{"id":"https://openalex.org/W2115628787","doi":"https://doi.org/10.1186/1751-0473-7-5","title":"Automatic Fortran to C++ conversion with FABLE","display_name":"Automatic Fortran to C++ conversion with FABLE","publication_year":2012,"publication_date":"2012-05-28","ids":{"openalex":"https://openalex.org/W2115628787","doi":"https://doi.org/10.1186/1751-0473-7-5","mag":"2115628787","pmid":"https://pubmed.ncbi.nlm.nih.gov/22640868"},"language":"en","primary_location":{"id":"doi:10.1186/1751-0473-7-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-7-5","pdf_url":"https://scfbm.biomedcentral.com/track/pdf/10.1186/1751-0473-7-5","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source Code for Biology and Medicine","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://scfbm.biomedcentral.com/track/pdf/10.1186/1751-0473-7-5","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110342059","display_name":"Ralf W. Grosse\u2010Kunstleve","orcid":null},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ralf W Grosse-Kunstleve","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, Cyclotron Road, BLDG, 64R0121, Berkeley, CA, 94720-8118, USA. fable@cci.lbl.gov","Lawrence Berkeley National Laboratory, Berkeley, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, Cyclotron Road, BLDG, 64R0121, Berkeley, CA, 94720-8118, USA. fable@cci.lbl.gov","institution_ids":[]},{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, Berkeley, USA","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090015351","display_name":"Thomas C. Terwilliger","orcid":"https://orcid.org/0000-0001-6384-0320"},"institutions":[{"id":"https://openalex.org/I1343871089","display_name":"Los Alamos National Laboratory","ror":"https://ror.org/01e41cf67","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I1343871089","https://openalex.org/I198811213","https://openalex.org/I4210120050"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Thomas C Terwilliger","raw_affiliation_strings":["Los Alamos National Laboratory, Los Alamos, NM, 87545, USA","[Los Alamos National Laboratory, Los Alamos, USA]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Los Alamos National Laboratory, Los Alamos, NM, 87545, USA","institution_ids":["https://openalex.org/I1343871089"]},{"raw_affiliation_string":"[Los Alamos National Laboratory, Los Alamos, USA]","institution_ids":["https://openalex.org/I1343871089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072228481","display_name":"Nicholas K. Sauter","orcid":"https://orcid.org/0000-0003-2786-6552"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicholas K Sauter","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, Cyclotron Road, BLDG, 64R0121, Berkeley, CA, 94720-8118, USA","Lawrence Berkeley National Laboratory, Berkeley, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, Cyclotron Road, BLDG, 64R0121, Berkeley, CA, 94720-8118, USA","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, Berkeley, USA","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027915011","display_name":"Paul D. Adams","orcid":"https://orcid.org/0000-0001-9333-8219"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Paul D Adams","raw_affiliation_strings":["Department of Bioengineering, University of California Berkeley, Berkeley, CA, 94720, USA","Lawrence Berkeley National Laboratory, Cyclotron Road, BLDG, 64R0121, Berkeley, CA, 94720-8118, USA","Department of Bioengineering, University of California Berkeley, Berkeley, USA","Lawrence Berkeley National Laboratory, Berkeley, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California Berkeley, Berkeley, CA, 94720, USA","institution_ids":["https://openalex.org/I95457486"]},{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, Cyclotron Road, BLDG, 64R0121, Berkeley, CA, 94720-8118, USA","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Department of Bioengineering, University of California Berkeley, Berkeley, USA","institution_ids":["https://openalex.org/I95457486"]},{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, Berkeley, USA","institution_ids":["https://openalex.org/I148283060"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5110342059"],"corresponding_institution_ids":["https://openalex.org/I148283060"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":23,"citation_normalized_percentile":{"value":0.13123674,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"7","issue":"1","first_page":"5","last_page":"5"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10126","display_name":"Logic, programming, and type systems","score":0.08470000326633453,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T10126","display_name":"Logic, programming, and type systems","score":0.08470000326633453,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.08399999886751175,"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/T10904","display_name":"Embedded Systems Design Techniques","score":0.08160000294446945,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/fable","display_name":"Fable","score":0.8558763265609741},{"id":"https://openalex.org/keywords/fortran","display_name":"Fortran","score":0.8542121648788452},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.773472785949707},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.6226928234100342},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5151144862174988},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.45987123250961304},{"id":"https://openalex.org/keywords/object","display_name":"Object (grammar)","score":0.4394489824771881},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.13944947719573975},{"id":"https://openalex.org/keywords/archaeology","display_name":"Archaeology","score":0.0969434380531311}],"concepts":[{"id":"https://openalex.org/C2778662471","wikidata":"https://www.wikidata.org/wiki/Q693","display_name":"Fable","level":2,"score":0.8558763265609741},{"id":"https://openalex.org/C2778241615","wikidata":"https://www.wikidata.org/wiki/Q83303","display_name":"Fortran","level":2,"score":0.8542121648788452},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.773472785949707},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.6226928234100342},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5151144862174988},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.45987123250961304},{"id":"https://openalex.org/C2781238097","wikidata":"https://www.wikidata.org/wiki/Q175026","display_name":"Object (grammar)","level":2,"score":0.4394489824771881},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.13944947719573975},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0969434380531311},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/1751-0473-7-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-7-5","pdf_url":"https://scfbm.biomedcentral.com/track/pdf/10.1186/1751-0473-7-5","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source Code for Biology and Medicine","raw_type":"journal-article"},{"id":"pmid:22640868","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22640868","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source code for biology and medicine","raw_type":null},{"id":"pmh:oai:europepmc.org:2448972","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3448510","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"},{"id":"pmh:oai:osti.gov:1628964","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1628964","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"doi:10.1186/1751-0473-7-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1751-0473-7-5","pdf_url":"https://scfbm.biomedcentral.com/track/pdf/10.1186/1751-0473-7-5","source":{"id":"https://openalex.org/S45786803","display_name":"Source Code for Biology and Medicine","issn_l":"1751-0473","issn":["1751-0473"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Source Code for Biology and Medicine","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1286236842","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2503023272","display_name":null,"funder_award_id":"Contract No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2539837713","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3083819904","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3580554091","display_name":null,"funder_award_id":"P01GM063210","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G542631466","display_name":null,"funder_award_id":"No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6268907711","display_name":null,"funder_award_id":"P01GM063210","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6348972864","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6558272803","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7538560101","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G969889393","display_name":null,"funder_award_id":"DE-AC02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2115628787.pdf","grobid_xml":"https://content.openalex.org/works/W2115628787.grobid-xml"},"referenced_works_count":18,"referenced_works":["https://openalex.org/W68927907","https://openalex.org/W85593233","https://openalex.org/W143162329","https://openalex.org/W1964477602","https://openalex.org/W1965277349","https://openalex.org/W1971536893","https://openalex.org/W1977303228","https://openalex.org/W2001641653","https://openalex.org/W2078235355","https://openalex.org/W2081656192","https://openalex.org/W2110893691","https://openalex.org/W2114622716","https://openalex.org/W2116389515","https://openalex.org/W2132087433","https://openalex.org/W2152448366","https://openalex.org/W2180229411","https://openalex.org/W2913186510","https://openalex.org/W2987803397"],"related_works":["https://openalex.org/W2358000247","https://openalex.org/W4360876070","https://openalex.org/W1570991305","https://openalex.org/W2790069986","https://openalex.org/W2604688253","https://openalex.org/W655076135","https://openalex.org/W2045873407","https://openalex.org/W4254421097","https://openalex.org/W158224001","https://openalex.org/W243993585"],"abstract_inverted_index":{"BACKGROUND:":[0],"In":[1,158],"scientific":[2,50],"computing,":[3],"Fortran":[4,57,92,103,164],"was":[5],"the":[6,13,17,45,67,79,120,160,163,169,172],"dominant":[7],"implementation":[8],"language":[9],"throughout":[10],"most":[11,102],"of":[12,16,47,70,81,91,162,171,177],"second":[14],"part":[15],"20th":[18],"century.":[19],"The":[20],"many":[21],"tools":[22],"accumulated":[23],"during":[24],"this":[25],"time":[26,123],"have":[27,54],"been":[28],"difficult":[29],"to":[30,58,119,133],"integrate":[31],"with":[32,109],"modern":[33,140],"software,":[34],"which":[35],"is":[36,113,131,150,166],"now":[37],"dominated":[38],"by":[39,44],"object-oriented":[40,141],"languages.":[41,76,185],"RESULTS:":[42],"Driven":[43],"requirements":[46],"a":[48,56,144,153],"large-scale":[49],"software":[51],"project,":[52],"we":[53],"developed":[55],"C++":[59,94,173],"source-to-source":[60],"conversion":[61],"tool":[62],"named":[63],"FABLE.":[64],"This":[65],"enables":[66],"continued":[68],"development":[69,122],"new":[71],"methods":[72],"even":[73],"while":[74],"switching":[75],"We":[77],"report":[78],"application":[80],"FABLE":[82,129,149,159,178],"in":[83,116,126,139,143],"three":[84],"major":[85],"projects":[86],"and":[87,93,135,146],"present":[88],"detailed":[89],"comparisons":[90],"runtime":[95],"performances.":[96],"CONCLUSIONS:":[97],"Our":[98],"experience":[99],"suggests":[100],"that":[101,112],"77":[104],"codes":[105],"can":[106],"be":[107,180],"converted":[108],"an":[110],"effort":[111],"minor":[114],"(measured":[115],"days)":[117],"compared":[118],"original":[121],"(often":[124],"measured":[125],"years).":[127],"With":[128],"it":[130],"possible":[132],"reuse":[134],"evolve":[136],"legacy":[137],"work":[138],"environments,":[142],"portable":[145],"maintainable":[147],"way.":[148],"available":[151],"under":[152],"nonrestrictive":[154],"open":[155],"source":[156],"license.":[157],"analysis":[161],"sources":[165],"separated":[167],"from":[168],"generation":[170],"sources.":[174],"Therefore":[175],"parts":[176],"could":[179],"reused":[181],"for":[182],"other":[183],"target":[184]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":3}],"updated_date":"2026-05-04T08:30:34.212998","created_date":"2025-10-10T00:00:00"}
