{ "_id": "6ac0d7ae91601a2ad2999786", "Type": "Package", "Package": "closesamples", "Title": "Gets feasible taxon samples on a tree", "Version": "1.0", "Date": "2020-02-25", "Author": "Brian C. O'Meara", "Maintainer": "Brian C. O'Meara ", "Description": "Often you want to pick species at random, but don't have\naccess to all the possible species, and your group might be a\nnonrandom set. However, you might have a taxonomy, perhaps a\nbad one, for all the species. This will let you pick species at\nrandom on that full taxonomy and then pick a species out of the\npossible set closest to this. You could still have a biased\nsample, but way less biased.", "License": "GPL 3.0", "Encoding": "UTF-8", "RoxygenNote": "7.1.0", "Config/pak/sysreqs": "cmake libglpk-dev libicu-dev libxml2-dev libssl-dev", "Repository": "https://bomeara.r-universe.dev", "Date/Publication": "2021-11-08 16:01:32 UTC", "RemoteUrl": "https://github.com/bomeara/closesamples", "RemoteRef": "HEAD", "RemoteSha": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-03 10:20:23 UTC", "User": "root" }, "_user": "bomeara", "_type": "src", "_file": "closesamples_1.0.tar.gz", "_fileid": "https://r2.ropensci.org/7398acf9242a8729ca67560288486e0702df9c51247b53de4e75d5792d25470a", "_filesize": 105699, "_sha256": "7398acf9242a8729ca67560288486e0702df9c51247b53de4e75d5792d25470a", "_expires": "2027-01-11T10:23:40.000Z", "_created": "2026-10-03T10:20:23.000Z", "_published": "2026-10-03T10:23:42.105Z", "_jobs": [ { "job": 111183120176, "time": 129, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "11271646078" }, { "job": 111183120178, "time": 158, "config": "linux-release-x86_64", "r": "4.6.1", "check": "ERROR", "artifact": "11272120062" }, { "job": 111183120184, "time": 93, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "11271641091" }, { "job": 111183120245, "time": 107, "config": "macos-release-arm64", "r": "4.6.1", "check": "ERROR", "artifact": "11270539497" }, { "job": 111182625755, "time": 188, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "11270534374" }, { "job": 111183120134, "time": 126, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11271401850" }, { "job": 111183120170, "time": 74, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "11271965540" }, { "job": 111183120217, "time": 94, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "11271486432" }, { "job": 111183120157, "time": 81, "config": "windows-release-x86_64", "r": "4.6.1", "check": "ERROR", "artifact": "11270409714" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479", "_status": "success", "_upstream": "https://github.com/bomeara/closesamples", "_commit": { "id": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "author": "Brian O'Meara ", "committer": "Brian O'Meara ", "message": "requires Rfast2\n", "time": 1636387292 }, "_maintainer": { "name": "Brian C. OMeara", "email": "omeara.brian@gmail.com", "login": "bomeara", "mastodon": "@omearabrian@mastodon.social", "bluesky": "@omearabrian.bsky.social", "orcid": "0000-0002-0337-5997", "description": "", "uuid": 1612612 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "ape", "role": "Imports" }, { "package": "data.table", "role": "Imports" }, { "package": "phangorn", "role": "Imports" }, { "package": "taxize", "role": "Imports" }, { "package": "Rfast2", "role": "Imports" }, { "package": "anRpackage", "role": "Suggests" }, { "package": "testthat", "version": ">= 2.1.0", "role": "Suggests" } ], "_owner": "bomeara", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 0, "_contributors": [ { "user": "bomeara", "count": 16, "uuid": 1612612 } ], "_userbio": { "uuid": 1612612, "type": "user", "name": "Brian O'Meara", "followers": 112 }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/closesamples" }, "_devurl": "https://github.com/bomeara/closesamples", "_searchresults": 0, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/closesamples.html", "extra/contents.json", "extra/manual.pdf", "extra/readme.html", "extra/readme.md", "LICENSE" ], "_cranurl": false, "_exports": [ "GetClosestSamples", "GetEnclosingTaxonomy", "LabelNodesWithFeasibleDescendants", "SubsampleTree" ], "_datasets": [ { "name": "ORCID_TOKEN", "title": "", "object": "ORCID_TOKEN", "file": "ORCID_TOKEN.rda", "class": [ "character" ], "fields": [], "table": false, "tojson": true }, { "name": "r", "title": "", "object": "r", "file": "r.rda", "class": [ "character" ], "fields": [], "table": false, "tojson": true } ], "_help": [ { "page": "GetClosest", "title": "Get the closest taxon to the focal taxon", "topics": [ "GetClosest" ] }, { "page": "GetClosestSamples", "title": "Get n samples", "topics": [ "GetClosestSamples" ] }, { "page": "GetEnclosingTaxonomy", "title": "Get enclosing taxonomy for a feasible tree", "topics": [ "GetEnclosingTaxonomy" ] }, { "page": "GetSimilarity", "title": "Get similarity Uses ape's cophenetic.phylo to get patristic distances between pairs of taxa, then makes the diagonals Inf. If the tree has no branch lengths, makes every edge length 1.", "topics": [ "GetSimilarity" ] }, { "page": "LabelNodesWithChosenDescendants", "title": "Include descendant taxon ids in node labels", "topics": [ "LabelNodesWithChosenDescendants" ] }, { "page": "LabelNodesWithFeasibleDescendants", "title": "Include descendant taxon ids in node labels", "topics": [ "LabelNodesWithFeasibleDescendants" ] }, { "page": "SubsampleTree", "title": "Return a sampled tree", "topics": [ "SubsampleTree" ] } ], "_readme": "https://github.com/bomeara/closesamples/raw/HEAD/README.md", "_rundeps": [ "ape", "askpass", "BH", "cli", "cpp11", "crayon", "crul", "curl", "data.table", "digest", "dplyr", "fastmatch", "generics", "glue", "hms", "httpcode", "httr", "igraph", "jsonlite", "lattice", "lifecycle", "magrittr", "Matrix", "mime", "natserv", "nlme", "openssl", "phangorn", "pillar", "pkgconfig", "plyr", "prettyunits", "progress", "quadprog", "R6", "Rcpp", "RcppArmadillo", "RcppParallel", "rentrez", "Rfast", "Rfast2", "ritis", "rlang", "Rnanoflann", "rncl", "rotl", "rredlist", "solrium", "stringi", "sys", "taxize", "tibble", "tidyselect", "triebeard", "urltools", "utf8", "vctrs", "WikipediR", "wikitaxa", "withr", "worrms", "XML", "xml2", "zigg", "zoo" ], "_score": 1.6989700043360187, "_indexed": true, "_nocasepkg": "closesamples", "_universes": [ "bomeara" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.0", "date": "2026-10-03T10:22:35.000Z", "distro": "resolute", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/193df3969bdc5c66465ca92df4dd138c28f3edd210da1150dbe11206a7c716cb", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" }, { "r": "4.6.1", "os": "linux", "version": "1.0", "date": "2026-10-03T10:23:02.000Z", "distro": "resolute", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/e32e8d755fb18560b8b8abdcf9fbd6a805ec78cb4915fc655807c4646e6aad41", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" }, { "r": "4.5.3", "os": "mac", "version": "1.0", "date": "2026-10-03T10:22:05.000Z", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/16aba062ef8c1cbcee3a113a715a0bf3fb3724a97d5c238ec70982340a0fa16c", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" }, { "r": "4.6.1", "os": "mac", "version": "1.0", "date": "2026-10-03T10:22:15.000Z", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/46b802b91e1277d8e5438c9d063032ac4666a3e1bb1e786b274ee17a94a48d78", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" }, { "r": "4.6.0", "os": "wasm", "version": "1.0", "date": "2026-10-03T10:22:43.000Z", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/61e88e3791688f7f153d22f66968a88bc16b7bf49106d39cfc5afa714f74be45", "status": "success", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" }, { "r": "4.7.0", "os": "win", "version": "1.0", "date": "2026-10-03T10:21:39.000Z", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/021894ed66df76f65791eea972f9fb7a41a31245e94ff9fccb65159d88038afb", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" }, { "r": "4.5.3", "os": "win", "version": "1.0", "date": "2026-10-03T10:21:56.000Z", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/f027b8978e0aa21a323ca5beade75ec7a72a03a9c52a04ba7a570f2dfe1f8338", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" }, { "r": "4.6.1", "os": "win", "version": "1.0", "date": "2026-10-03T10:21:45.000Z", "commit": "1beb4a721edb00887d2fbcd05c7995bb35dc6c30", "fileid": "https://r2.ropensci.org/209828ae59ca6425d844054103332fa59067c4417339092629b582d1222e013e", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/bomeara/actions/runs/37115899479" } ] }