{ "_id": "6a4972aff408bf5a1e5fd918", "Package": "Rhtslib", "Title": "HTSlib high-throughput sequencing library as an R package", "Description": "This package provides version 1.18 of the 'HTSlib' C\nlibrary for high-throughput sequence analysis. The package is\nprimarily useful to developers of other R packages who wish to\nmake use of HTSlib. Motivation and instructions for use of this\npackage are in the vignette, vignette(package=\"Rhtslib\",\n\"Rhtslib\").", "biocViews": "DataImport, Sequencing", "URL": "https://bioconductor.org/packages/Rhtslib, http://www.htslib.org/", "BugReports": "https://github.com/Bioconductor/Rhtslib/issues", "Version": "3.9.0", "License": "LGPL (>= 2)", "Copyright": "Unless otherwise noted in the file, all files outside\nsrc/htslib-1.18 or inst/include copyright Bioconductor; for\nfiles inside src/htslib-1.18 or inst/include, see file\nsrc/htslib-1.18/LICENSE.", "Encoding": "UTF-8", "Authors@R": "c(\nperson(\"Nathaniel\", \"Hayden\", role=c(\"led\", \"aut\"),\nemail=\"nhayden@fredhutch.org\"),\nperson(\"Martin\", \"Morgan\", role=\"aut\",\nemail=\"martin.morgan@roswellpark.org\"),\nperson(\"Hervé\", \"Pagès\", role=c(\"aut\", \"cre\"),\nemail=\"hpages.on.github@gmail.com\"),\nperson(\"Tomas\", \"Kalibera\", role=\"ctb\"),\nperson(\"Jeroen\", \"Ooms\", role=\"ctb\"))", "SystemRequirements": "libbz2 & liblzma & libcurl (with header files), GNU\nmake", "StagedInstall": "no", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "make libbz2-dev liblzma-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 12:40:40 UTC", "RemoteUrl": "https://github.com/bioc/Rhtslib", "RemoteRef": "HEAD", "RemoteSha": "29c0999d599e15f97b80bf26ea8d87e006e92913", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-06-23 14:49:11 UTC", "User": "root" }, "Author": "Nathaniel Hayden [led, aut],\nMartin Morgan [aut],\nHervé Pagès [aut, cre],\nTomas Kalibera [ctb],\nJeroen Ooms [ctb]", "Maintainer": "Hervé Pagès ", "_user": "bioc", "_type": "src", "_file": "Rhtslib_3.9.0.tar.gz", "_fileid": "https://r2.ropensci.org/216d47939eb9256bc9e1d6ce7e4837dfac8a53e2b3163de007ae9c6e69a8fd95", "_filesize": 5061240, "_sha256": "216d47939eb9256bc9e1d6ce7e4837dfac8a53e2b3163de007ae9c6e69a8fd95", "_expires": "2026-10-12T20:53:01.000Z", "_created": "2026-06-23T14:49:11.000Z", "_published": "2026-07-04T20:53:03.554Z", "_bioccheck": { "error": 0, "warning": 1, "note": 7 }, "_host": "GitHub-Actions", "_buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576", "_status": "success", "_upstream": "https://github.com/bioc/Rhtslib", "_commit": { "id": "29c0999d599e15f97b80bf26ea8d87e006e92913", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777380040 }, "_maintainer": { "name": "Hervé Pagès", "email": "hpages.on.github@gmail.com", "login": "hpages", "linkedin": "in/hervé-pagès-5038527", "description": "", "uuid": 8810451 }, "_distro": "resolute", "_jobs": [ { "job": 85166122932, "time": 267, "config": "bioc-checks", "r": "4.6.0", "check": "WARNING", "artifact": "7824578868" }, { "job": 85166122853, "time": 220, "config": "linux-devel-arm64", "r": "4.7.0", "check": "WARNING", "artifact": "7824560380" }, { "job": 85166122791, "time": 185, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "WARNING", "artifact": "7824544967" }, { "job": 85166122922, "time": 205, "config": "linux-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7824554230" }, { "job": 85166122894, "time": 212, "config": "linux-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7824555202" }, { "job": 85166123002, "time": 147, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "WARNING", "artifact": "7824529501" }, { "job": 85166122897, "time": 207, "config": "macos-oldrel-x86_64", "r": "4.5.3", "check": "WARNING", "artifact": "7824554020" }, { "job": 85166122885, "time": 158, "config": "macos-release-arm64", "r": "4.6.0", "check": "WARNING", "artifact": "7824533381" }, { "job": 85166122919, "time": 243, "config": "macos-release-x86_64", "r": "4.6.0", "check": "WARNING", "artifact": "7824567711" }, { "job": 85166122556, "time": 277, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7824470077" }, { "job": 85166122819, "time": 154, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7824531993" }, { "job": 85166122813, "time": 180, "config": "windows-devel", "r": "4.7.0", "check": "WARNING", "artifact": "7824542870" }, { "job": 85166122856, "time": 200, "config": "windows-oldrel", "r": "4.5.3", "check": "WARNING", "artifact": "7824551383" }, { "job": 85166122749, "time": 175, "config": "windows-release", "r": "4.6.0", "check": "WARNING", "artifact": "7824540663" } ], "_registered": true, "_dependencies": [ { "package": "tools", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "BiocStyle", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 627, "_updates": [ { "week": "2025-43", "n": 1 }, { "week": "2025-44", "n": 3 }, { "week": "2026-18", "n": 3 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "3.9.0", "bioc": "3.24" }, { "branch": "release", "version": "3.8.0", "bioc": "3.23" } ], "_topics": [ "dataimport", "sequencing", "bioconductor-package", "core-package", "curl", "bzip2", "xz-utils", "zlib" ], "_stars": 11, "_contributors": [ { "user": "hpages", "count": 100, "uuid": 8810451 }, { "user": "nhayden", "count": 37, "uuid": 6475155 }, { "user": "jwokaty", "count": 16, "uuid": 1744257 }, { "user": "nturaga", "count": 15, "uuid": 2746443 }, { "user": "dtenenba", "count": 13, "uuid": 2286826 }, { "user": "vobencha", "count": 2, "uuid": 2466173 }, { "user": "jeroen", "count": 1, "uuid": 216319 }, { "user": "mtmorgan", "count": 1, "uuid": 118552 }, { "user": "lshep", "count": 1, "uuid": 18724380 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "followers": 441, "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_mentions": 1, "_devurl": "https://github.com/bioconductor/rhtslib", "_searchresults": 3, "_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/readme.html", "extra/readme.md", "extra/Rhtslib.html", "manual.pdf" ], "_homeurl": "https://github.com/bioconductor/rhtslib", "_realowner": "bioc", "_cranurl": false, "_exports": [ "pkgconfig" ], "_help": [ { "page": "Rhtslib-package", "title": "An R packaged HTSlib 1.18", "topics": [ "Rhtslib-package", "htsVersion", "Rhtslib" ] }, { "page": "pkgconfig", "title": "Compiler configuration arguments for use of Rhtslib", "topics": [ "pkgconfig" ] } ], "_readme": "https://github.com/bioc/Rhtslib/raw/HEAD/README.md", "_rundeps": [], "_sysdeps": [ { "shlib": "libcurl", "package": "libcurl4t64", "headers": "libcurl4-openssl-dev", "source": "curl", "version": "8.18.0-1ubuntu2.1", "name": "curl", "homepage": "https://curl.se/", "description": "easy-to-use client-side URL transfer library (OpenSSL flavour)" }, { "shlib": "libbz2", "package": "libbz2-1.0", "headers": "libbz2-dev", "source": "bzip2", "version": "1.0.8-6build2", "name": "bzip2", "homepage": "https://sourceware.org/bzip2/", "description": "high-quality block-sorting file compressor library - runtime" }, { "shlib": "liblzma", "package": "liblzma5", "headers": "liblzma-dev", "source": "xz-utils", "version": "5.8.3-1", "name": "xz-utils", "homepage": "https://tukaani.org/xz/", "description": "XZ-format compression library" }, { "shlib": "libz", "package": "zlib1g", "headers": "zlib1g-dev", "source": "zlib", "version": "1:1.3.dfsg+really1.3.1-1ubuntu3", "name": "zlib", "homepage": "http://zlib.net/", "description": "compression library - runtime" } ], "_vignettes": [ { "source": "Rhtslib.Rmd", "filename": "Rhtslib.html", "title": "Motivation and use of Rhtslib", "author": "Nathaniel Hayden, Martin Morgan", "engine": "knitr::rmarkdown", "headings": [ "Motivation", "HTSlib version", "Use", "Find headers", "Compile and link against the library", "Implementation notes" ], "created": "2015-03-04 00:49:46", "modified": "2024-11-27 01:24:54", "commits": 21 } ], "_score": 9.39496272675623, "_indexed": true, "_nocasepkg": "rhtslib", "_universes": [ "bioc", "hpages", "bioconductor" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "3.9.0", "date": "2026-06-23T14:53:12.000Z", "distro": "resolute", "arch": "aarch64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/5490baeada16ce453617be72b25eadfb2e2a009f4dfd4c361e080a65e474d7ab", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.7.0", "os": "linux", "version": "3.9.0", "date": "2026-06-23T14:52:53.000Z", "distro": "resolute", "arch": "x86_64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/7006ef06558837203baf42d445ce6acb5a64b04bbdc44bb8237885378dd1af3c", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.6.0", "os": "linux", "version": "3.9.0", "date": "2026-06-23T14:52:56.000Z", "distro": "resolute", "arch": "aarch64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/6255f538180da26cc028ca4d8084b082ab936b77d108a3466a3cc09fe2eb129e", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.6.0", "os": "linux", "version": "3.9.0", "date": "2026-06-23T14:52:49.000Z", "distro": "resolute", "arch": "x86_64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/444b89b750d7a5b6a221162fee2bee4e693664ed5d609f0059d867419d3a83b4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.5.3", "os": "mac", "version": "3.9.0", "date": "2026-06-23T14:52:10.000Z", "arch": "aarch64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/194155f06602420a201cabc9c30e47b02d9a67b8ee63cb775e91b3ed7bb4f0b4", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.5.3", "os": "mac", "version": "3.9.0", "date": "2026-06-23T14:52:50.000Z", "arch": "x86_64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/53d4424551b369cadbb5852f4a1d3a70ec24cb53044ad8f9bc3b108b2a361f28", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.6.0", "os": "mac", "version": "3.9.0", "date": "2026-06-23T14:52:17.000Z", "arch": "aarch64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/dd817a8fc961953cc05fe3083785f7b59274d4798854dfb01493d99eba2c630f", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.6.0", "os": "mac", "version": "3.9.0", "date": "2026-06-23T14:53:01.000Z", "arch": "x86_64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/10e74badba9eca1e0a8e71503b69526973e2c3ab4ba87c7a04d5aebe804d5800", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.6.0", "os": "wasm", "version": "3.9.0", "date": "2026-06-23T14:52:20.000Z", "arch": "emscripten", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/a50b15d100b6caa49387215dda56e348d4d5a5eef47842e807b94bf8383e478f", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.7.0", "os": "win", "version": "3.9.0", "date": "2026-06-23T14:51:34.000Z", "arch": "x86_64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/b34beef5e2ae62c5458247450563bcf690f6a37282614c63b1550cba90d10e9a", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.5.3", "os": "win", "version": "3.9.0", "date": "2026-06-23T14:51:29.000Z", "arch": "x86_64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/b2105650664211cf225908f2ed9b5549b8f2e9f3e14206ec114255d82c96252e", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" }, { "r": "4.6.0", "os": "win", "version": "3.9.0", "date": "2026-06-23T14:51:18.000Z", "arch": "x86_64", "commit": "29c0999d599e15f97b80bf26ea8d87e006e92913", "fileid": "https://r2.ropensci.org/cb201aa60fc9fd60738bcb2f21d79aa754eb798b48466398aa9cf2161895c71f", "status": "success", "check": "WARNING", "buildurl": "https://github.com/r-universe/bioc/actions/runs/28034477576" } ] }