{"id":"https://openalex.org/W4400798790","doi":"https://doi.org/10.1145/3626203.3670569","title":"HPC Journey in a Resource Constrained Environment: A case of The African Center of Excellence in Bioinformatics and Data Intensive Science, Uganda.","display_name":"HPC Journey in a Resource Constrained Environment: A case of The African Center of Excellence in Bioinformatics and Data Intensive Science, Uganda.","publication_year":2024,"publication_date":"2024-07-17","ids":{"openalex":"https://openalex.org/W4400798790","doi":"https://doi.org/10.1145/3626203.3670569"},"language":"en","primary_location":{"id":"doi:10.1145/3626203.3670569","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3626203.3670569","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Practice and Experience in Advanced Research Computing 2024: Human Powered Computing","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/A5052724152","display_name":"Rodgers Kimera","orcid":"https://orcid.org/0009-0000-6264-9233"},"institutions":[{"id":"https://openalex.org/I4210110573","display_name":"Victoria University","ror":"https://ror.org/01rrz9s51","country_code":"UG","type":"education","lineage":["https://openalex.org/I4210110573"]}],"countries":["UG"],"is_corresponding":true,"raw_author_name":"Rodgers Kimera","raw_affiliation_strings":["Africa Center of Excellence in Bioinformatics - Uganda, Research Data and Communication Technologies, Uganda and \rFaculty of Science and Technology, Victoria University, Uganda"],"affiliations":[{"raw_affiliation_string":"Africa Center of Excellence in Bioinformatics - Uganda, Research Data and Communication Technologies, Uganda and \rFaculty of Science and Technology, Victoria University, Uganda","institution_ids":["https://openalex.org/I4210110573"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065043624","display_name":"Christopher Whalen","orcid":"https://orcid.org/0000-0002-1379-7392"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Christopher J Whalen","raw_affiliation_strings":["Research Data and Communication Technologies, USA"],"affiliations":[{"raw_affiliation_string":"Research Data and Communication Technologies, USA","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5104903909","display_name":"Matthew X. Economou","orcid":"https://orcid.org/0000-0003-1418-0789"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Matthew X. Economou","raw_affiliation_strings":["Research Data and Communication Technologies, USA"],"affiliations":[{"raw_affiliation_string":"Research Data and Communication Technologies, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5052724152"],"corresponding_institution_ids":["https://openalex.org/I4210110573"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.10492665,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9988999962806702,"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"}},"topics":[{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9988999962806702,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9293000102043152,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11642","display_name":"Genomics and Rare Diseases","score":0.9114000201225281,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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"}}],"keywords":[{"id":"https://openalex.org/keywords/excellence","display_name":"Excellence","score":0.7578099370002747},{"id":"https://openalex.org/keywords/center-of-excellence","display_name":"Center of excellence","score":0.6937742829322815},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5839067697525024},{"id":"https://openalex.org/keywords/center","display_name":"Center (category theory)","score":0.5584610104560852},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.48398590087890625},{"id":"https://openalex.org/keywords/data-center","display_name":"Data center","score":0.4835521876811981},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.40406301617622375},{"id":"https://openalex.org/keywords/knowledge-management","display_name":"Knowledge management","score":0.3700762093067169},{"id":"https://openalex.org/keywords/engineering-management","display_name":"Engineering management","score":0.3327835202217102},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.25701552629470825},{"id":"https://openalex.org/keywords/political-science","display_name":"Political science","score":0.20304113626480103},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.1616077721118927},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.15571290254592896},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.07722881436347961}],"concepts":[{"id":"https://openalex.org/C2777352838","wikidata":"https://www.wikidata.org/wiki/Q5419420","display_name":"Excellence","level":2,"score":0.7578099370002747},{"id":"https://openalex.org/C2778760837","wikidata":"https://www.wikidata.org/wiki/Q5059994","display_name":"Center of excellence","level":2,"score":0.6937742829322815},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5839067697525024},{"id":"https://openalex.org/C2779463800","wikidata":"https://www.wikidata.org/wiki/Q5062222","display_name":"Center (category theory)","level":2,"score":0.5584610104560852},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.48398590087890625},{"id":"https://openalex.org/C153740404","wikidata":"https://www.wikidata.org/wiki/Q671224","display_name":"Data center","level":2,"score":0.4835521876811981},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.40406301617622375},{"id":"https://openalex.org/C56739046","wikidata":"https://www.wikidata.org/wiki/Q192060","display_name":"Knowledge management","level":1,"score":0.3700762093067169},{"id":"https://openalex.org/C110354214","wikidata":"https://www.wikidata.org/wiki/Q6314146","display_name":"Engineering management","level":1,"score":0.3327835202217102},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.25701552629470825},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.20304113626480103},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.1616077721118927},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.15571290254592896},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.07722881436347961},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C8010536","wikidata":"https://www.wikidata.org/wiki/Q160398","display_name":"Crystallography","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3626203.3670569","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3626203.3670569","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Practice and Experience in Advanced Research Computing 2024: Human Powered Computing","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":3,"referenced_works":["https://openalex.org/W2766624620","https://openalex.org/W2966467067","https://openalex.org/W3046678254"],"related_works":["https://openalex.org/W2534875993","https://openalex.org/W2379482911","https://openalex.org/W2398346994","https://openalex.org/W446440592","https://openalex.org/W2645858920","https://openalex.org/W2772423602","https://openalex.org/W2800238128","https://openalex.org/W4245039756","https://openalex.org/W3008642426","https://openalex.org/W2913990911"],"abstract_inverted_index":{"Bioinformatics":[0,132],"and":[1,4,23,29,33,48,55,61,94,114,117,133],"scientific":[2],"research":[3],"analyses":[5,83],"requires":[6],"high":[7,66],"computation":[8],"power.":[9],"To":[10],"be":[11],"able":[12],"to":[13,20],"perform":[14],"computationally":[15],"heavy":[16],"tasks":[17],"we":[18,108],"need":[19],"exploit":[21],"parallel-computing":[22],"cluster-computing":[24],"systems,":[25],"deploying":[26,121],"processors,":[27],"distributed":[28],"shared":[30],"memory":[31],"framework,":[32],"multiple":[34],"disks.":[35],"Another":[36],"requirement":[37],"for":[38],"bioinformatics":[39],"is":[40,103],"storage.":[41],"Large":[42],"data":[43,86],"sets":[44,87],"have":[45],"been":[46],"generated":[47],"collected":[49],"over":[50],"the":[51,110,126],"years":[52],"from":[53],"Africa":[54],"European":[56],"genetics":[57],"in":[58,98,131],"plants,":[59],"animals,":[60],"humans.":[62],"Such":[63],"datasets":[64],"demand":[65],"storage":[67],"space":[68],"which":[69],"ordinary":[70],"desktop":[71],"computers":[72],"cannot":[73],"support.":[74],"High":[75],"Performance":[76],"Computing":[77],"(HPC)":[78],"utilizing":[79],"cluster":[80],"computing":[81],"renders":[82],"on":[84],"large":[85],"tractable.":[88],"However,":[89],"setting":[90],"up,":[91],"configuring,":[92],"maintaining,":[93],"operating":[95],"HPC":[96,123],"infrastructure":[97],"Resource":[99],"Constrained":[100],"Environments":[101],"(RCE)":[102],"still":[104],"a":[105],"challenge.":[106],"Here":[107],"summarize":[109],"configurations,":[111],"opportunities,":[112],"usage":[113],"results,":[115],"challenges":[116],"lessons":[118],"learnt":[119],"while":[120],"an":[122],"Cluster":[124],"at":[125],"African":[127],"Center":[128],"of":[129],"Excellence":[130],"Data":[134],"Intensive":[135],"Science,":[136],"Uganda.":[137]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
