{ "_id": "6acf67b0e2d863f662951b73", "Package": "MsBackendMongoDb", "Title": "NoSQL-based Mass Spectrometry Data Backend", "Version": "0.97.4", "Authors@R": "c(person(given = \"Ahlam\", family = \"Mentag\",\nemail = \"ahlammentag8@gmail.com\",\ncomment = c(ORCID = \"0009-0008-5438-7067\"),\nrole = \"aut\"),\nperson(given = \"Johannes\", family = \"Rainer\",\nemail = \"Johannes.Rainer@eurac.edu\",\nrole = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-6977-7147\")))", "Description": "Mass spectrometry (MS) data backend for data storage in\nNoSQL MongoDB dagabases. Objects from this package expand the\ndata storage and handling infrastructure of the Spectra\nBioconductor package. This package adds support to store and\nretrieve MS data from MongoDB databases.", "License": "GPL-3", "Encoding": "UTF-8", "VignetteBuilder": "knitr", "BugReports": "https://github.com/RforMassSpectrometry/MsBackendMongoDb/issues", "URL": "https://github.com/RforMassSpectrometry/MsBackendMongoDb", "biocViews": "Infrastructure, MassSpectrometry, Metabolomics, DataImport,\nProteomics", "Roxygen": "list(markdown=TRUE)", "SystemRequirements": "mongodb", "Config/roxygen2/version": "8.0.0", "Config/pak/sysreqs": "cmake make libuv1-dev libssl-dev libsasl2-dev", "Repository": "https://rformassspectrometry.r-universe.dev", "Date/Publication": "2026-07-03 06:38:36 UTC", "RemoteUrl": "https://github.com/rformassspectrometry/msbackendmongodb", "RemoteRef": "HEAD", "RemoteSha": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "NeedsCompilation": "no", "Packaged": { "Date": "2026-10-14 11:25:19 UTC", "User": "root" }, "Author": "Ahlam Mentag [aut] (ORCID: ),\nJohannes Rainer [aut, cre] (ORCID:\n)", "Maintainer": "Johannes Rainer ", "_user": "rformassspectrometry", "_type": "src", "_file": "MsBackendMongoDb_0.97.4.tar.gz", "_fileid": "https://r2.ropensci.org/c54eda572221bb24652945d08a3471d00e316475d9c4a3f0289f58829c57c219", "_filesize": 116961, "_sha256": "c54eda572221bb24652945d08a3471d00e316475d9c4a3f0289f58829c57c219", "_expires": "2027-01-22T11:29:50.000Z", "_created": "2026-10-14T11:25:19.000Z", "_published": "2026-10-14T11:29:52.440Z", "_buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609", "_status": "failure", "_host": "GitHub-Actions", "_jobs": [ { "job": 115826829030, "time": 167, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "11888949257" }, { "job": 115826828895, "time": 229, "config": "linux-release-x86_64", "r": "4.6.1", "check": "ERROR", "artifact": "11890263209" }, { "job": 115826828737, "time": 105, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "11890472824" }, { "job": 115826828758, "time": 151, "config": "macos-release-arm64", "r": "4.6.1", "check": "ERROR", "artifact": "11890013107" }, { "job": 115825341545, "time": 221, "config": "source", "r": "4.6.1", "check": "ERROR", "artifact": "11890412460" }, { "job": 115826828792, "time": 136, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "11890477671" }, { "job": 115826828871, "time": 159, "config": "windows-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "11890572768" }, { "job": 115826829171, "time": 145, "config": "windows-oldrel-x86_64", "r": "4.5.3", "check": "ERROR", "artifact": "11890382809" }, { "job": 115826829085, "time": 105, "config": "windows-release-x86_64", "r": "4.6.1", "check": "ERROR", "artifact": "11889134046" } ], "_upstream": "https://github.com/rformassspectrometry/msbackendmongodb", "_commit": { "id": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "author": "Johannes Rainer ", "committer": "Johannes Rainer ", "message": "refactor: add mongodb as system requirement and complete examples\n\n- Add functions to start and stop a local MongoDB to use it for examples and\n vignettes.\n- Complete examples.\n", "time": 1783060716 }, "_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", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.5.0", "role": "Depends" }, { "package": "Spectra", "version": ">= 1.19.8", "role": "Depends" }, { "package": "jsonlite", "role": "Imports" }, { "package": "mongolite", "role": "Imports" }, { "package": "S4Vectors", "role": "Imports" }, { "package": "MsCoreUtils", "role": "Imports" }, { "package": "ProtGenerics", "role": "Imports" }, { "package": "IRanges", "role": "Imports" }, { "package": "fastmatch", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "DBI", "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": "rmarkdown", "role": "Suggests" }, { "package": "MsDataHub", "role": "Suggests" }, { "package": "mzR", "role": "Suggests" } ], "_owner": "rformassspectrometry", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-49", "n": 1 }, { "week": "2025-52", "n": 4 }, { "week": "2026-02", "n": 1 }, { "week": "2026-27", "n": 2 } ], "_tags": [], "_topics": [ "infrastructure", "massspectrometry", "metabolomics", "dataimport", "proteomics" ], "_stars": 0, "_contributors": [ { "user": "jorainer", "count": 39, "uuid": 5506112 }, { "user": "ahlammentag", "count": 10, "uuid": 105757304 } ], "_userbio": { "uuid": 51361942, "type": "organization", "name": "RforMassSpectrometry", "followers": 106, "description": "R packages for mass spectrometry" }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/MsBackendMongoDb" }, "_devurl": "https://github.com/rformassspectrometry/msbackendmongodb", "_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/MsBackendMongoDb.html", "extra/readme.html", "extra/readme.md" ], "_cranurl": false, "_exports": [ "backendInitialize", "connectMsBackendMongoDb", "dataStorage", "extractByIndex", "intensity", "intensity<-", "MsBackendMongoDb", "mz", "mz<-", "peaksData", "peaksVariables", "reset", "show", "spectraData", "spectraNames", "spectraNames<-", "start_mongodb", "stop_mongodb", "supportsSetBackend" ], "_help": [ { "page": "connectMsBackendMongoDb", "title": "Create a connection to MongoDb", "topics": [ "connectMsBackendMongoDb" ] }, { "page": "MsBackendMongoDb", "title": "'Spectra' MS backend storing data in a MongoDb database", "topics": [ "backendInitialize,MsBackendMongoDb-method", "dataStorage,MsBackendMongoDb-method", "extractByIndex,MsBackendMongoDb,ANY-method", "extractByIndex,MsBackendMongoDb-method", "intensity,MsBackendMongoDb-method", "intensity<-,MsBackendMongoDb-method", "MsBackendMongoDb", "MsBackendMongoDb-class", "mz,MsBackendMongoDb-method", "mz<-,MsBackendMongoDb-method", "peaksData,MsBackendMongoDb-method", "peaksVariables,MsBackendMongoDb-method", "reset,MsBackendMongoDb-method", "show,MsBackendMongoDb-method", "spectraData,MsBackendMongoDb-method", "spectraNames,MsBackendMongoDb-method", "spectraNames<-,MsBackendMongoDb-method", "supportsSetBackend,MsBackendMongoDb-method", "[,MsBackendMongoDb-method" ] }, { "page": "start_mongodb", "title": "Start and stop MongoDB instances", "topics": [ "start_mongodb", "stop_mongodb" ] } ], "_readme": "https://github.com/rformassspectrometry/msbackendmongodb/raw/HEAD/README.md", "_rundeps": [ "askpass", "BH", "BiocGenerics", "BiocParallel", "clue", "cluster", "codetools", "cpp11", "data.table", "DBI", "fastmatch", "formatR", "fs", "futile.logger", "futile.options", "generics", "IRanges", "jsonlite", "lambda.r", "MASS", "MetaboCoreUtils", "mime", "mongolite", "MsCoreUtils", "openssl", "ProtGenerics", "Rcpp", "S4Vectors", "snow", "Spectra", "sys" ], "_score": 2.3010299956639813, "_indexed": true, "_nocasepkg": "msbackendmongodb", "_universes": [ "rformassspectrometry", "jorainer" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.97.4", "date": "2026-10-14T11:27:42.000Z", "distro": "resolute", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/9131f7c217fcec90c4325b20aa4c718919fb45c07a983eb807d615c87134fac0", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" }, { "r": "4.6.1", "os": "linux", "version": "0.97.4", "date": "2026-10-14T11:28:36.000Z", "distro": "resolute", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/ab5014e215a04c8c827f9ce6bc2b8b5a037f8f6ca3b08933c475c29d4b1f8b4f", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" }, { "r": "4.5.3", "os": "mac", "version": "0.97.4", "date": "2026-10-14T11:26:56.000Z", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/bce36a302c7908635e0ba537238ceb886363ee5a72c9e0ac6da92b2f296f57f9", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" }, { "r": "4.6.1", "os": "mac", "version": "0.97.4", "date": "2026-10-14T11:27:24.000Z", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/d6942bee8776545721ea4431b7d091e84b885735e5f7b113ea1cdcf9774d40c1", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" }, { "r": "4.6.0", "os": "wasm", "version": "0.97.4", "date": "2026-10-14T11:27:53.000Z", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/a9cfe204dfda8f80c121d19efe09ef02cd432ada586bf1aad1e4305feb28f0eb", "status": "success", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" }, { "r": "4.7.0", "os": "win", "version": "0.97.4", "date": "2026-10-14T11:27:14.000Z", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/b166c73f9c979f1b1e3ec403c0c1222b557faca5f392af0adc8ac4e102a5395d", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" }, { "r": "4.5.3", "os": "win", "version": "0.97.4", "date": "2026-10-14T11:27:02.000Z", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/4ef373a0877db0207d4ddb1d8f4c65629546d68998c72c4908ac9e7137681606", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" }, { "r": "4.6.1", "os": "win", "version": "0.97.4", "date": "2026-10-14T11:26:39.000Z", "commit": "bde4f4a8fb7aa2bf6ec2ef83f098261cfdca53cb", "fileid": "https://r2.ropensci.org/8b10e41c3fece5a88484cef024c63ab7868a61b8d748fd0ebb1dc5256bf53021", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/rformassspectrometry/actions/runs/38556009609" } ] }