{
  "_id": "6ac03f5291601a2ad299671a",
  "Package": "MsBackendMetaboLights",
  "Title": "Retrieve Mass Spectrometry Data from MetaboLights",
  "Version": "1.7.10",
  "Authors@R": "c(person(given = \"Johannes\", family = \"Rainer\",\nemail = \"Johannes.Rainer@eurac.edu\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-6977-7147\")),\nperson(given = \"Philippine\", family = \"Louail\",\nemail = \"philippine.louail@eurac.edu\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0009-0007-5429-6846\")),\nperson(given = \"Gabriele\", family = \"Tomè\",\nemail = \"gabriele.tome@eurac.edu\",\nrole = c(\"aut\"),\ncomment = c(ORCID = \"0000-0002-3976-6068\",\nfnd = \"MetaRbolomics4Galaxy project (CUP: D53C25001030003) co-funded by the Autonomous Province of Bolzano under the Joint Projects South Tyrol–Germany 2025 program.\"))\n)",
  "Description": "MetaboLights is one of the main public repositories for\nstorage of metabolomics experiments, which includes analysis\nresults as well as raw data. The MsBackendMetaboLights package\nprovides functionality to retrieve and represent mass\nspectrometry (MS) data from MetaboLights. Data files are\ndownloaded and cached locally avoiding repetitive downloads. MS\ndata from metabolomics experiments can thus be directly and\nseamlessly integrated into R-based analysis workflows with the\nSpectra and MsBackendMetaboLights package.",
  "License": "Artistic-2.0",
  "Encoding": "UTF-8",
  "VignetteBuilder": "knitr",
  "BugReports": "https://github.com/RforMassSpectrometry/MsBackendMetaboLights/issues",
  "URL": "https://github.com/RforMassSpectrometry/MsBackendMetaboLights",
  "biocViews": "Infrastructure, MassSpectrometry, Metabolomics, DataImport,\nProteomics",
  "Roxygen": "list(markdown=TRUE)",
  "Config/roxygen2/version": "8.1.0",
  "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev libssl-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-10-01 14:01:40 UTC",
  "RemoteUrl": "https://github.com/bioc/MsBackendMetaboLights",
  "RemoteRef": "HEAD",
  "RemoteSha": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-10-02 23:12:27 UTC",
    "User": "root"
  },
  "Author": "Johannes Rainer [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-6977-7147>),\nPhilippine Louail [aut] (ORCID:\n<https://orcid.org/0009-0007-5429-6846>),\nGabriele Tomè [aut] (ORCID: <https://orcid.org/0000-0002-3976-6068>,\nfnd: MetaRbolomics4Galaxy project (CUP: D53C25001030003) co-funded\nby the Autonomous Province of Bolzano under the Joint Projects\nSouth Tyrol–Germany 2025 program.)",
  "Maintainer": "Johannes Rainer <Johannes.Rainer@eurac.edu>",
  "_user": "bioc",
  "_type": "src",
  "_file": "MsBackendMetaboLights_1.7.10.tar.gz",
  "_fileid": "https://r2.ropensci.org/3afe7052baae75a8f3aac979bc46a57059fec32659978b3c6e097c6ee2e0ee03",
  "_filesize": 145068,
  "_sha256": "3afe7052baae75a8f3aac979bc46a57059fec32659978b3c6e097c6ee2e0ee03",
  "_expires": "2027-01-10T23:33:34.000Z",
  "_created": "2026-10-02T23:12:27.000Z",
  "_published": "2026-10-02T23:33:38.159Z",
  "_bioccheck": {
    "error": 0,
    "warning": 0,
    "note": 8
  },
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201",
  "_status": "success",
  "_upstream": "https://github.com/bioc/MsBackendMetaboLights",
  "_commit": {
    "id": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
    "author": "Johannes Rainer <5506112+jorainer@users.noreply.github.com>",
    "committer": "GitHub <noreply@github.com>",
    "message": "Merge pull request #30 from rformassspectrometry/phili\n\nfix: keep metadata of previously cached files when syncing data files",
    "time": 1790863300
  },
  "_maintainer": {
    "name": "Johannes Rainer",
    "email": "johannes.rainer@eurac.edu",
    "login": "jorainer",
    "mastodon": "@jorainer@fediscience.org",
    "bluesky": "@jorainer.bsky.social",
    "linkedin": "in/jorainer",
    "orcid": "0000-0002-6977-7147",
    "description": "Computational Mass Spectrometry and Metabolomics, mostly; love R coding and Emacs; member of the Bioconductor Community Advisory Board.",
    "uuid": 5506112
  },
  "_distro": "resolute",
  "_jobs": [
    {
      "job": 111067464261,
      "time": 148,
      "config": "bioc-checks",
      "r": "4.6.1",
      "check": "NOTE",
      "artifact": "11257470507"
    },
    {
      "job": 111067464274,
      "time": 870,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "11257017747"
    },
    {
      "job": 111067464300,
      "time": 1181,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "11257437432"
    },
    {
      "job": 111067464294,
      "time": 824,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "11257302274"
    },
    {
      "job": 111067464197,
      "time": 722,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "11257471623"
    },
    {
      "job": 111065823022,
      "time": 383,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "11256997005"
    },
    {
      "job": 111067464240,
      "time": 120,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "11257315788"
    },
    {
      "job": 111067464255,
      "time": 1133,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "11257142819"
    },
    {
      "job": 111067464335,
      "time": 1125,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "11258105049"
    },
    {
      "job": 111067464276,
      "time": 1068,
      "config": "windows-release-x86_64",
      "r": "4.6.1",
      "check": "ERROR",
      "artifact": "11256894762"
    }
  ],
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.2.0",
      "role": "Depends"
    },
    {
      "package": "Spectra",
      "version": ">= 1.15.12",
      "role": "Depends"
    },
    {
      "package": "curl",
      "role": "Imports"
    },
    {
      "package": "ProtGenerics",
      "role": "Imports"
    },
    {
      "package": "BiocFileCache",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "progress",
      "role": "Imports"
    },
    {
      "package": "utils",
      "role": "Imports"
    },
    {
      "package": "MsCoreUtils",
      "version": ">= 1.23.8",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "mzR",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-44",
      "n": 3
    },
    {
      "week": "2025-45",
      "n": 1
    },
    {
      "week": "2026-10",
      "n": 1
    },
    {
      "week": "2026-13",
      "n": 1
    },
    {
      "week": "2026-16",
      "n": 1
    },
    {
      "week": "2026-21",
      "n": 4
    },
    {
      "week": "2026-25",
      "n": 4
    },
    {
      "week": "2026-29",
      "n": 1
    },
    {
      "week": "2026-35",
      "n": 6
    },
    {
      "week": "2026-39",
      "n": 1
    },
    {
      "week": "2026-40",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.7.7",
      "bioc": "3.24"
    },
    {
      "branch": "release",
      "version": "1.6.1",
      "bioc": "3.23"
    }
  ],
  "_topics": [
    "infrastructure",
    "massspectrometry",
    "metabolomics",
    "dataimport",
    "proteomics",
    "mass-spectrometry",
    "metabolomics-data"
  ],
  "_stars": 2,
  "_contributors": [
    {
      "user": "jorainer",
      "count": 78,
      "uuid": 5506112
    },
    {
      "user": "philouail",
      "count": 10,
      "uuid": 127301965
    },
    {
      "user": "jwokaty",
      "count": 8,
      "uuid": 1744257
    },
    {
      "user": "gabrieletome",
      "count": 3,
      "uuid": 39188419
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 470,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 358,
    "source": "https://www.bioconductor.org/packages/stats/bioc/MsBackendMetaboLights"
  },
  "_devurl": "https://github.com/rformassspectrometry/msbackendmetabolights",
  "_searchresults": 0,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/MsBackendMetaboLights.html",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/rformassspectrometry/msbackendmetabolights",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "backendInitialize",
    "backendRequiredSpectraVariables",
    "MsBackendMetaboLights",
    "mtbls_assay_data",
    "mtbls_cached_data_files",
    "mtbls_delete_cache",
    "mtbls_ftp_path",
    "mtbls_list_files",
    "mtbls_metadata",
    "mtbls_sample_data",
    "mtbls_sync",
    "mtbls_sync_data_files"
  ],
  "_help": [
    {
      "page": "MetaboLights-utils",
      "title": "Utility functions for the MetaboLights repository",
      "topics": [
        "MetaboLights-utils",
        "mtbls_assay_data",
        "mtbls_cached_data_files",
        "mtbls_delete_cache",
        "mtbls_ftp_path",
        "mtbls_list_files",
        "mtbls_metadata",
        "mtbls_sample_data",
        "mtbls_sync_data_files"
      ]
    },
    {
      "page": "MsBackendMetaboLights",
      "title": "MsBackend representing MS data from MetaboLights",
      "topics": [
        "backendInitialize,MsBackendMetaboLights-method",
        "backendRequiredSpectraVariables,MsBackendMetaboLights-method",
        "MsBackendMetaboLights",
        "MsBackendMetaboLights-class",
        "mtbls_sync"
      ]
    }
  ],
  "_pkglogo": "https://github.com/bioc/MsBackendMetaboLights/raw/HEAD/logo.png",
  "_readme": "https://github.com/bioc/MsBackendMetaboLights/raw/HEAD/README.md",
  "_rundeps": [
    "askpass",
    "BH",
    "BiocFileCache",
    "BiocGenerics",
    "BiocParallel",
    "bit",
    "bit64",
    "blob",
    "cachem",
    "cli",
    "clue",
    "cluster",
    "codetools",
    "cpp11",
    "crayon",
    "curl",
    "data.table",
    "DBI",
    "dbplyr",
    "dplyr",
    "fastmap",
    "filelock",
    "formatR",
    "fs",
    "futile.logger",
    "futile.options",
    "generics",
    "glue",
    "hms",
    "httr2",
    "IRanges",
    "lambda.r",
    "lifecycle",
    "magrittr",
    "MASS",
    "memoise",
    "MetaboCoreUtils",
    "MsCoreUtils",
    "openssl",
    "pillar",
    "pkgconfig",
    "prettyunits",
    "progress",
    "ProtGenerics",
    "purrr",
    "R6",
    "Rcpp",
    "rlang",
    "RSQLite",
    "S4Vectors",
    "snow",
    "Spectra",
    "stringi",
    "stringr",
    "sys",
    "tibble",
    "tidyr",
    "tidyselect",
    "utf8",
    "vctrs",
    "withr"
  ],
  "_vignettes": [
    {
      "source": "MsBackendMetaboLights.Rmd",
      "filename": "MsBackendMetaboLights.html",
      "title": "Retrieve and Use Mass Spectrometry Data from MetaboLights",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Introduction",
        "Installation",
        "Importing MS Data from MetaboLights",
        "General information for a MetaboLights data set",
        "Session information"
      ],
      "created": "2024-09-07 09:49:31",
      "modified": "2026-09-24 09:52:26",
      "commits": 12
    }
  ],
  "_score": 5.518513939877888,
  "_indexed": true,
  "_nocasepkg": "msbackendmetabolights",
  "_universes": [
    "bioc",
    "jorainer",
    "rformassspectrometry"
  ],
  "_previous": "1.7.8",
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.7.10",
      "date": "2026-10-02T23:16:20.000Z",
      "distro": "resolute",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/722cb8f482c430deb468ed153f841985d27e9dcf52aefef81f8f4df439b72c26",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "1.7.10",
      "date": "2026-10-02T23:16:55.000Z",
      "distro": "resolute",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/942d633d62010d10a290611e2dbeb8780d7c55dee17a1c986793bc5bfd1e634b",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.7.10",
      "date": "2026-10-02T23:15:48.000Z",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/e291353900315797ffe79f0e34395560abc12c299c9491f8490245a7afc6286c",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "1.7.10",
      "date": "2026-10-02T23:14:51.000Z",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/97c0d226b251e2cfbbddd4f6b5d3baea2ca41b8a7ce5e56bcd59c1fc8d28511f",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.7.10",
      "date": "2026-10-02T23:14:57.000Z",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/58966ba3e6bea3bc96b6bd45ef79d4af58ffd749f82019540421d5611c873053",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.7.10",
      "date": "2026-10-02T23:14:02.000Z",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/50bd2555cf6467294df636e19803e7818ef474f880ff759a5de1906cfe00125a",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.7.10",
      "date": "2026-10-02T23:14:14.000Z",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/8d5e4c6dad6bd9f33f54c9d0574ef7a10b26627d09a6c30a577c8a7a0a1b887c",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "1.7.10",
      "date": "2026-10-02T23:14:11.000Z",
      "commit": "d23abb7e9fd02342edc6f0c09659065c4c90b0bf",
      "fileid": "https://r2.ropensci.org/b9088f6cb692c1ce0e04ec9d9a217d63b24ad5004d464f748b2307ad4430c04b",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/37075944201"
    }
  ]
}