{
  "_id": "6ae76b3c1e2c7b3a4f53043f",
  "Package": "MsBackendSql",
  "Title": "SQL-based Mass Spectrometry Data Backend",
  "Version": "1.13.0",
  "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 = \"Chong\", family = \"Tang\",\nemail = \"chong.tang@uclouvain.be\",\nrole = \"ctb\"),\nperson(given = \"Laurent\", family = \"Gatto\",\nemail = \"laurent.gatto@uclouvain.be\",\nrole = \"ctb\",\ncomment = c(ORCID = \"0000-0002-1520-2268\")))",
  "Description": "SQL-based mass spectrometry (MS) data backend supporting\nalso storange and handling of very large data sets. Objects\nfrom this package are supposed to be used with the Spectra\nBioconductor package. Through the MsBackendSql with its minimal\nmemory footprint, this package thus provides an alternative MS\ndata representation for very large or remote MS data sets.",
  "License": "Artistic-2.0",
  "Encoding": "UTF-8",
  "VignetteBuilder": "knitr",
  "BugReports": "https://github.com/RforMassSpectrometry/MsBackendSql/issues",
  "URL": "https://github.com/RforMassSpectrometry/MsBackendSql",
  "biocViews": "Infrastructure, MassSpectrometry, Metabolomics, DataImport,\nProteomics",
  "Roxygen": "list(markdown=TRUE)",
  "RoxygenNote": "7.3.3",
  "Collate": "'MsBackendSql-functions.R' 'MsBackendSql.R'\n'MsBackendOfflineSql.R'",
  "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev",
  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:59:36 UTC",
  "RemoteUrl": "https://github.com/bioc/MsBackendSql",
  "RemoteRef": "HEAD",
  "RemoteSha": "596d363d1650e7750c49fd32d1c027f5e843d94b",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-11-01 14:02:28 UTC",
    "User": "root"
  },
  "Author": "Johannes Rainer [aut, cre] (ORCID:\n<https://orcid.org/0000-0002-6977-7147>),\nChong Tang [ctb],\nLaurent Gatto [ctb] (ORCID: <https://orcid.org/0000-0002-1520-2268>)",
  "Maintainer": "Johannes Rainer <Johannes.Rainer@eurac.edu>",
  "_user": "bioc",
  "_type": "src",
  "_file": "MsBackendSql_1.13.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/89af356ee56fbeed5d6e62d2d8136e7a0c3f69423e1eb6ab6d857eb265045db4",
  "_filesize": 183053,
  "_sha256": "89af356ee56fbeed5d6e62d2d8136e7a0c3f69423e1eb6ab6d857eb265045db4",
  "_expires": "2027-02-09T16:39:22.000Z",
  "_created": "2026-11-01T14:02:28.000Z",
  "_published": "2026-11-01T16:39:24.354Z",
  "_upstream": "https://github.com/bioc/MsBackendSql",
  "_status": "failure",
  "_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
  },
  "_jobs": [
    {
      "job": 124870717317,
      "time": 147,
      "config": "bioc-checks",
      "r": "4.6.2",
      "check": "ERROR",
      "artifact": "13087531201"
    },
    {
      "job": 124870717333,
      "time": 291,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "13086839367"
    },
    {
      "job": 124870717328,
      "time": 298,
      "config": "linux-release-x86_64",
      "r": "4.6.2",
      "check": "ERROR",
      "artifact": "13087067358"
    },
    {
      "job": 124870717360,
      "time": 168,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "13092245670"
    },
    {
      "job": 124870717295,
      "time": 103,
      "config": "macos-release-arm64",
      "r": "4.6.2",
      "check": "ERROR",
      "artifact": "13091408703"
    },
    {
      "job": 124862632194,
      "time": 235,
      "config": "source",
      "r": "4.6.2",
      "check": "ERROR",
      "artifact": "13086598166"
    },
    {
      "job": 124870717353,
      "time": 132,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "13086778994"
    },
    {
      "job": 124870717473,
      "time": 164,
      "config": "windows-devel-x86_64",
      "r": "4.7.0",
      "check": "ERROR",
      "artifact": "13085978813"
    },
    {
      "job": 124870717394,
      "time": 166,
      "config": "windows-oldrel-x86_64",
      "r": "4.5.3",
      "check": "ERROR",
      "artifact": "13086434295"
    },
    {
      "job": 124870717392,
      "time": 163,
      "config": "windows-release-x86_64",
      "r": "4.6.2",
      "check": "ERROR",
      "artifact": "13085604550"
    }
  ],
  "_bioccheck": {
    "error": 1,
    "warning": 1,
    "note": 7
  },
  "_buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179",
  "_commit": {
    "id": "596d363d1650e7750c49fd32d1c027f5e843d94b",
    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "committer": "A Wokaty <andres.wokaty@sph.cuny.edu>",
    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
    "time": 1777381176
  },
  "_distro": "resolute",
  "_host": "GitHub-Actions",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.2.0",
      "role": "Depends"
    },
    {
      "package": "Spectra",
      "version": ">= 1.19.8",
      "role": "Depends"
    },
    {
      "package": "BiocParallel",
      "role": "Imports"
    },
    {
      "package": "S4Vectors",
      "role": "Imports"
    },
    {
      "package": "methods",
      "role": "Imports"
    },
    {
      "package": "ProtGenerics",
      "version": ">= 1.35.3",
      "role": "Imports"
    },
    {
      "package": "DBI",
      "role": "Imports"
    },
    {
      "package": "MsCoreUtils",
      "role": "Imports"
    },
    {
      "package": "IRanges",
      "role": "Imports"
    },
    {
      "package": "data.table",
      "role": "Imports"
    },
    {
      "package": "progress",
      "role": "Imports"
    },
    {
      "package": "stringi",
      "role": "Imports"
    },
    {
      "package": "fastmatch",
      "role": "Imports"
    },
    {
      "package": "BiocGenerics",
      "role": "Imports"
    },
    {
      "package": "testthat",
      "role": "Suggests"
    },
    {
      "package": "knitr",
      "version": ">= 1.1.0",
      "role": "Suggests"
    },
    {
      "package": "roxygen2",
      "role": "Suggests"
    },
    {
      "package": "BiocStyle",
      "version": ">= 2.5.19",
      "role": "Suggests"
    },
    {
      "package": "RSQLite",
      "role": "Suggests"
    },
    {
      "package": "MsDataHub",
      "role": "Suggests"
    },
    {
      "package": "rmarkdown",
      "role": "Suggests"
    },
    {
      "package": "microbenchmark",
      "role": "Suggests"
    },
    {
      "package": "mzR",
      "role": "Suggests"
    }
  ],
  "_owner": "bioc",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-45",
      "n": 2
    },
    {
      "week": "2025-49",
      "n": 1
    },
    {
      "week": "2026-06",
      "n": 1
    },
    {
      "week": "2026-18",
      "n": 2
    }
  ],
  "_tags": [],
  "_bioc": [
    {
      "branch": "devel",
      "version": "1.13.0",
      "bioc": "3.24",
      "repository": "bioc"
    },
    {
      "branch": "release",
      "version": "1.12.0",
      "bioc": "3.23",
      "repository": "bioc"
    }
  ],
  "_topics": [
    "infrastructure",
    "massspectrometry",
    "metabolomics",
    "dataimport",
    "proteomics"
  ],
  "_stars": 4,
  "_contributors": [
    {
      "user": "jorainer",
      "count": 133,
      "uuid": 5506112
    },
    {
      "user": "jwokaty",
      "count": 12,
      "uuid": 1744257
    }
  ],
  "_userbio": {
    "uuid": 2286807,
    "type": "organization",
    "name": "Bioconductor",
    "followers": 482,
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
  },
  "_downloads": {
    "count": 478,
    "source": "https://www.bioconductor.org/packages/stats/bioc/MsBackendSql"
  },
  "_devurl": "https://github.com/rformassspectrometry/msbackendsql",
  "_searchresults": 40,
  "_abi": {
    "exports": [
      {
        "key": "MsBackendSql::DBIConnectionOrNULL",
        "hash": "03f3ccb5fa7de36a"
      },
      {
        "key": "MsBackendSql::DBIDriverOrNULL",
        "hash": "2b104033688df370"
      },
      {
        "key": "MsBackendSql::MsBackendOfflineSql",
        "hash": "39bd4cd3d8ba7e23"
      },
      {
        "key": "MsBackendSql::MsBackendSql",
        "hash": "95ebb505bb7276f1"
      }
    ],
    "imports": [
      {
        "key": "BiocGenerics::generic:dbconn",
        "hash": "d11436b189efe324"
      },
      {
        "key": "BiocGenerics::generic:longForm",
        "hash": "643bc954f7786374"
      },
      {
        "key": "ProtGenerics::generic:backendBpparam",
        "hash": "42e79fb5d98efa40"
      },
      {
        "key": "ProtGenerics::generic:backendInitialize",
        "hash": "bfc89c8a6990d0ce"
      },
      {
        "key": "ProtGenerics::generic:backendMerge",
        "hash": "9b20d104bd93dd10"
      },
      {
        "key": "ProtGenerics::generic:centroided",
        "hash": "79b9a0ecc40b23f4"
      },
      {
        "key": "ProtGenerics::generic:dataStorage",
        "hash": "e0f310d99253bf4a"
      },
      {
        "key": "ProtGenerics::generic:extractByIndex",
        "hash": "4a6240668bd8e916"
      },
      {
        "key": "ProtGenerics::generic:filterDataOrigin",
        "hash": "2d927fe15f62893c"
      },
      {
        "key": "ProtGenerics::generic:filterMsLevel",
        "hash": "4410856c23dbeebe"
      },
      {
        "key": "ProtGenerics::generic:filterPrecursorMzRange",
        "hash": "1e9d7d9d671f3d12"
      },
      {
        "key": "ProtGenerics::generic:filterPrecursorMzValues",
        "hash": "43ac596172b08239"
      },
      {
        "key": "ProtGenerics::generic:filterRt",
        "hash": "603144ddd4ccf402"
      },
      {
        "key": "ProtGenerics::generic:intensity",
        "hash": "5490d2abccdf9667"
      },
      {
        "key": "ProtGenerics::generic:intensity<-",
        "hash": "a9f9f16ede19ff8c"
      },
      {
        "key": "ProtGenerics::generic:mz",
        "hash": "f925d5e4c0c571d3"
      },
      {
        "key": "ProtGenerics::generic:mz<-",
        "hash": "9d17a2894d528a92"
      },
      {
        "key": "ProtGenerics::generic:peaksData",
        "hash": "e49026384cce82a1"
      },
      {
        "key": "ProtGenerics::generic:peaksVariables",
        "hash": "fa8a37a534eac553"
      },
      {
        "key": "ProtGenerics::generic:precScanNum",
        "hash": "cbbcda6646054469"
      },
      {
        "key": "ProtGenerics::generic:setBackend",
        "hash": "d76b08666632924b"
      },
      {
        "key": "ProtGenerics::generic:smoothed",
        "hash": "75b29ef25b9cf515"
      },
      {
        "key": "ProtGenerics::generic:spectraData",
        "hash": "9309e875845317bf"
      },
      {
        "key": "ProtGenerics::generic:spectraNames",
        "hash": "88f2b2fdf194b967"
      },
      {
        "key": "ProtGenerics::generic:spectraNames<-",
        "hash": "8567acfcabfa13de"
      },
      {
        "key": "ProtGenerics::generic:supportsSetBackend",
        "hash": "9773c362aac0070c"
      },
      {
        "key": "ProtGenerics::generic:tic",
        "hash": "7e0ee9e3414c182d"
      },
      {
        "key": "ProtGenerics::generic:uniqueMsLevels",
        "hash": "7d6eb4823a51123f"
      },
      {
        "key": "Spectra::MsBackend",
        "hash": "f0934da3d81a3802"
      },
      {
        "key": "Spectra::MsBackendCached",
        "hash": "6ec80a5eba03c577"
      },
      {
        "key": "Spectra::generic:reset",
        "hash": "e436f5bf29f95a59"
      }
    ]
  },
  "_rbuild": "4.6.2",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/manual.pdf",
    "extra/MsBackendSql.html",
    "extra/readme.html",
    "extra/readme.md"
  ],
  "_homeurl": "https://github.com/rformassspectrometry/msbackendsql",
  "_realowner": "bioc",
  "_cranurl": false,
  "_exports": [
    "backendInitialize",
    "backendMerge",
    "centroided",
    "createMsBackendSqlDatabase",
    "dataStorage",
    "extractByIndex",
    "filterDataOrigin",
    "filterMsLevel",
    "filterPrecursorMzRange",
    "filterPrecursorMzValues",
    "filterRt",
    "intensity",
    "intensity<-",
    "longForm",
    "MsBackendOfflineSql",
    "MsBackendSql",
    "mz",
    "mz<-",
    "peaksData",
    "peaksVariables",
    "precScanNum",
    "reset",
    "show",
    "smoothed",
    "spectraData",
    "spectraNames",
    "spectraNames<-",
    "supportsSetBackend",
    "tic",
    "uniqueMsLevels"
  ],
  "_help": [
    {
      "page": "MsBackendOfflineSql",
      "title": "SQL-based MS backend without active database connection",
      "topics": [
        "backendInitialize,MsBackendOfflineSql-method",
        "MsBackendOfflineSql",
        "MsBackendOfflineSql-class"
      ]
    },
    {
      "page": "MsBackendSql",
      "title": "'Spectra' MS backend storing data in a SQL database",
      "topics": [
        "$<-,MsBackendSql-method",
        "backendBpparam,MsBackendSql-method",
        "backendInitialize,MsBackendSql-method",
        "backendMerge,MsBackendOfflineSql-method",
        "backendMerge,MsBackendSql-method",
        "centroided,MsBackendSql-method",
        "createMsBackendSqlDatabase",
        "dataStorage,MsBackendOfflineSql-method",
        "dataStorage,MsBackendSql-method",
        "dbconn,MsBackendOfflineSql-method",
        "dbconn,MsBackendSql-method",
        "extractByIndex,MsBackendSql,ANY-method",
        "filterDataOrigin,MsBackendOfflineSql-method",
        "filterDataOrigin,MsBackendSql-method",
        "filterMsLevel,MsBackendOfflineSql-method",
        "filterMsLevel,MsBackendSql-method",
        "filterPrecursorMzRange,MsBackendOfflineSql-method",
        "filterPrecursorMzRange,MsBackendSql-method",
        "filterPrecursorMzValues,MsBackendOfflineSql-method",
        "filterPrecursorMzValues,MsBackendSql-method",
        "filterRt,MsBackendOfflineSql-method",
        "filterRt,MsBackendSql-method",
        "intensity,MsBackendOfflineSql-method",
        "intensity,MsBackendSql-method",
        "intensity<-,MsBackendSql-method",
        "longForm,MsBackendOfflineSql-method",
        "longForm,MsBackendSql-method",
        "MsBackendSql",
        "MsBackendSql-class",
        "mz,MsBackendOfflineSql-method",
        "mz,MsBackendSql-method",
        "mz<-,MsBackendSql-method",
        "peaksData,MsBackendOfflineSql-method",
        "peaksData,MsBackendSql-method",
        "peaksVariables,MsBackendOfflineSql-method",
        "peaksVariables,MsBackendSql-method",
        "precScanNum,MsBackendSql-method",
        "reset,MsBackendOfflineSql-method",
        "reset,MsBackendSql-method",
        "show,MsBackendOfflineSql-method",
        "show,MsBackendSql-method",
        "smoothed,MsBackendSql-method",
        "spectraData,MsBackendOfflineSql-method",
        "spectraData,MsBackendSql-method",
        "spectraNames,MsBackendSql-method",
        "spectraNames<-,MsBackendSql-method",
        "supportsSetBackend,MsBackendOfflineSql-method",
        "supportsSetBackend,MsBackendSql-method",
        "tic,MsBackendOfflineSql-method",
        "tic,MsBackendSql-method",
        "uniqueMsLevels,MsBackendOfflineSql-method",
        "uniqueMsLevels,MsBackendSql-method",
        "[,MsBackendSql-method"
      ]
    }
  ],
  "_pkglogo": "https://github.com/bioc/MsBackendSql/raw/HEAD/logo.png",
  "_readme": "https://github.com/bioc/MsBackendSql/raw/HEAD/README.md",
  "_rundeps": [
    "BH",
    "BiocGenerics",
    "BiocParallel",
    "cli",
    "clue",
    "cluster",
    "codetools",
    "cpp11",
    "crayon",
    "data.table",
    "DBI",
    "fastmatch",
    "formatR",
    "fs",
    "futile.logger",
    "futile.options",
    "generics",
    "glue",
    "hms",
    "IRanges",
    "lambda.r",
    "lifecycle",
    "MASS",
    "MetaboCoreUtils",
    "MsCoreUtils",
    "pkgconfig",
    "prettyunits",
    "progress",
    "ProtGenerics",
    "R6",
    "Rcpp",
    "rlang",
    "S4Vectors",
    "snow",
    "Spectra",
    "stringi",
    "vctrs"
  ],
  "_score": 4.505149978319906,
  "_indexed": true,
  "_nocasepkg": "msbackendsql",
  "_universes": [
    "bioc",
    "jorainer",
    "rformassspectrometry"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "1.13.0",
      "date": "2026-11-01T14:27:12.000Z",
      "distro": "resolute",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/96f0fd81951e6f0c42f44f7f78d773ebd11e24fa4d5792152f05dac1acc6b854",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    },
    {
      "r": "4.6.2",
      "os": "linux",
      "version": "1.13.0",
      "date": "2026-11-01T14:27:07.000Z",
      "distro": "resolute",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/708cb49cf978f0b9f66862b9a1c9375119a23642fd973354917fc2f94d53afc7",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "1.13.0",
      "date": "2026-11-01T16:37:48.000Z",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/b89caa450f114b378b8e2c6bb060b533686891c54baba25898a47f323330d97a",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    },
    {
      "r": "4.6.2",
      "os": "mac",
      "version": "1.13.0",
      "date": "2026-11-01T16:37:12.000Z",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/dcc2244737fa1ec9939302889895a6e6ba4f3ffb5c7eca4ce58d33f8d802d7cc",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "1.13.0",
      "date": "2026-11-01T14:25:41.000Z",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/90d1d07c06e1c64bce2413e8a67e1b0b0034e6b1991e5ee321521bc3620e1a3e",
      "status": "success",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "1.13.0",
      "date": "2026-11-01T14:04:21.000Z",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/5db09136030424fceb2ee91fe3bd40bc48ed28693259aed6066e3e0754e90f43",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "1.13.0",
      "date": "2026-11-01T14:04:22.000Z",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/c101e9a0a0dbda846402cca4a9c2856f2cec9c2a44f91f89484f11b425d2ad6f",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    },
    {
      "r": "4.6.2",
      "os": "win",
      "version": "1.13.0",
      "date": "2026-11-01T14:04:19.000Z",
      "commit": "596d363d1650e7750c49fd32d1c027f5e843d94b",
      "fileid": "https://r2.ropensci.org/a5022d5afc50e62b5e5814804a5434acdba746f254ff0e57fb43babf0e7f20c5",
      "status": "failure",
      "check": "ERROR",
      "buildurl": "https://github.com/r-universe/bioc/actions/runs/41310267179"
    }
  ]
}