{
  "_id": "6a588054ff0138dec5d744ff",
  "Package": "ROptimus",
  "Title": "A Parallel General-Purpose Adaptive Optimisation Engine",
  "Version": "3.0.0",
  "Authors@R": "c(\nperson(\"Nicholas Andre G.\", \"Johnson\", email = \"nagj@mit.edu\", role = \"aut\"),\nperson(\"Liezel\", \"Tamon\", email = \"lizheltamon@gmail.com\", role = \"aut\"),\nperson(\"Xin\", \"Liu\", email = \"xin.liu.bio@gmail.com\", role = \"aut\"),\nperson(\"Aleksandr B.\", \"Sahakyan\", email = \"sahakyanlab@cantab.net\", role = c(\"aut\", \"cre\")))",
  "Description": "A general-purpose optimisation engine that supports i)\nMonte Carlo optimisation with Metropolis criterion [Metropolis\net al. (1953) <doi:10.1063/1.1699114>, Hastings (1970)\n<doi:10.1093/biomet/57.1.97>] and Acceptance Ratio Simulated\nAnnealing [Kirkpatrick et al. (1983)\n<doi:10.1126/science.220.4598.671>, Černý (1985)\n<doi:10.1007/BF00940812>] on multiple cores, and ii) Acceptance\nRatio Replica Exchange Monte Carlo Optimisation. In each case,\nthe system pseudo-temperature is dynamically adjusted such that\nthe observed acceptance ratio is kept near to the desired\n(fixed or changing) acceptance ratio.",
  "License": "GPL (>= 3)",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.2.3",
  "LazyData": "true",
  "URL": "https://github.com/SahakyanLab/ROptimus",
  "NeedsCompilation": "no",
  "Repository": "https://sahakyanlab.r-universe.dev",
  "Date/Publication": "2023-02-02 15:17:33 UTC",
  "RemoteUrl": "https://github.com/sahakyanlab/roptimus",
  "RemoteRef": "HEAD",
  "RemoteSha": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
  "Packaged": {
    "Date": "2026-07-16 06:52:02 UTC",
    "User": "root"
  },
  "Author": "Nicholas Andre G. Johnson [aut],\nLiezel Tamon [aut],\nXin Liu [aut],\nAleksandr B. Sahakyan [aut, cre]",
  "Maintainer": "Aleksandr B. Sahakyan <sahakyanlab@cantab.net>",
  "_user": "sahakyanlab",
  "_type": "src",
  "_file": "ROptimus_3.0.0.tar.gz",
  "_fileid": "https://r2.ropensci.org/47ec7413061caa5923a5f0f2e56b400ec597935209df6f7a0b2341068f5fd220",
  "_filesize": 37139227,
  "_sha256": "47ec7413061caa5923a5f0f2e56b400ec597935209df6f7a0b2341068f5fd220",
  "_expires": "2026-10-24T06:55:10.000Z",
  "_created": "2026-07-16T06:52:02.000Z",
  "_published": "2026-07-16T06:55:16.051Z",
  "_jobs": [
    {
      "job": 87555224453,
      "time": 112,
      "config": "linux-devel-x86_64",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "8367358473"
    },
    {
      "job": 87555224434,
      "time": 114,
      "config": "linux-release-x86_64",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "8367359071"
    },
    {
      "job": 87555224432,
      "time": 140,
      "config": "macos-oldrel-arm64",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "8367358505"
    },
    {
      "job": 87555224469,
      "time": 126,
      "config": "macos-release-arm64",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "8367354941"
    },
    {
      "job": 87554659642,
      "time": 202,
      "config": "source",
      "r": "4.6.1",
      "check": "OK",
      "artifact": "8367317926"
    },
    {
      "job": 87555224447,
      "time": 112,
      "config": "wasm-release",
      "r": "4.6.0",
      "check": "OK",
      "artifact": "8367358211"
    },
    {
      "job": 87555224445,
      "time": 65,
      "config": "windows-devel",
      "r": "4.7.0",
      "check": "WARNING",
      "artifact": "8367341713"
    },
    {
      "job": 87555224487,
      "time": 68,
      "config": "windows-oldrel",
      "r": "4.5.3",
      "check": "WARNING",
      "artifact": "8367342455"
    },
    {
      "job": 87555224470,
      "time": 71,
      "config": "windows-release",
      "r": "4.6.1",
      "check": "WARNING",
      "artifact": "8367343711"
    }
  ],
  "_host": "GitHub-Actions",
  "_buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369",
  "_status": "success",
  "_upstream": "https://github.com/sahakyanlab/roptimus",
  "_commit": {
    "id": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
    "author": "Liezel Tamon <lizheltamon@gmail.com>",
    "committer": "Liezel Tamon <lizheltamon@gmail.com>",
    "message": "update\n",
    "time": 1675351053
  },
  "_maintainer": {
    "name": "Aleksandr B. Sahakyan",
    "email": "sahakyanlab@cantab.net"
  },
  "_distro": "resolute",
  "_registered": true,
  "_dependencies": [
    {
      "package": "R",
      "version": ">= 3.1.0",
      "role": "Depends"
    },
    {
      "package": "doParallel",
      "version": ">= 1.0.11",
      "role": "Imports"
    },
    {
      "package": "foreach",
      "version": ">= 1.4.4",
      "role": "Imports"
    },
    {
      "package": "iterators",
      "version": ">= 1.0.9",
      "role": "Imports"
    },
    {
      "package": "parallel",
      "version": ">= 3.4.2",
      "role": "Imports"
    }
  ],
  "_owner": "sahakyanlab",
  "_selfowned": true,
  "_usedby": 0,
  "_updates": [],
  "_tags": [],
  "_topics": [
    "optimisation",
    "parallel"
  ],
  "_stars": 4,
  "_contributors": [
    {
      "user": "nicholasjohnson2020",
      "count": 77,
      "uuid": 35481278
    },
    {
      "user": "liezeltamon",
      "count": 47,
      "uuid": 45236685
    },
    {
      "user": "aleksahak",
      "count": 26,
      "uuid": 1277923
    },
    {
      "user": "xinliu-bio",
      "count": 11,
      "uuid": 56167181
    }
  ],
  "_userbio": {
    "uuid": 40893390,
    "type": "organization",
    "name": "SahakyanLab",
    "followers": 5,
    "description": "Integrative Computational Biology and Machine Learning Laboratory, University of Oxford"
  },
  "_downloads": {
    "count": 212,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/ROptimus"
  },
  "_devurl": "https://github.com/sahakyanlab/roptimus",
  "_searchresults": 2,
  "_rbuild": "4.6.1",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/readme.html",
    "extra/readme.md",
    "extra/ROptimus.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/sahakyanlab/roptimus",
  "_realowner": "sahakyanlab",
  "_cranurl": true,
  "_releases": [
    {
      "version": "3.0.0",
      "date": "2023-01-14"
    }
  ],
  "_exports": [
    "Optimus",
    "OptimusExamples"
  ],
  "_datasets": [
    {
      "name": "ex.m.fun",
      "title": "Tutorial 5 m() function",
      "object": "ex.m.fun",
      "class": [
        "function"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "ex.r.fun",
      "title": "Tutorial 5 r() function",
      "object": "ex.r.fun",
      "class": [
        "function"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "ex.u.fun",
      "title": "Tutorial 5 u() function",
      "object": "ex.u.fun",
      "class": [
        "function"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "IJ_ORIG",
      "title": "Tutorial 5 Genomic Contact Data",
      "object": "IJ_ORIG",
      "class": [
        "data.frame"
      ],
      "fields": [
        "i",
        "j"
      ],
      "rows": 734,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "ex.m.fun",
      "title": "Tutorial 5 m() function",
      "topics": [
        "ex.m.fun"
      ]
    },
    {
      "page": "ex.r.fun",
      "title": "Tutorial 5 r() function",
      "topics": [
        "ex.r.fun"
      ]
    },
    {
      "page": "ex.u.fun",
      "title": "Tutorial 5 u() function",
      "topics": [
        "ex.u.fun"
      ]
    },
    {
      "page": "IJ_ORIG",
      "title": "Tutorial 5 Genomic Contact Data",
      "topics": [
        "IJ_ORIG"
      ]
    },
    {
      "page": "Optimus",
      "title": "Acceptance Ratio Simulated Annealing and Acceptance Ratio Replica Exchange Monte Carlo Optimisation Engine",
      "topics": [
        "Optimus"
      ]
    },
    {
      "page": "OptimusExamples",
      "title": "Generate script for reproducing a tutorial",
      "topics": [
        "OptimusExamples"
      ]
    }
  ],
  "_readme": "https://github.com/sahakyanlab/roptimus/raw/HEAD/README.md",
  "_rundeps": [
    "codetools",
    "doParallel",
    "foreach",
    "iterators"
  ],
  "_score": 3.778151250383644,
  "_indexed": true,
  "_nocasepkg": "roptimus",
  "_universes": [
    "sahakyanlab"
  ],
  "_binaries": [
    {
      "r": "4.7.0",
      "os": "linux",
      "version": "3.0.0",
      "date": "2026-07-16T06:54:00.000Z",
      "distro": "resolute",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/291b39da7799ce6df5b0045db1743fe947a82c5c386d265b27a3616abf1d079f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    },
    {
      "r": "4.6.1",
      "os": "linux",
      "version": "3.0.0",
      "date": "2026-07-16T06:54:02.000Z",
      "distro": "resolute",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/f8beb1df7a5ae291cddabadc2467828e957e8bf6ccb22c6f5b294f41ee6ab0f0",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    },
    {
      "r": "4.5.3",
      "os": "mac",
      "version": "3.0.0",
      "date": "2026-07-16T06:54:04.000Z",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/0f3236327fc5dc1b896369c79ef7f83155bb519b0ec8875beaa3ee7f10a9ac46",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    },
    {
      "r": "4.6.1",
      "os": "mac",
      "version": "3.0.0",
      "date": "2026-07-16T06:53:55.000Z",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/2502046acd318978542596aabff7c2698ec86c29cc4191807555241f3a4408f3",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    },
    {
      "r": "4.6.0",
      "os": "wasm",
      "version": "3.0.0",
      "date": "2026-07-16T06:54:11.000Z",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/e5b64c3254de4ca9ffb8fed4cc607da36bd3bc23959959a4492a9fd5cb33aefc",
      "status": "success",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    },
    {
      "r": "4.7.0",
      "os": "win",
      "version": "3.0.0",
      "date": "2026-07-16T06:53:08.000Z",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/692e685f1730812993ff65d6232b9be55c5bd146fbdc930afd5d52cb004dc9ff",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    },
    {
      "r": "4.5.3",
      "os": "win",
      "version": "3.0.0",
      "date": "2026-07-16T06:53:13.000Z",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/883e7aa0130bfbd1008bacd886216943bd4e2925f0be7f51b45ad01e60a36dda",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    },
    {
      "r": "4.6.1",
      "os": "win",
      "version": "3.0.0",
      "date": "2026-07-16T06:53:15.000Z",
      "commit": "d1f24ef6610c850b3dc024d344216a43f1d84fdb",
      "fileid": "https://r2.ropensci.org/dd9aaddb4da2cefeaea68928c7d30b748d33f1275adf696f0cbcf261741c023f",
      "status": "success",
      "check": "WARNING",
      "buildurl": "https://github.com/r-universe/sahakyanlab/actions/runs/29477837369"
    }
  ]
}