{ "_id": "6aed7e639ceaa78f200a1488", "Package": "taxastand", "Title": "Taxonomic Name Standardization", "Version": "2.0.0.9000", "Authors@R": "person(given = \"Joel\",\nfamily = \"Nitta\",\nrole = c(\"aut\", \"cre\", \"cph\"),\nemail = \"joelnitta@gmail.com\",\ncomment = c(ORCID = \"0000-0003-4719-7472\"))", "Description": "Standardizes taxonomic names by matching species names to\nentries in a user-supplied reference taxonomy, then resolving\nsynonyms to their accepted names. Fuzzy matching on parsed name\ncomponents (genus, epithet, author, infraspecific rank, etc.)\nallows for orthographic differences between the query and\nreference names. This facilitates reproducible joining of\ndatasets that use different taxonomic synonyms for the same\nspecies.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "LazyData": "true", "URL": "https://joelnitta.github.io/taxastand/,\nhttps://github.com/joelnitta/taxastand", "BugReports": "https://github.com/joelnitta/taxastand/issues", "Roxygen": "list( markdown = TRUE, roclets = c(\"collate\", \"namespace\",\n\"rd\", \"roxyglobals::global_roclet\"))", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "Config/roxygen2/version": "8.0.0", "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev", "Repository": "https://joelnitta.r-universe.dev", "Date/Publication": "2026-11-06 06:52:34 UTC", "RemoteUrl": "https://github.com/joelnitta/taxastand", "RemoteRef": "HEAD", "RemoteSha": "42d47486ddbdbd76e11133cb79e0f8605483d368", "NeedsCompilation": "no", "Packaged": { "Date": "2026-11-06 07:11:59 UTC", "User": "root" }, "Author": "Joel Nitta [aut, cre, cph] (ORCID:\n)", "Maintainer": "Joel Nitta ", "_user": "joelnitta", "_type": "src", "_file": "taxastand_2.0.0.9000.tar.gz", "_fileid": "https://r2.ropensci.org/33ce6e49377e0dcf4119bbe55321cf18fcb874173abd55b18e0772068c1b4acd", "_filesize": 327557, "_sha256": "33ce6e49377e0dcf4119bbe55321cf18fcb874173abd55b18e0772068c1b4acd", "_expires": "2027-02-14T07:14:41.000Z", "_created": "2026-11-06T07:11:59.000Z", "_published": "2026-11-06T07:14:43.321Z", "_upstream": "https://github.com/joelnitta/taxastand", "_status": "success", "_maintainer": { "name": "Joel Nitta", "email": "joelnitta@gmail.com", "login": "joelnitta", "mastodon": "@joelnitta@fosstodon.org", "bluesky": "@joelnitta.com", "orcid": "0000-0003-4719-7472", "description": "Associate Professor at Chiba University, Japan", "uuid": 13459362 }, "_jobs": [ { "job": 127765002133, "time": 131, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "13485150874" }, { "job": 127765002147, "time": 117, "config": "linux-release-x86_64", "r": "4.6.2", "check": "OK", "artifact": "13484492500" }, { "job": 127765002134, "time": 115, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "13484587337" }, { "job": 127765002222, "time": 101, "config": "macos-release-arm64", "r": "4.6.2", "check": "OK", "artifact": "13484034282" }, { "job": 127763956309, "time": 178, "config": "source", "r": "4.6.2", "check": "OK", "artifact": "13485125565" }, { "job": 127765002219, "time": 95, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "13484452572" }, { "job": 127765002185, "time": 73, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "13484418435" }, { "job": 127765002128, "time": 65, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "13485026120" }, { "job": 127765002221, "time": 76, "config": "windows-release-x86_64", "r": "4.6.2", "check": "OK", "artifact": "13484382616" } ], "_buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392", "_commit": { "id": "42d47486ddbdbd76e11133cb79e0f8605483d368", "author": "joelnitta ", "committer": "Joel Nitta ", "message": "CI: avoid slow Azure apt mirror on Ubuntu runners; add job timeouts\n\nReplaces the earlier ubuntu-24.04 pin: the stalls are not specific to\nUbuntu 26.04 but caused by azure.archive.ubuntu.com serving archives at\n~50 kB/s from some regions (actions/runner-images#14823, #15142). apt's\ntimeout never fires on a slow-but-alive mirror, so it never fails over.\n\n- Linux-only step before setup-r drops the Azure line from\n /etc/apt/apt-mirrors.txt (only if another mirror remains) so apt uses\n archive.ubuntu.com; prints the file before/after\n- timeout-minutes on each job so a stall fails fast\n- back to ubuntu-latest\n\nCo-Authored-By: Claude Sonnet 5.5 \n", "time": 1793947954 }, "_distro": "resolute", "_host": "GitHub-Actions", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.1.0", "role": "Depends" }, { "package": "assertthat", "role": "Imports" }, { "package": "digest", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "fs", "role": "Imports" }, { "package": "glue", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "tibble", "role": "Imports" }, { "package": "tidyr", "role": "Imports" }, { "package": "covr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "roxyglobals", "version": ">= 1.0.0", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" } ], "_owner": "joelnitta", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-29", "n": 16 }, { "week": "2026-30", "n": 22 }, { "week": "2026-45", "n": 12 } ], "_tags": [ { "name": "v2.0.0", "date": "2026-07-18" } ], "_topics": [ "database", "taxonomy" ], "_stars": 24, "_contributors": [ { "user": "joelnitta", "count": 212, "uuid": 13459362 }, { "user": "copilot", "count": 1, "uuid": 198982749 } ], "_userbio": { "uuid": 13459362, "type": "user", "name": "Joel Nitta", "followers": 102, "description": "Associate Professor at Chiba University, Japan" }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/taxastand" }, "_devurl": "https://github.com/joelnitta/taxastand", "_pkgdown": "https://joelnitta.github.io/taxastand/", "_searchresults": 17, "_rbuild": "4.6.2", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/manual.pdf", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "extra/taxastand.html", "LICENSE" ], "_cranurl": false, "_exports": [ "%>%", "ts_match_names", "ts_parse_names", "ts_resolve_names" ], "_datasets": [ { "name": "filmy_taxonomy", "title": "Taxonomy of filmy ferns (family Hymenophyllaceae)", "object": "filmy_taxonomy", "class": [ "spec_tbl_df", "tbl_df", "tbl", "data.frame" ], "fields": [ "taxonID", "identifier", "datasetID", "datasetName", "acceptedNameUsageID", "parentNameUsageID", "taxonomicStatus", "taxonRank", "verbatimTaxonRank", "scientificName", "kingdom", "phylum", "class", "order", "superfamily", "family", "genericName", "genus", "subgenus", "specificEpithet", "infraspecificEpithet", "scientificNameAuthorship", "source", "namePublishedIn", "nameAccordingTo", "modified", "description", "taxonConceptID", "scientificNameID", "references", "isExtinct" ], "rows": 2729, "table": true, "tojson": true } ], "_help": [ { "page": "filmy_taxonomy", "title": "Taxonomy of filmy ferns (family Hymenophyllaceae)", "topics": [ "filmy_taxonomy" ] }, { "page": "ts_match_names", "title": "Match taxonomic names to a reference", "topics": [ "ts_match_names" ] }, { "page": "ts_parse_names", "title": "Parse taxonomic names", "topics": [ "ts_parse_names" ] }, { "page": "ts_resolve_names", "title": "Resolve synonyms in taxonomic names", "topics": [ "ts_resolve_names" ] } ], "_pkglogo": "https://github.com/joelnitta/taxastand/raw/HEAD/man/figures/logo.png", "_readme": "https://github.com/joelnitta/taxastand/raw/HEAD/README.md", "_rundeps": [ "assertthat", "cli", "cpp11", "digest", "dplyr", "fs", "generics", "glue", "lifecycle", "magrittr", "pillar", "pkgconfig", "purrr", "R6", "rlang", "stringi", "stringr", "tibble", "tidyr", "tidyselect", "utf8", "vctrs", "withr" ], "_vignettes": [ { "source": "basics.Rmd", "filename": "basics.html", "title": "The basics", "engine": "knitr::rmarkdown", "headings": [ "Setup", "Name parsing", "Name matching", "Name resolution" ], "created": "2021-10-15 04:03:03", "modified": "2026-11-06 02:45:16", "commits": 7 } ], "_score": 4.786751422145561, "_indexed": true, "_nocasepkg": "taxastand", "_universes": [ "joelnitta" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "2.0.0.9000", "date": "2026-11-06T07:14:09.000Z", "distro": "resolute", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/1b4862a1f61f945aa2366a325df5ee16417709888f2625208f93d2ab38c369ac", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" }, { "r": "4.6.2", "os": "linux", "version": "2.0.0.9000", "date": "2026-11-06T07:13:57.000Z", "distro": "resolute", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/11b6340122cc455ec6bd91f0af85ce650b73f4c0a8133332b9f39cd1096cb097", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" }, { "r": "4.5.3", "os": "mac", "version": "2.0.0.9000", "date": "2026-11-06T07:13:54.000Z", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/08e3d61dced781ae421d1028eb39c24a29f52154d7dcb35ba7b143c0e33ea597", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" }, { "r": "4.6.2", "os": "mac", "version": "2.0.0.9000", "date": "2026-11-06T07:13:39.000Z", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/c31ab83bf8927a750944dd45e3ed8576e1d479ef500ae90e3f0eb562d7dccfa1", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" }, { "r": "4.6.0", "os": "wasm", "version": "2.0.0.9000", "date": "2026-11-06T07:13:49.000Z", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/cc1ca89c19aa0a069dfafbf515a161b11f9c110ef6380ef3278ec100033e4141", "status": "success", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" }, { "r": "4.7.0", "os": "win", "version": "2.0.0.9000", "date": "2026-11-06T07:13:08.000Z", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/33f48a59548043f37e91fc90544b2ce99218f4c55c261575b2b33ff4b3e18478", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" }, { "r": "4.5.3", "os": "win", "version": "2.0.0.9000", "date": "2026-11-06T07:12:59.000Z", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/8b33ddbb895c6d007f842d355cb73620f6a59a9be0cdb5e927ed51cd68ec1511", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" }, { "r": "4.6.2", "os": "win", "version": "2.0.0.9000", "date": "2026-11-06T07:13:09.000Z", "commit": "42d47486ddbdbd76e11133cb79e0f8605483d368", "fileid": "https://r2.ropensci.org/529dc1c619bbcf9d8bfe0584bdbad659ffb40f353f30bfe654ebb88a2c22fad9", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/joelnitta/actions/runs/42178954392" } ] }