{
  "_id": "6a116f63acfb0bcc41cf5bdc",
  "Package": "readepi",
  "Title": "Read Data from Relational Database Management Systems and Health\nInformation Systems",
  "Version": "1.0.6",
  "Authors@R": "c(\nperson(\"Karim\", \"Mané\", , \"karim.mane@lshtm.ac.uk\", role = \"aut\",\ncomment = c(ORCID = \"0000-0002-9892-2999\")),\nperson(\"Emmanuel\", \"Kabuga\", , \"kabuga@aims.ac.za\", role = \"aut\",\ncomment = c(ORCID = \"0009-0006-2291-709X\")),\nperson(\"Bubacarr\", \"Bah\", , \"Bubacarr.Bah1@lshtm.ac.uk\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0003-3318-6668\")),\nperson(\"Bankolé\", \"Ahadzie\", , \"Bankole.Ahadzie@lshtm.ac.uk\", role = \"ctb\"),\nperson(\"Nuredin\", \"Mohammed\", , \"Nuredin.Mohammed@lshtm.ac.uk\", role = \"ctb\"),\nperson(\"Abdoelnaser\", \"Degoot\", , \"abdoelnaser-mahmood.degoot@lshtm.ac.uk\", role = \"ctb\"),\nperson(\"Hugo\", \"Gruson\", , \"hugo@data.org\", role = \"rev\",\ncomment = c(ORCID = \"0000-0002-4094-1476\")),\nperson(\"Pratik\", \"Gupte\", , \"pratik.gupte@lshtm.ac.uk\", role = \"rev\",\ncomment = c(ORCID = \"0000-0001-5294-7819\")),\nperson(\"Andree\", \"Valle-Campos\", , \"andree.valle-campos@lshtm.ac.uk\", role = \"rev\",\ncomment = c(ORCID = \"0000-0002-7779-481X\")),\nperson(\"London School of Hygiene and Tropical Medicine, LSHTM\", role = \"cph\"),\nperson(\"data.org\", role = \"fnd\")\n)",
  "Description": "Import Data from Relational Database Management Systems\n(RDBMS) and Health Information Systems ('HIS'). The current\nversion of the package supports importing data from RDBMS\nincluding 'MS SQL', 'MySQL', 'PostGRESQL', and 'SQLite', as\nwell as from two HIS platforms: 'DHIS2' and 'SORMAS'.",
  "License": "MIT + file LICENSE",
  "URL": "https://epiverse-trace.github.io/readepi/,\nhttps://github.com/epiverse-trace/readepi/,\nhttps://github.com/epiverse-trace/readepi",
  "BugReports": "https://github.com/epiverse-trace/readepi/issues",
  "VignetteBuilder": "knitr",
  "Config/Needs/website": "epiverse-trace/epiversetheme",
  "Config/testthat/edition": "3",
  "Encoding": "UTF-8",
  "LazyData": "true",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.3",
  "SystemRequirements": "odbc, libmariadbclient-dev",
  "Config/pak/sysreqs": "make libicu-dev libmysqlclient-dev unixodbc-dev\nlibssl-dev",
  "Repository": "https://epiverse-trace.r-universe.dev",
  "Date/Publication": "2026-04-23 11:01:23 UTC",
  "RemoteUrl": "https://github.com/epiverse-trace/readepi",
  "RemoteRef": "HEAD",
  "RemoteSha": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-23 09:06:58 UTC",
    "User": "root"
  },
  "Author": "Karim Mané [aut] (ORCID: <https://orcid.org/0000-0002-9892-2999>),\nEmmanuel Kabuga [aut] (ORCID: <https://orcid.org/0009-0006-2291-709X>),\nBubacarr Bah [aut, cre] (ORCID:\n<https://orcid.org/0000-0003-3318-6668>),\nBankolé Ahadzie [ctb],\nNuredin Mohammed [ctb],\nAbdoelnaser Degoot [ctb],\nHugo Gruson [rev] (ORCID: <https://orcid.org/0000-0002-4094-1476>),\nPratik Gupte [rev] (ORCID: <https://orcid.org/0000-0001-5294-7819>),\nAndree Valle-Campos [rev] (ORCID:\n<https://orcid.org/0000-0002-7779-481X>),\nLondon School of Hygiene and Tropical Medicine, LSHTM [cph],\ndata.org [fnd]",
  "Maintainer": "Bubacarr Bah <Bubacarr.Bah1@lshtm.ac.uk>",
  "MD5sum": "52993155c36e79981900ea5da2aa2e32",
  "_user": "epiverse-trace",
  "_type": "src",
  "_file": "readepi_1.0.6.tar.gz",
  "_fileid": "a4d1faaa0eab172ee59102c0ed00809a6bd06358cd8e3b7a37ccb5a012067f16",
  "_filesize": 340975,
  "_sha256": "a4d1faaa0eab172ee59102c0ed00809a6bd06358cd8e3b7a37ccb5a012067f16",
  "_created": "2026-05-23T09:06:58.000Z",
  "_published": "2026-05-23T09:12:03.489Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77511348988,
      "time": 136,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7175854252"
    },
    {
      "job": 77511348984,
      "time": 137,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7175854199"
    },
    {
      "job": 77511348978,
      "time": 120,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7175852910"
    },
    {
      "job": 77511348976,
      "time": 114,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7175852348"
    },
    {
      "job": 77511195256,
      "time": 190,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7175842675"
    },
    {
      "job": 77511348975,
      "time": 133,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7175853889"
    },
    {
      "job": 77511348992,
      "time": 193,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "7175858776"
    },
    {
      "job": 77511348989,
      "time": 201,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "7175859556"
    },
    {
      "job": 77511348974,
      "time": 266,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7175865463"
    }
  ],
  "_buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/epiverse-trace/readepi",
  "_commit": {
    "id": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
    "author": "Degoot-AM <degoot@aims.ac.za>",
    "committer": "Abdoelnaser M Degoot <degoot@aims.ac.za>",
    "message": "fix lintr issue\n",
    "time": 1776942083
  },
  "_maintainer": {
    "name": "Bubacarr Bah",
    "email": "bubacarr.bah1@lshtm.ac.uk",
    "login": "bbah74",
    "description": "2022 - now: Assoc Prof and Head of Data Science, MRC Unit The Gambia at LSHTM.\n\n2016 - 2022: German Research Chair of Mathematics in Data Science at AIMS",
    "uuid": 28865380,
    "orcid": "0000-0003-3318-6668"
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.1.0",
      "role": "Depends"
    },
    {
      "package": "checkmate",
      "role": "Imports"
    },
    {
      "package": "cli",
      "role": "Imports"
    },
    {
      "package": "DBI",
      "role": "Imports"
    },
    {
      "package": "dplyr",
      "role": "Imports"
    },
    {
      "package": "httr2",
      "role": "Imports"
    },
    {
      "package": "odbc",
      "role": "Imports"
    },
    {
      "package": "pool",
      "role": "Imports"
    },
    {
      "package": "purrr",
      "role": "Imports"
    },
    {
      "package": "RMySQL",
      "role": "Imports"
    },
    {
      "package": "RSQLite",
      "role": "Imports"
    },
    {
      "package": "tidyr",
      "role": "Imports"
    },
    {
      "package": "cyclocomp",
      "role": "Suggests"
    },
    {
      "package": "DiagrammeR",
      "role": "Suggests"
    },
    {
      "package": "httptest",
      "role": "Suggests"
    },
    {
      "package": "kableExtra",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    }
  ],
  "_owner": "epiverse-trace",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-38",
      "n": 72
    },
    {
      "week": "2025-41",
      "n": 14
    },
    {
      "week": "2025-43",
      "n": 2
    },
    {
      "week": "2025-44",
      "n": 20
    },
    {
      "week": "2026-04",
      "n": 1
    },
    {
      "week": "2026-05",
      "n": 1
    },
    {
      "week": "2026-16",
      "n": 12
    },
    {
      "week": "2026-17",
      "n": 22
    }
  ],
  "_tags": [
    {
      "name": "v1.0.1",
      "date": "2025-09-24"
    },
    {
      "name": "v1.0.2",
      "date": "2025-10-27"
    },
    {
      "name": "v1.0.3",
      "date": "2025-10-29"
    }
  ],
  "_topics": [
    "data-import",
    "epidemiology",
    "epiverse",
    "health-information-systems"
  ],
  "_stars": 6,
  "_contributors": [
    {
      "user": "karim-mane",
      "count": 224,
      "uuid": 84502011
    },
    {
      "user": "degoot-am",
      "count": 48,
      "uuid": 19929487
    },
    {
      "user": "thibautjombart",
      "count": 20,
      "uuid": 10757154
    },
    {
      "user": "bisaloo",
      "count": 19,
      "uuid": 10783929
    },
    {
      "user": "bahadzie",
      "count": 2,
      "uuid": 41001537
    },
    {
      "user": "kabuga1987",
      "count": 2,
      "uuid": 33763198
    }
  ],
  "_userbio": {
    "uuid": 101338582,
    "type": "organization",
    "name": "Epiverse-TRACE"
  },
  "_downloads": {
    "count": 8271,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/readepi"
  },
  "_devurl": "https://github.com/epiverse-trace/readepi",
  "_pkgdown": "https://epiverse-trace.github.io/readepi/",
  "_searchresults": 11,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readepi.html",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/epiverse-trace/readepi",
  "_realowner": "epiverse-trace",
  "_cranurl": true,
  "_releases": [
    {
      "version": "1.0.1",
      "date": "2025-10-03"
    },
    {
      "version": "1.0.2",
      "date": "2025-10-27"
    },
    {
      "version": "1.0.3",
      "date": "2025-10-29"
    },
    {
      "version": "1.0.4",
      "date": "2026-01-29"
    },
    {
      "version": "1.0.5",
      "date": "2026-04-22"
    },
    {
      "version": "1.0.6",
      "date": "2026-04-23"
    }
  ],
  "_exports": [
    "dhis2_login",
    "get_api_version",
    "get_data_elements",
    "get_organisation_units",
    "get_program_org_units",
    "get_program_stages",
    "get_programs",
    "get_tracked_entities",
    "login",
    "read_dhis2",
    "read_rdbms",
    "read_sormas",
    "show_tables",
    "sormas_get_api_specification",
    "sormas_get_data_dictionary",
    "sormas_get_diseases"
  ],
  "_datasets": [
    {
      "name": "lookup_table",
      "title": "Lookup table",
      "object": "lookup_table",
      "class": [
        "data.frame"
      ],
      "fields": [
        "r",
        "dhis2",
        "sql"
      ],
      "rows": 11,
      "table": true,
      "tojson": true
    },
    {
      "name": "request_parameters",
      "title": "Request parameters",
      "object": "request_parameters",
      "class": [
        "data.frame"
      ],
      "fields": [
        "version",
        "e_endpoint",
        "e_orgunit",
        "e_teid",
        "e_oumode",
        "e_response",
        "te_endpoint",
        "te_orgunit",
        "te_teid",
        "te_oumode",
        "te_response",
        "paging"
      ],
      "rows": 3,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "dhis2_login",
      "title": "Establish connection to a DHIS2 instance",
      "topics": [
        "dhis2_login"
      ]
    },
    {
      "page": "get_api_version",
      "title": "Get DHIS2 API version",
      "topics": [
        "get_api_version"
      ]
    },
    {
      "page": "get_data_elements",
      "title": "Get all data elements from a specific DHIS2 instance",
      "topics": [
        "get_data_elements"
      ]
    },
    {
      "page": "get_organisation_units",
      "title": "Get the organization units from a specific DHIS2 instance",
      "topics": [
        "get_organisation_units"
      ]
    },
    {
      "page": "get_program_org_units",
      "title": "Get organisation units that are associated with a given program",
      "topics": [
        "get_program_org_units"
      ]
    },
    {
      "page": "get_program_stages",
      "title": "Get program stages for one or more DHSI2 programs",
      "topics": [
        "get_program_stages"
      ]
    },
    {
      "page": "get_programs",
      "title": "get all programs from a given specific DHIS2 instance",
      "topics": [
        "get_programs"
      ]
    },
    {
      "page": "get_tracked_entities",
      "title": "Get tracked entity attributes, their corresponding IDs and event IDs",
      "topics": [
        "get_tracked_entities"
      ]
    },
    {
      "page": "login",
      "title": "Establish a connection to the HIS of interest.",
      "topics": [
        "login"
      ]
    },
    {
      "page": "lookup_table",
      "title": "Lookup table",
      "topics": [
        "lookup_table"
      ]
    },
    {
      "page": "read_dhis2",
      "title": "Import data from DHIS2",
      "topics": [
        "read_dhis2"
      ]
    },
    {
      "page": "read_rdbms",
      "title": "Import data from relational database management systems (RDBMS).",
      "topics": [
        "read_rdbms"
      ]
    },
    {
      "page": "read_sormas",
      "title": "Import data from SORMAS",
      "topics": [
        "read_sormas"
      ]
    },
    {
      "page": "request_parameters",
      "title": "Request parameters",
      "topics": [
        "request_parameters"
      ]
    },
    {
      "page": "show_tables",
      "title": "Display the list of tables in a database",
      "topics": [
        "show_tables"
      ]
    },
    {
      "page": "sormas_get_api_specification",
      "title": "Download the API specification file from SORMAS",
      "topics": [
        "sormas_get_api_specification"
      ]
    },
    {
      "page": "sormas_get_data_dictionary",
      "title": "Download SORMAS data dictionary",
      "topics": [
        "sormas_get_data_dictionary"
      ]
    },
    {
      "page": "sormas_get_diseases",
      "title": "Get the list of disease names from a SORMAS instance",
      "topics": [
        "sormas_get_diseases"
      ]
    }
  ],
  "_pkglogo": "https://github.com/epiverse-trace/readepi/raw/HEAD/man/figures/logo.svg",
  "_readme": "https://github.com/epiverse-trace/readepi/raw/HEAD/README.md",
  "_rundeps": [
    "askpass",
    "backports",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "checkmate",
    "cli",
    "cpp11",
    "curl",
    "DBI",
    "dplyr",
    "fastmap",
    "generics",
    "glue",
    "hms",
    "httr2",
    "later",
    "lifecycle",
    "magrittr",
    "memoise",
    "odbc",
    "openssl",
    "pillar",
    "pkgconfig",
    "pool",
    "purrr",
    "R6",
    "rappdirs",
    "Rcpp",
    "rlang",
    "RMySQL",
    "RSQLite",
    "stringi",
    "stringr",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "install_drivers.Rmd",
      "filename": "install_drivers.html",
      "title": "Installing drivers",
      "engine": "knitr::rmarkdown",
      "headings": [
        "MS SQL drivers for OSX-based systems",
        "MS SQL drivers for Linux-based systems"
      ],
      "created": "2025-09-19 09:44:53",
      "modified": "2026-01-23 08:55:52",
      "commits": 7
    },
    {
      "source": "design_principle.Rmd",
      "filename": "design_principle.html",
      "title": "Package design vignette for {readepi}",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Concept and motivation",
        "Scope",
        "Output",
        "Design decisions",
        "Authentication",
        "Data import",
        "Dependencies",
        "Contribute"
      ],
      "created": "2024-06-10 12:08:23",
      "modified": "2026-04-21 10:18:09",
      "commits": 34
    },
    {
      "source": "query_parameters.Rmd",
      "filename": "query_parameters.html",
      "title": "Query parameters",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "RDBMS query parameters",
        "Examples",
        "DHIS2 query parameters",
        "SORMAS query parameters"
      ],
      "created": "2025-09-19 09:44:53",
      "modified": "2026-04-23 11:01:23",
      "commits": 13
    },
    {
      "source": "readepi.Rmd",
      "filename": "readepi.html",
      "title": "readepi: Reading data from health information systems",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Overview",
        "Need for MS drivers",
        "Authentication",
        "Reading data from RDBMS",
        "Reading data from HIS",
        "Importing data from DHIS2",
        "Importing data from SORMAS"
      ],
      "created": "2023-05-09 22:51:25",
      "modified": "2026-04-23 11:01:23",
      "commits": 55
    }
  ],
  "_score": 7.640191943359248,
  "_indexed": true,
  "_nocasepkg": "readepi",
  "_universes": [
    "epiverse-trace",
    "bbah74"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.0.6",
      "date": "2026-05-23T09:09:18.000Z",
      "distro": "noble",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "6aa8e8af60b2b7c196fa29d6ac424a34735a1e9bd58365e8d08a0c08b594e9ea",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "1.0.6",
      "date": "2026-05-23T09:09:21.000Z",
      "distro": "noble",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "7c7a857c9c701c0c29eb27632051f800acf04f5bb4330d2cb8593d72a1d95b5b",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.0.6",
      "date": "2026-05-23T09:09:07.000Z",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "da8b17f21e007b9db8edfe828575e33ef54b168642cfdc3b62c667ba8bc8768f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "1.0.6",
      "date": "2026-05-23T09:08:59.000Z",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "03e5eaee0a6730e2dcb9e5a3a2727605075d1f625c6ade7d8e5ad3f957c3a743",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.0.6",
      "date": "2026-05-23T09:09:28.000Z",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "c816eb865f76d08e6d1f521fe350f7ef14806451f2d3e69e9a0691f41ea0852f",
      "status": "success",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.0.6",
      "date": "2026-05-23T09:10:14.000Z",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "3d8a8430204ce808e57ac5b0b79369eb1518ac1553b6b37c7ac3adff38efa7e3",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.0.6",
      "date": "2026-05-23T09:10:20.000Z",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "496c86b7d2d30f5ab44e5dc17b648c1441c8aadc9444ed7c5fbff62ece84140d",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "1.0.6",
      "date": "2026-05-23T09:11:27.000Z",
      "commit": "13ac0da0e7584b62e5911d2f3a1abf68e56cff95",
      "fileid": "795a2709d3b6118c6c9e18a149b0e091992b063d19c706c9889649c20049c6c5",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/epiverse-trace/actions/runs/26328799511"
    }
  ]
}