{ "_id": "6a1ac1581d7bb097a09d821d", "Package": "rebook", "Version": "1.23.0", "Date": "2023-05-25", "Title": "Re-using Content in Bioconductor Books", "Authors@R": "person(\"Aaron\", \"Lun\", email=\"infinite.monkeys.with.keyboards@gmail.com\", role=c(\"aut\", \"cre\", \"cph\"))", "Description": "Provides utilities to re-use content across chapters of a\nBioconductor book. This is mostly based on functionality\ndeveloped while writing the OSCA book, but generalized for\npotential use in other large books with heavy compute. Also\ncontains some functions to assist book deployment.", "License": "GPL-3", "VignetteBuilder": "knitr", "biocViews": "Software, Infrastructure, ReportWriting", "RoxygenNote": "7.2.3", "Config/pak/sysreqs": "cmake make libuv1-dev libxml2-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:53:25 UTC", "RemoteUrl": "https://github.com/bioc/rebook", "RemoteRef": "HEAD", "RemoteSha": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-30 07:25:47 UTC", "User": "root" }, "Author": "Aaron Lun [aut, cre, cph]", "Maintainer": "Aaron Lun ", "MD5sum": "508108ba9f845d3f7b38a7c2d7c8bb83", "_user": "bioc", "_type": "src", "_file": "rebook_1.23.0.tar.gz", "_fileid": "f57800192fad8f5d5fa71701ac775c8e1cf5353555dbe8ce7dc105c1ffcec209", "_filesize": 195636, "_sha256": "f57800192fad8f5d5fa71701ac775c8e1cf5353555dbe8ce7dc105c1ffcec209", "_created": "2026-05-30T07:25:47.000Z", "_published": "2026-05-30T10:52:08.584Z", "_jobs": [ { "job": 78633381060, "time": 433, "config": "bioc-checks", "r": "4.6.0", "check": "WARNING", "artifact": "7306500080" }, { "job": 78633381035, "time": 571, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "7306515916" }, { "job": 78633381028, "time": 589, "config": "linux-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7306517800" }, { "job": 78633381032, "time": 240, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "7307593130" }, { "job": 78633381029, "time": 273, "config": "macos-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7307596830" }, { "job": 78633198338, "time": 198, "config": "source", "r": "4.6.0", "check": "ERROR", "artifact": "7306450980" }, { "job": 78633381044, "time": 425, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7306499110" }, { "job": 78633381045, "time": 707, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "7306530335" }, { "job": 78633381049, "time": 733, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "7306532877" }, { "job": 78633381048, "time": 340, "config": "windows-release", "r": "4.6.0", "check": "WARNING", "artifact": "7306490422" } ], "_bioccheck": { "error": 0, "warning": 1, "note": 11 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301", "_status": "failure", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/rebook", "_commit": { "id": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380805 }, "_maintainer": { "name": "Aaron Lun", "email": "infinite.monkeys.with.keyboards@gmail.com", "login": "ltla", "twitter": "@realAaronLun", "description": "(ノಠ益ಠ)ノ彡┻━┻\n", "uuid": 8166669 }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "utils", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "knitr", "version": ">= 1.32", "role": "Imports" }, { "package": "rmarkdown", "role": "Imports" }, { "package": "CodeDepends", "role": "Imports" }, { "package": "dir.expiry", "role": "Imports" }, { "package": "filelock", "role": "Imports" }, { "package": "BiocStyle", "role": "Imports" }, { "package": "testthat", "role": "Suggests" }, { "package": "igraph", "role": "Suggests" }, { "package": "XML", "role": "Suggests" }, { "package": "BiocManager", "role": "Suggests" }, { "package": "RCurl", "role": "Suggests" }, { "package": "bookdown", "role": "Suggests" }, { "package": "rappdirs", "role": "Suggests" }, { "package": "yaml", "role": "Suggests" }, { "package": "BiocParallel", "role": "Suggests" }, { "package": "OSCA.intro", "role": "Suggests" }, { "package": "OSCA.workflows", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.23.0", "bioc": "3.24" }, { "branch": "release", "version": "1.22.0", "bioc": "3.23" } ], "_topics": [ "software", "infrastructure", "reportwriting" ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 455, "source": "https://www.bioconductor.org/packages/stats/bioc/rebook" }, "_searchresults": 334, "_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/rebook.html", "manual.pdf" ], "_realowner": "bioc", "_cranurl": false, "_exports": [ "BiocFavicon", "BiocSticker", "bookCache", "bookCacheExpiry", "buildChapterGraph", "chapterPreamble", "collapseEnd", "collapseStart", "compileChapter", "configureBook", "createMakefile", "createRedirects", "deployCustomCSS", "extractCached", "extractFromPackage", "link", "openingDetails", "postCompileBook", "preCompileBook", "prettySessionInfo", "rmd2id", "scrapeDependencies", "scrapeReferences", "setupHTML", "updateDependencies" ], "_help": [ { "page": "bioc-images", "title": "Get various Bioconductor images", "topics": [ "bioc-images", "BiocFavicon", "BiocSticker" ] }, { "page": "bookCache", "title": "Get the local book cache", "topics": [ "bookCache", "bookCacheExpiry" ] }, { "page": "buildChapterGraph", "title": "Build the chapter dependency graph", "topics": [ "buildChapterGraph" ] }, { "page": "chapterPreamble", "title": "Execute chapter preamble code", "topics": [ "chapterPreamble" ] }, { "page": "collapseStart", "title": "Print the collapse opening and ending", "topics": [ "collapseEnd", "collapseStart" ] }, { "page": "compileBook", "title": "Compile the book", "topics": [ "compileBook", "postCompileBook", "preCompileBook" ] }, { "page": "compileChapter", "title": "Compile a Rmarkdown file", "topics": [ "compileChapter" ] }, { "page": "configureBook", "title": "Helper configuration function for books", "topics": [ "configureBook" ] }, { "page": "createMakefile", "title": "Create a compilation Makefile", "topics": [ "createMakefile" ] }, { "page": "createRedirects", "title": "Create redirection pages", "topics": [ "createRedirects" ] }, { "page": "deployCustomCSS", "title": "Deploy a custom CSS", "topics": [ "deployCustomCSS" ] }, { "page": "extractCached", "title": "Extract cached objects", "topics": [ "extractCached" ] }, { "page": "extractFromPackage", "title": "Extract cached objects from package's Rmarkdown files", "topics": [ "extractFromPackage" ] }, { "page": "link", "title": "Create a link to a different book", "topics": [ "link" ] }, { "page": "openingDetails", "title": "Report opening details about the book", "topics": [ "openingDetails" ] }, { "page": "prettySessionInfo", "title": "Pretty session info", "topics": [ "prettySessionInfo" ] }, { "page": "rmd2id", "title": "Get the chapter identifier", "topics": [ "rmd2id" ] }, { "page": "scrapeDependencies", "title": "Scrape dependencies", "topics": [ "scrapeDependencies" ] }, { "page": "scrapeReferences", "title": "Scrape references from a 'bookdown' directory", "topics": [ "scrapeReferences" ] }, { "page": "setupHTML", "title": "Set up HTML elements", "topics": [ "setupHTML" ] }, { "page": "updateDependencies", "title": "Update the dependencies", "topics": [ "updateDependencies" ] } ], "_rundeps": [ "base64enc", "BiocGenerics", "BiocManager", "BiocStyle", "bookdown", "bslib", "cachem", "cli", "CodeDepends", "codetools", "digest", "dir.expiry", "evaluate", "fastmap", "filelock", "fontawesome", "fs", "generics", "graph", "highr", "htmltools", "jquerylib", "jsonlite", "knitr", "lifecycle", "memoise", "mime", "R6", "rappdirs", "rlang", "rmarkdown", "sass", "tinytex", "xfun", "XML", "yaml" ], "_score": 3.824776462475546, "_indexed": true, "_nocasepkg": "rebook", "_universes": [ "bioc", "ltla" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.23.0", "date": "2026-05-30T07:34:17.000Z", "distro": "noble", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "ca0d3610e542e6f42691d05c85f275fd56a1edde37bf13914109feabddb12753", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" }, { "r": "4.6.0", "os": "linux", "version": "1.23.0", "date": "2026-05-30T07:33:31.000Z", "distro": "noble", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "737f72ab7ce925af32b59c18289211ef601dd71b3c60750226dbd62c1943aa01", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" }, { "r": "4.5.3", "os": "mac", "version": "1.23.0", "date": "2026-05-30T10:41:29.000Z", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "f75e0c7ecce2b298b2e7110a389b0b4629f01a58c0bb8a9f76a1113392917bdd", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" }, { "r": "4.6.0", "os": "mac", "version": "1.23.0", "date": "2026-05-30T10:41:54.000Z", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "74c439a1de9c39c1f2438967bae334e56fa8f4bc148393a73b1ab19c380112cc", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" }, { "r": "4.6.0", "os": "wasm", "version": "1.23.0", "date": "2026-05-30T07:33:08.000Z", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "7171fc9ac3503368912c67dad964cb887f2642828d848e11e1fa0db246e9d2a3", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" }, { "r": "4.7.0", "os": "win", "version": "1.23.0", "date": "2026-05-30T07:36:14.000Z", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "d33d8065504c8198c8891cbe9e23fce3804e47bf6929f9ae3232dd218324a7fc", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" }, { "r": "4.5.3", "os": "win", "version": "1.23.0", "date": "2026-05-30T07:36:43.000Z", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "f6412ce25aaa93658b8ddddee01a5c6884022475c8b028da8518a23ab22ee9d4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" }, { "r": "4.6.0", "os": "win", "version": "1.23.0", "date": "2026-05-30T07:30:13.000Z", "commit": "3d3686037e2f9ea8953880be42b5a0063af24a2d", "fileid": "3336ee34dd115a7bac000e9440547582939bfcef6c1eb0b80e13638878cf2d24", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/26677958301" } ] }