{ "_id": "6a93d9717b325a6d97b705e6", "Package": "tidypmc", "Type": "Package", "Title": "Parse Full Text XML Documents from PubMed Central", "Version": "1.8", "Authors@R": "person(\"Chris\", \"Stubben\", role = c(\"aut\", \"cre\"), email = \"chris.stubben@hci.utah.edu\")", "Description": "Parse XML documents from the Open Access subset of Europe\nPubMed Central including section\nparagraphs, tables, captions and references.", "URL": "https://docs.ropensci.org/tidypmc,\nhttps://github.com/ropensci/tidypmc", "BugReports": "https://github.com/ropensci/tidypmc/issues", "License": "GPL-3", "Encoding": "UTF-8", "VignetteBuilder": "knitr", "RoxygenNote": "6.1.1", "Config/pak/sysreqs": "libicu-dev libxml2-dev libx11-dev", "Repository": "https://ropensci.r-universe.dev", "Date/Publication": "2019-12-09 19:35:01 UTC", "RemoteUrl": "https://github.com/ropensci/tidypmc", "RemoteRef": "master", "RemoteSha": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "NeedsCompilation": "no", "Packaged": { "Date": "2026-08-30 07:15:28 UTC", "User": "root" }, "Author": "Chris Stubben [aut, cre]", "Maintainer": "Chris Stubben ", "_user": "ropensci", "_type": "src", "_file": "tidypmc_1.8.tar.gz", "_fileid": "https://r2.ropensci.org/b07fb10341f2d7100ad8e68a3ab7e747abb1f3562a8b3bcb373e9bf36a00e2b5", "_filesize": 443161, "_sha256": "b07fb10341f2d7100ad8e68a3ab7e747abb1f3562a8b3bcb373e9bf36a00e2b5", "_expires": "2026-12-08T07:19:11.000Z", "_created": "2026-08-30T07:15:28.000Z", "_published": "2026-08-30T07:19:13.009Z", "_jobs": [ { "job": 99222930646, "time": 177, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "9728275297" }, { "job": 99222930617, "time": 140, "config": "linux-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "9728268070" }, { "job": 99222930630, "time": 84, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "9728257132" }, { "job": 99222930609, "time": 81, "config": "macos-release-arm64", "r": "4.6.1", "check": "NOTE", "artifact": "9728256452" }, { "job": 99222603761, "time": 157, "config": "pkgdown", "r": "4.6.0", "check": "OK", "artifact": "9728234744" }, { "job": 99222603751, "time": 193, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "9728240738" }, { "job": 99222930712, "time": 125, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "9728265006" }, { "job": 99222930650, "time": 72, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "9728254813" }, { "job": 99222930675, "time": 92, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "NOTE", "artifact": "9728258585" }, { "job": 99222930618, "time": 75, "config": "windows-release-x86_64", "r": "4.6.1", "check": "NOTE", "artifact": "9728255366" } ], "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538", "_status": "success", "_upstream": "https://github.com/ropensci/tidypmc", "_commit": { "id": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "author": "rOpenSci Bot ", "committer": "rOpenSci Bot ", "message": "Add links to official docs site.\nFor more details: https://ropensci.org/technotes/2019/06/07/ropensci-docs/\n", "time": 1575920101 }, "_maintainer": { "name": "Chris Stubben", "email": "chris.stubben@hci.utah.edu" }, "_distro": "resolute", "_registered": true, "_dependencies": [ { "package": "xml2", "role": "Imports" }, { "package": "tokenizers", "role": "Imports" }, { "package": "stringr", "role": "Imports" }, { "package": "tibble", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "readr", "role": "Imports" }, { "package": "europepmc", "role": "Suggests" }, { "package": "tidytext", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "testthat", "role": "Suggests" }, { "package": "covr", "role": "Suggests" } ], "_owner": "ropensci", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_stars": 36, "_contributors": [ { "user": "cstubben", "count": 57, "uuid": 1322406 } ], "_userbio": { "uuid": 1200269, "type": "organization", "name": "rOpenSci", "followers": 1145, "description": "Tools and R Packages for Open Science" }, "_downloads": { "count": 22, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/tidypmc" }, "_devurl": "https://github.com/ropensci/tidypmc", "_pkgdown": "https://docs.ropensci.org/tidypmc", "_searchresults": 0, "_metadata": { "review": { "id": 290, "status": "reviewed", "version": "1.1", "organization": "rOpenSci Software Review", "url": "https://github.com/ropensci/software-review/issues/290" }, "ropensci_category": "literature" }, "_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/tidypmc.html", "manual.pdf" ], "_realowner": "ropensci", "_cranurl": false, "_releases": [ { "version": "1.7", "date": "2019-08-01" }, { "version": "2.0", "date": "2024-08-27" } ], "_exports": [ "collapse_rows", "pmc_caption", "pmc_metadata", "pmc_reference", "pmc_table", "pmc_text", "pmc_xml", "separate_genes", "separate_refs", "separate_tags", "separate_text" ], "_help": [ { "page": "collapse_rows", "title": "Collapse a list of PubMed Central tables", "topics": [ "collapse_rows" ] }, { "page": "pmc_caption", "title": "Split captions into sentences", "topics": [ "pmc_caption" ] }, { "page": "pmc_metadata", "title": "Get article metadata", "topics": [ "pmc_metadata" ] }, { "page": "pmc_reference", "title": "Format references cited", "topics": [ "pmc_reference" ] }, { "page": "pmc_table", "title": "Convert table nodes to tibbles", "topics": [ "pmc_table" ] }, { "page": "pmc_text", "title": "Split section paragraphs into sentences", "topics": [ "pmc_text" ] }, { "page": "pmc_xml", "title": "Download XML from PubMed Central", "topics": [ "pmc_xml" ] }, { "page": "separate_genes", "title": "Separate genes and operons into multiple rows", "topics": [ "separate_genes" ] }, { "page": "separate_refs", "title": "Separate references cited into multiple rows", "topics": [ "separate_refs" ] }, { "page": "separate_tags", "title": "Separate locus tag into multiple rows", "topics": [ "separate_tags" ] }, { "page": "separate_text", "title": "Separate all matching text into multiple rows", "topics": [ "separate_text" ] } ], "_readme": "https://github.com/ropensci/tidypmc/raw/master/README.md", "_rundeps": [ "bit", "bit64", "cli", "clipr", "cpp11", "crayon", "dplyr", "generics", "glue", "hms", "lifecycle", "magrittr", "pillar", "pkgconfig", "prettyunits", "progress", "R6", "Rcpp", "readr", "rlang", "SnowballC", "stringi", "stringr", "tibble", "tidyselect", "tokenizers", "tzdb", "utf8", "vctrs", "vroom", "withr", "xml2" ], "_vignettes": [ { "source": "tidypmc.Rmd", "filename": "tidypmc.html", "title": "Introduction to tidypmc", "author": "Chris Stubben", "engine": "knitr::rmarkdown", "headings": [ "Searching text", "Using xml2" ], "created": "2019-03-19 04:34:32", "modified": "2019-06-03 19:07:44", "commits": 8 }, { "source": "pmcftp.Rmd", "filename": "pmcftp.html", "title": "Parsing Europe PMC FTP files", "author": "Chris Stubben", "engine": "knitr::rmarkdown", "headings": [], "created": "2019-04-11 21:54:54", "modified": "2019-08-06 20:56:47", "commits": 6 } ], "_score": 4.556302500767288, "_indexed": true, "_nocasepkg": "tidypmc", "_universes": [ "ropensci" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.8", "date": "2026-08-30T07:18:19.000Z", "distro": "resolute", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/0bd7e5a2bc50dc2cf089993845864a0a9789d1cd2a7061ad6ae3e4a4b61721f6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" }, { "r": "4.6.1", "os": "linux", "version": "1.8", "date": "2026-08-30T07:17:43.000Z", "distro": "resolute", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/22543fede767af3b273b5f02eed0b7fc55384d879fad64463aa321ede4ed3f9e", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" }, { "r": "4.5.3", "os": "mac", "version": "1.8", "date": "2026-08-30T07:16:54.000Z", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/15d3e21ba780ef245f0803ddc04590967ebe8e003772e9a27998fa2bdeeac5c6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" }, { "r": "4.6.1", "os": "mac", "version": "1.8", "date": "2026-08-30T07:16:50.000Z", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/1057799e3fffbab3c55f42c5937d20f2121bb9c58d581dd77b2a420b52b96400", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" }, { "r": "4.6.0", "os": "wasm", "version": "1.8", "date": "2026-08-30T07:17:46.000Z", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/0de5d4f04443a75a63dd63a39de3ceaf4423c934b66b6ffdcbd284d2c5fa7ef8", "status": "success", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" }, { "r": "4.7.0", "os": "win", "version": "1.8", "date": "2026-08-30T07:16:30.000Z", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/633dc1f7ec12159291b9b6aea7b0d06af6256b08e214193b62c08c76a1f8364d", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" }, { "r": "4.5.3", "os": "win", "version": "1.8", "date": "2026-08-30T07:16:48.000Z", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/7779f636f771d819bd8b6d8912f19e77a2ffb41086aa23cf79abbc6b6ac89206", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" }, { "r": "4.6.1", "os": "win", "version": "1.8", "date": "2026-08-30T07:16:33.000Z", "commit": "d9739ce3ef6f57832f56bb488de80c48b58e1f91", "fileid": "https://r2.ropensci.org/0a4850b90fc75456bcd2b48265d06b945a2dd8ced32bd34c2d61513bf2ca5f9b", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/ropensci/actions/runs/33298649538" } ] }