{ "_id": "6ab0dd893d719c1f84083e34", "Package": "treebase", "Type": "Package", "Title": "Discovery, Access and Manipulation of 'TreeBASE' Phylogenies", "Version": "0.1.5", "Authors@R": "c(person(\"Carl\", \"Boettiger\", role = c(\"aut\", \"cre\"),\nemail = \"cboettig@gmail.com\"),\nperson(\"Duncan\", \"Temple Lang\", role = \"aut\"))", "Description": "Interface to the API for 'TreeBASE' \nfrom 'R.' 'TreeBASE' is a repository of user-submitted\nphylogenetic trees (of species, population, or genes) and the\ndata used to create them.", "License": "CC0", "Encoding": "UTF-8", "URL": "https://docs.ropensci.org/treebase/,\nhttps://github.com/ropensci/treebase", "BugReports": "https://github.com/ropensci/treebase/issues", "RoxygenNote": "7.3.1", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "make libxml2-dev libssl-dev", "Repository": "https://phylotastic.r-universe.dev", "Date/Publication": "2024-02-16 05:35:56 UTC", "RemoteUrl": "https://github.com/ropensci/treebase", "RemoteRef": "HEAD", "RemoteSha": "5954c072bb9b2168a3d6554316a5d7f28d087584", "NeedsCompilation": "no", "Packaged": { "Date": "2026-09-21 07:29:07 UTC", "User": "root" }, "Author": "Carl Boettiger [aut, cre],\nDuncan Temple Lang [aut]", "Maintainer": "Carl Boettiger ", "_user": "phylotastic", "_type": "src", "_file": "treebase_0.1.5.tar.gz", "_fileid": "https://r2.ropensci.org/662b5ddc2e5b2a0d429d9961ca73db6ab34a7d80fab271968aaf9ffda2b86392", "_filesize": 4318036, "_sha256": "662b5ddc2e5b2a0d429d9961ca73db6ab34a7d80fab271968aaf9ffda2b86392", "_expires": "2026-12-30T07:32:22.000Z", "_created": "2026-09-21T07:29:07.000Z", "_published": "2026-09-21T07:32:25.001Z", "_jobs": [ { "job": 106249101634, "time": 153, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "10626837008" }, { "job": 106249101616, "time": 135, "config": "linux-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "10627346212" }, { "job": 106249101632, "time": 98, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "10626772363" }, { "job": 106249101680, "time": 109, "config": "macos-release-arm64", "r": "4.6.1", "check": "OK", "artifact": "10626917255" }, { "job": 106248445979, "time": 159, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "10627300871" }, { "job": 106249101581, "time": 108, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "10627440769" }, { "job": 106249101618, "time": 85, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "10627380946" }, { "job": 106249101665, "time": 73, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "OK", "artifact": "10626981847" }, { "job": 106249101622, "time": 84, "config": "windows-release-x86_64", "r": "4.6.1", "check": "OK", "artifact": "10627495443" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708", "_status": "success", "_upstream": "https://github.com/ropensci/treebase", "_commit": { "id": "5954c072bb9b2168a3d6554316a5d7f28d087584", "author": "Carl ", "committer": "Carl ", "message": "fix urls\n", "time": 1708061756 }, "_maintainer": { "name": "Carl Boettiger", "email": "cboettig@gmail.com", "login": "cboettig", "mastodon": "@cboettig@ecoevo.social", "bluesky": "@cboettig.bsky.social", "description": "", "uuid": 222586 }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.15", "role": "Depends" }, { "package": "ape", "role": "Depends" }, { "package": "XML", "role": "Imports" }, { "package": "RCurl", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "httr", "role": "Imports" }, { "package": "testthat", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "ropensci", "_selfowned": false, "_usedby": 1, "_updates": [], "_tags": [], "_stars": 10, "_contributors": [ { "user": "cboettig", "count": 214, "uuid": 222586 }, { "user": "sckott", "count": 12, "uuid": 577668 }, { "user": "duncantl", "count": 1, "uuid": 622617 } ], "_userbio": { "uuid": 1652822, "type": "organization", "name": "phylotastic", "followers": 5 }, "_downloads": { "count": 602, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/treebase" }, "_mentions": 3, "_devurl": "https://github.com/ropensci/treebase", "_pkgdown": "https://docs.ropensci.org/treebase/", "_searchresults": 56, "_rbuild": "4.6.1", "_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/treebase.html" ], "_homeurl": "https://github.com/ropensci/treebase", "_realowner": "ropensci", "_cranurl": true, "_releases": [ { "version": "0.0-3", "date": "2011-10-25" }, { "version": "0.0-4", "date": "2011-11-15" }, { "version": "0.0-5", "date": "2012-03-03" }, { "version": "0.0-6", "date": "2012-06-27" }, { "version": "0.0-7.1", "date": "2014-02-21" }, { "version": "0.1.0", "date": "2015-06-15" }, { "version": "0.1.1", "date": "2015-06-16" }, { "version": "0.1.2", "date": "2015-10-14" }, { "version": "0.1.3", "date": "2016-09-05" }, { "version": "0.1.4", "date": "2017-02-06" }, { "version": "0.1.5", "date": "2024-02-16" } ], "_exports": [ "cache_treebase", "download_metadata", "drop_nontrees", "dryad_metadata", "have_branchlength", "metadata", "search_treebase" ], "_datasets": [ { "name": "metadata", "title": "metadata.rda", "object": "metadata", "file": "metadata.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": true }, { "name": "treebase", "title": "treebase.rda", "object": "treebase", "file": "treebase.rda", "class": [ "list" ], "fields": [], "table": false, "tojson": false } ], "_help": [ { "page": "cache_treebase", "title": "A function to cache the phylogenies in treebase locally", "topics": [ "cache_treebase" ] }, { "page": "download_metadata", "title": "Download the metadata on treebase using the OAI-MPH interface", "topics": [ "download_metadata" ] }, { "page": "drop_nontrees", "title": "drop errors from the search", "topics": [ "drop_nontrees" ] }, { "page": "dryad_metadata", "title": "Search the dryad metadata archive", "topics": [ "dryad_metadata" ] }, { "page": "have_branchlength", "title": "Simple function to identify which trees have branch lengths", "topics": [ "have_branchlength" ] }, { "page": "metadata", "title": "metadata.rda", "topics": [ "metadata" ] }, { "page": "search_treebase", "title": "A function to pull in the phyologeny/phylogenies matching a search query", "topics": [ "search_treebase" ] }, { "page": "treebase", "title": "treebase.rda", "topics": [ "treebase" ] } ], "_readme": "https://github.com/ropensci/treebase/raw/HEAD/README.md", "_rundeps": [ "ape", "askpass", "bitops", "curl", "digest", "httr", "jsonlite", "lattice", "mime", "nlme", "openssl", "R6", "Rcpp", "RCurl", "sys", "XML" ], "_vignettes": [ { "source": "vignette.Rmd", "filename": "vignette.html", "title": "Treebase Tutorial", "author": "Carl Boettiger", "engine": "knitr::rmarkdown", "headings": [ "Basic tree and metadata queries", "Replicating results", "Meta-Analysis" ], "created": "2014-02-20 19:23:44", "modified": "2024-02-16 05:35:56", "commits": 7 } ], "_score": 6.702430536445526, "_indexed": false, "_nocasepkg": "treebase", "_universes": [ "phylotastic" ], "_indexurl": "https://ropensci.r-universe.dev/treebase", "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.5", "date": "2026-09-21T07:31:30.000Z", "distro": "resolute", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/cb569dc03b4b365792fd5510a941888ff3805aadb4019dc604e88fe109d033fd", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" }, { "r": "4.6.1", "os": "linux", "version": "0.1.5", "date": "2026-09-21T07:31:19.000Z", "distro": "resolute", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/c12dcdbb0a5dfe358a2d927ac26b471fe195a33b643318314f1dde628901db46", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" }, { "r": "4.5.3", "os": "mac", "version": "0.1.5", "date": "2026-09-21T07:30:45.000Z", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/43bc51630daba263a85fcff684ef626a62033361f368dec2b630e0cb18519cfe", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" }, { "r": "4.6.1", "os": "mac", "version": "0.1.5", "date": "2026-09-21T07:31:00.000Z", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/95268cabafdb05b570701fc56c3593dc99affe4e70eceffaad5ca9ee90b7e590", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.5", "date": "2026-09-21T07:31:11.000Z", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/6c5a7d31cd66e37365e7a817705c9f216f0560db3a815780a10765be17266dff", "status": "success", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" }, { "r": "4.7.0", "os": "win", "version": "0.1.5", "date": "2026-09-21T07:30:22.000Z", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/3e0dbc34e1d16df6e420cd38328973ced886ccc527134033b1ced3c5dd6f7bdb", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" }, { "r": "4.5.3", "os": "win", "version": "0.1.5", "date": "2026-09-21T07:30:12.000Z", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/97f278408ad3320af2f030468e7edaa7e8510b59644ca75c8aeed805e2666027", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" }, { "r": "4.6.1", "os": "win", "version": "0.1.5", "date": "2026-09-21T07:30:21.000Z", "commit": "5954c072bb9b2168a3d6554316a5d7f28d087584", "fileid": "https://r2.ropensci.org/561e5293c1a9b4a05a053bab21026f241a349e62afd562b586603e3882936029", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/phylotastic/actions/runs/35572967708" } ] }