{
  "_id": "6a101ae1acfb0bcc41c86c36",
  "Package": "fioRa",
  "Title": "Mass-Spectra Prediction Using the FIORA Model",
  "Version": "0.3.16",
  "Date": "2026-04-14",
  "Authors@R": "person(\"Jan\", \"Lisec\", , \"jan.lisec@bam.de\", role = c(\"aut\", \"cre\"))",
  "Description": "Provides a wrapper for the python module 'FIORA' as well\nas a 'shiny'-App to facilitate data processing and\nvisualization. 'FIORA' allows to predict Mass-Spectra based on\nthe SMILES code of chemical compounds. It is described in the\nNature Communications article by Nowatzky (2025)\n<doi:10.1038/s41467-025-57422-4>.",
  "License": "MIT + file LICENSE",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.3.3",
  "URL": "https://github.com/janlisec/fioRa",
  "BugReports": "https://github.com/janlisec/fioRa/issues",
  "Config/testthat/edition": "3",
  "Language": "en-US",
  "LazyData": "true",
  "Config/pak/sysreqs": "cmake make default-jdk libpng-dev libuv1-dev\nzlib1g-dev",
  "Repository": "https://janlisec.r-universe.dev",
  "Date/Publication": "2026-04-14 17:27:43 UTC",
  "RemoteUrl": "https://github.com/janlisec/fiora",
  "RemoteRef": "HEAD",
  "RemoteSha": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-14 09:29:25 UTC",
    "User": "root"
  },
  "Author": "Jan Lisec [aut, cre]",
  "Maintainer": "Jan Lisec <jan.lisec@bam.de>",
  "MD5sum": "89c9aee8cd7495724799e3ea7d0ef4aa",
  "_user": "janlisec",
  "_type": "src",
  "_file": "fioRa_0.3.16.tar.gz",
  "_fileid": "6ecbf77982eeea01e4c2d96822eae8a0515149d1fbcafb4dc21c3ca90679c6ec",
  "_filesize": 253640,
  "_sha256": "6ecbf77982eeea01e4c2d96822eae8a0515149d1fbcafb4dc21c3ca90679c6ec",
  "_created": "2026-05-14T09:29:25.000Z",
  "_published": "2026-05-22T08:59:13.775Z",
  "_distro": "noble",
  "_jobs": [
    {
      "job": 77348219784,
      "time": 188,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6991396556"
    },
    {
      "job": 77348219564,
      "time": 180,
      "config": "linux-release-x86_64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6991396084"
    },
    {
      "job": 77348219800,
      "time": 113,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6991375427"
    },
    {
      "job": 77348219878,
      "time": 110,
      "config": "macos-release-arm64",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6991374709"
    },
    {
      "job": 77348219192,
      "time": 197,
      "config": "source",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6991343652"
    },
    {
      "job": 77348219145,
      "time": 133,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "7156705906"
    },
    {
      "job": 77348219566,
      "time": 206,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "OK",
      "artifact": "6991401472"
    },
    {
      "job": 77348219911,
      "time": 181,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "OK",
      "artifact": "6991394883"
    },
    {
      "job": 77348219620,
      "time": 163,
      "config": "windows-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "6991389255"
    }
  ],
  "_buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984",
  "_status": "success",
  "_host": "GitHub-Actions",
  "_upstream": "https://github.com/janlisec/fiora",
  "_commit": {
    "id": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
    "author": "janlisec <jan.lisec@bam.de>",
    "committer": "janlisec <jan.lisec@bam.de>",
    "message": "v0.3.16\n",
    "time": 1776187663
  },
  "_maintainer": {
    "name": "Jan Lisec",
    "email": "jan.lisec@bam.de",
    "login": "janlisec",
    "uuid": 91542594
  },
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 4.1.0",
      "role": "Depends"
    },
    {
      "package": "bslib",
      "role": "Imports"
    },
    {
      "package": "config",
      "role": "Imports"
    },
    {
      "package": "golem",
      "role": "Imports"
    },
    {
      "package": "InterpretMSSpectrum",
      "version": ">= 1.5.3",
      "role": "Imports"
    },
    {
      "package": "rcdk",
      "role": "Imports"
    },
    {
      "package": "shiny",
      "role": "Imports"
    },
    {
      "package": "shinyjs",
      "role": "Imports"
    },
    {
      "package": "waiter",
      "role": "Imports"
    },
    {
      "package": "reticulate",
      "role": "Suggests"
    },
    {
      "package": "S4Vectors",
      "role": "Suggests"
    },
    {
      "package": "Spectra",
      "role": "Suggests"
    },
    {
      "package": "spelling",
      "role": "Suggests"
    },
    {
      "package": "testthat",
      "version": ">= 3.0.0",
      "role": "Suggests"
    },
    {
      "package": "vdiffr",
      "role": "Suggests"
    },
    {
      "package": "withr",
      "role": "Suggests"
    }
  ],
  "_owner": "janlisec",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
    {
      "week": "2025-25",
      "n": 7
    },
    {
      "week": "2025-26",
      "n": 12
    },
    {
      "week": "2025-43",
      "n": 3
    },
    {
      "week": "2025-44",
      "n": 9
    },
    {
      "week": "2025-45",
      "n": 2
    },
    {
      "week": "2025-46",
      "n": 1
    },
    {
      "week": "2025-51",
      "n": 10
    },
    {
      "week": "2026-02",
      "n": 1
    },
    {
      "week": "2026-04",
      "n": 2
    },
    {
      "week": "2026-05",
      "n": 2
    },
    {
      "week": "2026-14",
      "n": 7
    },
    {
      "week": "2026-15",
      "n": 2
    },
    {
      "week": "2026-16",
      "n": 1
    }
  ],
  "_tags": [],
  "_stars": 2,
  "_contributors": [
    {
      "user": "janlisec",
      "count": 67,
      "uuid": 91542594
    }
  ],
  "_userbio": {
    "uuid": 91542594,
    "type": "user",
    "name": "JaLi"
  },
  "_downloads": {
    "count": 158,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/fioRa"
  },
  "_devurl": "https://github.com/janlisec/fiora",
  "_searchresults": 0,
  "_topics": [
    "openjdk"
  ],
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/fioRa.html",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/janlisec/fiora",
  "_realowner": "janlisec",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.3.4",
      "date": "2025-11-11"
    },
    {
      "version": "0.3.7",
      "date": "2026-01-23"
    }
  ],
  "_exports": [
    "install_fiora",
    "plot_spec",
    "read_fiora",
    "run_app",
    "run_script"
  ],
  "_datasets": [
    {
      "name": "test_data",
      "title": "The example set of test compounds provided with FIORA.",
      "object": "test_data",
      "class": [
        "character"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "install_fiora",
      "title": "Install the python module `fiora` into a conda environment.",
      "topics": [
        "install_fiora"
      ]
    },
    {
      "page": "plot_spec",
      "title": "Plot MS^2 spectrum.",
      "topics": [
        "plot_spec"
      ]
    },
    {
      "page": "read_fiora",
      "title": "Read a fiora result file (mgf) into a R object.",
      "topics": [
        "read_fiora"
      ]
    },
    {
      "page": "run_app",
      "title": "Run the Shiny Application.",
      "topics": [
        "run_app"
      ]
    },
    {
      "page": "run_script",
      "title": "Predict MS^2 fragment spectra from SMILES code.",
      "topics": [
        "run_script"
      ]
    },
    {
      "page": "test_data",
      "title": "The example set of test compounds provided with FIORA.",
      "topics": [
        "test_data"
      ]
    }
  ],
  "_readme": "https://github.com/janlisec/fiora/raw/HEAD/README.md",
  "_rundeps": [
    "attempt",
    "base64enc",
    "bslib",
    "cachem",
    "cli",
    "commonmark",
    "config",
    "digest",
    "enviPat",
    "fastmap",
    "fingerprint",
    "fontawesome",
    "fs",
    "glue",
    "golem",
    "here",
    "htmltools",
    "httpuv",
    "InterpretMSSpectrum",
    "iterators",
    "itertools",
    "jquerylib",
    "jsonlite",
    "later",
    "lifecycle",
    "magrittr",
    "memoise",
    "mime",
    "otel",
    "plyr",
    "png",
    "promises",
    "R6",
    "rappdirs",
    "rcdk",
    "rcdklibs",
    "Rcpp",
    "rJava",
    "rlang",
    "rprojroot",
    "sass",
    "shiny",
    "shinyjs",
    "sourcetools",
    "waiter",
    "withr",
    "xtable",
    "yaml"
  ],
  "_sysdeps": [
    {
      "shlib": "libjvm",
      "package": "openjdk-21-jre-headless",
      "headers": "openjdk-21-jre-headless",
      "source": "openjdk",
      "version": "21.0.10+7-1~24.04",
      "name": "openjdk",
      "homepage": "https://openjdk.java.net/",
      "description": "OpenJDK Java runtime, using Hotspot JIT (headless)"
    }
  ],
  "_score": 4.113943352306837,
  "_indexed": true,
  "_nocasepkg": "fiora",
  "_universes": [
    "janlisec"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "0.3.16",
      "date": "2026-05-14T09:32:04.000Z",
      "distro": "noble",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "15eb12f93ee302a3e432f74f89927ae83d100f80a6a170909534fc845afb832f",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    },
    {
      "r": "4.6.0",
      "os": "linux",
      "version": "0.3.16",
      "date": "2026-05-14T09:32:02.000Z",
      "distro": "noble",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "80c4deccfb0db209c9e3b873d1e64d070f761ca689432eb8d5a12542fe84ee15",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "0.3.16",
      "date": "2026-05-14T09:31:00.000Z",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "cdff8b2de7dee79b1bcd7e3c54ece9475a6f71b91712768ffdc0ed7f8cf1b863",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    },
    {
      "r": "4.6.0",
      "os": "mac",
      "version": "0.3.16",
      "date": "2026-05-14T09:31:02.000Z",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "191d0e9cfd6ffcd757f6cf32fd54b058719cd5b23bbcc476a53f7a7c26eb9366",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "0.3.16",
      "date": "2026-05-14T09:31:30.000Z",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "604c07dcb21a54a6863613099eabb990468eaba667f90a9ce4c74ff2b731f5a0",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "0.3.16",
      "date": "2026-05-14T09:30:54.000Z",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "9b8c8dd1921891168ca49ff28a845a7ed2a78aa4b542b1914b718d468db63c92",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    },
    {
      "r": "4.6.0",
      "os": "win",
      "version": "0.3.16",
      "date": "2026-05-14T09:30:52.000Z",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "c7ecac1f657ff68fda460a3a7ecd34a6023dee93329549273af5bd1dae98c2d4",
      "status": "success",
      "check": "OK",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "0.3.16",
      "date": "2026-05-22T08:58:49.000Z",
      "commit": "da7321e27606e10cfe7203fcfef45cb0d137f6e7",
      "fileid": "c5ad446134c4b0736d2f547d5509dcb4efda6101385ad71d806e365de84eaa93",
      "status": "success",
      "buildurl": "https://github.com/r-universe/janlisec/actions/runs/25852515984"
    }
  ]
}