135","is_oa":true,"landing_page_url":"https://doi.org/10.1162/dint_a_00135","pdf_url":"https://direct.mit.edu/dint/article-pdf/4/2/342/2023530/dint_a_00135.pdf","source":{"id":"https://openalex.org/S4210186383","display_name":"Data Intelligence","issn_l":"2096-7004","issn":["2096-7004","2641-435X"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310315718","host_organization_name":"The MIT Press","host_organization_lineage":["https://openalex.org/P4310315718"],"host_organization_lineage_names":["The MIT Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Data Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://direct.mit.edu/dint/article-pdf/4/2/342/2023530/dint_a_00135.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029941394","display_name":"Stian Soiland\u2010Reyes","orcid":null},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]},{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["GB","NL"],"is_corresponding":true,"raw_author_name":"Stian Soiland-Reyes","raw_affiliation_strings":["Department of Computer Science, The University of Manchester, Manchester M13 9PL, UK","Informatics Institute, University of Amsterdam, Amsterdam 1098 XH, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, The University of Manchester, Manchester M13 9PL, UK","institution_ids":["https://openalex.org/I28407311"]},{"raw_affiliation_string":"Informatics Institute, University of Amsterdam, Amsterdam 1098 XH, The Netherlands","institution_ids":["https://openalex.org/I887064364"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091460370","display_name":"Gen\u00eds Bayarri","orcid":"https://orcid.org/0000-0003-0513-0288"},"institutions":[{"id":"https://openalex.org/I4210122345","display_name":"Institute for Research in Biomedicine","ror":"https://ror.org/01z1gye03","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210122345","https://openalex.org/I4210132884","https://openalex.org/I4387153040"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Gen\u00eds Bayarri","raw_affiliation_strings":["Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology (BIST), Barcelona 08028, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology (BIST), Barcelona 08028, Spain","institution_ids":["https://openalex.org/I4210122345"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051114531","display_name":"Pau Andrio","orcid":"https://orcid.org/0000-0003-2116-3880"},"institutions":[{"id":"https://openalex.org/I2799803557","display_name":"Barcelona Supercomputing Center","ror":"https://ror.org/05sd8tv96","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2799803557","https://openalex.org/I9617848"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Pau Andrio","raw_affiliation_strings":["The Spanish National Bioinformatics Institute (INB), Barcelona Supercomputing Center (BSC), Barcelona 08034, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Spanish National Bioinformatics Institute (INB), Barcelona Supercomputing Center (BSC), Barcelona 08034, Spain","institution_ids":["https://openalex.org/I9617848","https://openalex.org/I2799803557"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5105194492","display_name":"Robin Long","orcid":null},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]},{"id":"https://openalex.org/I67415387","display_name":"Lancaster University","ror":"https://ror.org/04f2nsd36","country_code":"GB","type":"education","lineage":["https://openalex.org/I67415387"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Robin Long","raw_affiliation_strings":["Data Science Institute, Lancaster University, Lancaster, Lancashire LA1 4YW, UK","Research IT, IT Services, The University of Manchester, Manchester M13 9PL, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Data Science Institute, Lancaster University, Lancaster, Lancashire LA1 4YW, UK","institution_ids":["https://openalex.org/I67415387"]},{"raw_affiliation_string":"Research IT, IT Services, The University of Manchester, Manchester M13 9PL, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048955185","display_name":"Douglas Lowe","orcid":"https://orcid.org/0000-0002-1248-3594"},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Douglas Lowe","raw_affiliation_strings":["Research IT, IT Services, The University of Manchester, Manchester M13 9PL, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research IT, IT Services, The University of Manchester, Manchester M13 9PL, UK","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035192006","display_name":"Ania Niewielska","orcid":"https://orcid.org/0000-0003-0989-3389"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Ania Niewielska","raw_affiliation_strings":["European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridgeshire CB10 1SD, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridgeshire CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034924491","display_name":"Paul Groth","orcid":"https://orcid.org/0000-0003-0183-6910"},"institutions":[{"id":"https://openalex.org/I4210122345","display_name":"Institute for Research in Biomedicine","ror":"https://ror.org/01z1gye03","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210122345","https://openalex.org/I4210132884","https://openalex.org/I4387153040"]},{"id":"https://openalex.org/I887064364","display_name":"University of Amsterdam","ror":"https://ror.org/04dkp9463","country_code":"NL","type":"education","lineage":["https://openalex.org/I887064364"]}],"countries":["ES","NL"],"is_corresponding":false,"raw_author_name":"Paul Groth","raw_affiliation_strings":["Informatics Institute, University of Amsterdam, Amsterdam 1098 XH, The Netherlands","Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology (BIST), Barcelona 08028, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Informatics Institute, University of Amsterdam, Amsterdam 1098 XH, The Netherlands","institution_ids":["https://openalex.org/I887064364"]},{"raw_affiliation_string":"Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology (BIST), Barcelona 08028, Spain","institution_ids":["https://openalex.org/I4210122345"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5029941394"],"corresponding_institution_ids":["https://openalex.org/I28407311","https://openalex.org/I887064364"],"apc_list":null,"apc_paid":null,"fwci":2.3304,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.92057152,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"4","issue":"2","first_page":"342","last_page":"357"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9994999766349792,"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"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9994999766349792,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9850999712944031,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11937","display_name":"Research Data Management Practices","score":0.9818999767303467,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"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/workflow","display_name":"Workflow","score":0.9290953874588013},{"id":"https://openalex.org/keywords/workflow-technology","display_name":"Workflow technology","score":0.8556737899780273},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.7983781695365906},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.770186185836792},{"id":"https://openalex.org/keywords/workflow-management-system","display_name":"Workflow management system","score":0.741077721118927},{"id":"https://openalex.org/keywords/workflow-engine","display_name":"Workflow engine","score":0.7136871814727783},{"id":"https://openalex.org/keywords/xpdl","display_name":"XPDL","score":0.7088028192520142},{"id":"https://openalex.org/keywords/windows-workflow-foundation","display_name":"Windows Workflow Foundation","score":0.6916375160217285},{"id":"https://openalex.org/keywords/reuse","display_name":"Reuse","score":0.6346837282180786},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.6076810956001282},{"id":"https://openalex.org/keywords/workflow-management-coalition","display_name":"Workflow Management Coalition","score":0.5396985411643982},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.37923693656921387},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.30440282821655273},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.2840367555618286},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13322052359580994}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.9290953874588013},{"id":"https://openalex.org/C19612761","wikidata":"https://www.wikidata.org/wiki/Q8034836","display_name":"Workflow technology","level":3,"score":0.8556737899780273},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.7983781695365906},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.770186185836792},{"id":"https://openalex.org/C140824633","wikidata":"https://www.wikidata.org/wiki/Q2808660","display_name":"Workflow management system","level":3,"score":0.741077721118927},{"id":"https://openalex.org/C188220564","wikidata":"https://www.wikidata.org/wiki/Q3325097","display_name":"Workflow engine","level":3,"score":0.7136871814727783},{"id":"https://openalex.org/C130536060","wikidata":"https://www.wikidata.org/wiki/Q592375","display_name":"XPDL","level":4,"score":0.7088028192520142},{"id":"https://openalex.org/C163888707","wikidata":"https://www.wikidata.org/wiki/Q1154450","display_name":"Windows Workflow Foundation","level":4,"score":0.6916375160217285},{"id":"https://openalex.org/C206588197","wikidata":"https://www.wikidata.org/wiki/Q846574","display_name":"Reuse","level":2,"score":0.6346837282180786},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.6076810956001282},{"id":"https://openalex.org/C186533612","wikidata":"https://www.wikidata.org/wiki/Q471004","display_name":"Workflow Management Coalition","level":5,"score":0.5396985411643982},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.37923693656921387},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.30440282821655273},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.2840367555618286},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13322052359580994},{"id":"https://openalex.org/C548081761","wikidata":"https://www.wikidata.org/wiki/Q180388","display_name":"Waste management","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1162/dint_a_00135","is_oa":true,"landing_page_url":"https://doi.org/10.1162/dint_a_00135","pdf_url":"https://direct.mit.edu/dint/article-pdf/4/2/342/2023530/dint_a_00135.pdf","source":{"id":"https://openalex.org/S4210186383","display_name":"Data Intelligence","issn_l":"2096-7004","issn":["2096-7004","2641-435X"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310315718","host_organization_name":"The MIT Press","host_organization_lineage":["https://openalex.org/P4310315718"],"host_organization_lineage_names":["The MIT Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Data Intelligence","raw_type":"journal-article"},{"id":"pmh:oai:dare.uva.nl:publications/fffa349f-e28c-4cdd-8d17-36f384d21bed","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400088","display_name":"UvA-DARE (University of Amsterdam)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I887064364","host_organization_name":"University of Amsterdam","host_organization_lineage":["https://openalex.org/I887064364"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""},{"id":"pmh:oai:doaj.org/article:21d5907ba4914ed1801648dc09bd25ba","is_oa":false,"landing_page_url":"https://doaj.org/article/21d5907ba4914ed1801648dc09bd25ba","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Data Intelligence, Vol 4, Iss 2 (2023)","raw_type":"article"},{"id":"pmh:oai:upcommons.upc.edu:2117/364027","is_oa":true,"landing_page_url":"http://hdl.handle.net/2117/364027","pdf_url":null,"source":{"id":"https://openalex.org/S4377196262","display_name":"UPCommons institutional repository (Universitat Polit\u00e8cnica de Catalunya)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I9617848","host_organization_name":"Universitat Polit\u00e8cnica de Catalunya","host_organization_lineage":["https://openalex.org/I9617848"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1162/dint_a_00135","is_oa":true,"landing_page_url":"https://doi.org/10.1162/dint_a_00135","pdf_url":"https://direct.mit.edu/dint/article-pdf/4/2/342/2023530/dint_a_00135.pdf","source":{"id":"https://openalex.org/S4210186383","display_name":"Data Intelligence","issn_l":"2096-7004","issn":["2096-7004","2641-435X"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310315718","host_organization_name":"The MIT Press","host_organization_lineage":["https://openalex.org/P4310315718"],"host_organization_lineage_names":["The MIT Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Data Intelligence","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4220806817.pdf"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1168671556","https://openalex.org/W2010229520","https://openalex.org/W2094379143","https://openalex.org/W2097464861","https://openalex.org/W2118317343","https://openalex.org/W2140728823","https://openalex.org/W2141541659","https://openalex.org/W2169826929","https://openalex.org/W2472803348","https://openalex.org/W2560471521","https://openalex.org/W2572857085","https://openalex.org/W2607211817","https://openalex.org/W2731189061","https://openalex.org/W2739783898","https://openalex.org/W2765426977","https://openalex.org/W2765745983","https://openalex.org/W2886900553","https://openalex.org/W2917207851","https://openalex.org/W2952768760","https://openalex.org/W2955703013","https://openalex.org/W2972751083","https://openalex.org/W2986579771","https://openalex.org/W3013553122","https://openalex.org/W3022223020","https://openalex.org/W3121485564","https://openalex.org/W3121589054","https://openalex.org/W3126032218","https://openalex.org/W3160531185","https://openalex.org/W3200572611","https://openalex.org/W3203002808","https://openalex.org/W4205738517","https://openalex.org/W4221108199"],"related_works":["https://openalex.org/W2373541195","https://openalex.org/W2376410910","https://openalex.org/W291310304","https://openalex.org/W2365658322","https://openalex.org/W2374818432","https://openalex.org/W2370109655","https://openalex.org/W2370747980","https://openalex.org/W2166163080","https://openalex.org/W2169936168","https://openalex.org/W2035400554"],"abstract_inverted_index":{"Abstract":[0],"We":[1,90],"introduce":[2],"the":[3,44,56],"concept":[4,38],"of":[5,13,52,58,105,120],"Canonical":[6,106],"Workflow":[7,86,107],"Building":[8,46],"Blocks":[9,47],"(CWBB),":[10],"a":[11,27,50,70,95],"methodology":[12],"describing":[14],"and":[15,34,41,81,102,118],"wrapping":[16],"computational":[17,59,121],"tools,":[18],"in":[19,26,55,112],"order":[20,113],"for":[21,98,109],"them":[22],"to":[23,114],"be":[24],"utilised":[25],"reproducible":[28],"manner":[29],"from":[30],"multiple":[31],"workflow":[32,65,124],"languages":[33,66],"execution":[35],"platforms.":[36],"The":[37],"is":[39,67,94],"implemented":[40],"demonstrated":[42],"with":[43,83],"BioExcel":[45],"library":[48,80],"(BioBB),":[49],"collection":[51],"tool":[53],"wrappers":[54],"field":[57],"biomolecular":[60],"simulation.":[61],"Interoperability":[62],"across":[63,123],"different":[64,85],"showcased":[68],"through":[69],"protein":[71],"Molecular":[72],"Dynamics":[73],"setup":[74],"transversal":[75],"workflow,":[76],"built":[77],"using":[78],"this":[79],"run":[82],"5":[84],"Manager":[87],"Systems":[88],"(WfMS).":[89],"argue":[91],"such":[92],"practice":[93],"necessary":[96],"requirement":[97],"FAIR":[99],"Computational":[100],"Workflows":[101],"an":[103],"element":[104],"Frameworks":[108],"Research":[110],"(CWFR)":[111],"improve":[115],"widespread":[116],"adoption":[117],"reuse":[119],"methods":[122],"language":[125],"barriers.":[126]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2026-05-22T06:13:13.366637","created_date":"2025-10-10T00:00:00"}
