{
  "_id": "6a213075cd65a98ecbd24cde",
  "Package": "mpb",
  "Title": "Management Procedures",
  "Version": "3.5.0",
  "Date": "2020-05-26",
  "Authors@R": "person(given = \"Laurence\", family = \"Kell\", role = c(\"aut\", \"cre\"), \nemail = \"laurie@seaplusplus.co.uk\")",
  "Maintainer": "Laurence Kell <laurie@seaplusplus.co.uk>",
  "Description": "mpb is an R package for running and simulation testing\nbiomass based stock assessment models.",
  "VignetteBuilder": "knitr",
  "License": "GPL-2",
  "Collate": "generics.R biodyn-fit.R aspic-fit.R biodyn-class.R biodyns.R\naspic-class.R aspics.R aspic-biodyns.R biodyn-control.R\nbiodyn-methods.R FLQuantJKs.R hrate.R biodyn-accessors.R\naspic-accessors.R aspic-readU.R aspic-io.R aspic-index.R\nbiodyn-admb.R biodyn-F.R biodyn-constructors.R aspic-setIndex.R\nbiodyn-coerce.R aspic-control.R aspic-constructors.R\naspic-coerce.R biodyn-fwd.R biodyn-fwdWindow.R\nbiodyn-setParams.R aspic-plot.R biodyn-msy.R aspic-refpts.R\nbiodyn-profile.R aspic-profile.R FLBRP-production.R objFn.R\nbiodyn-xval.R biodyn-rand.R biodyn-jackSummary.R biodyn-boot.R\nbiodyn-sim.R biodyn-feasible.R biodyn-kobe.R biodyn-nll.R\nbiodyn-profile-Cpp.R biodyn-plot.R biodyn-func.R\nbiodyn-rebuild.R pellat.R iRate.R lk-methods.R lk-mfcl.R\nmng-methods.R plural2iters.R resample.R rjm-series.R\nbiodyn-mse.R biodyn-jack.R biodyn-mvn.R data.R econ-ee.R r2b.R\nrwalk.R aspic-xval.R weighted.var.se.R biodyn-FLBRP2biodyn.R\nplotIndex.R msy.R biodyn-hcr.R nmc.R FLStock-hcr.R\nbiodyn-statusErr.R doc.R hcr.R pellam.R setMP.R biodyn-sra.R\nscale.R jabba-coerce.R spict.R jabbaBuild.R getBiodyn.R\njabba-com.R biodyn-FLPar.R jabba-coerce2.R",
  "LazyLoad": "Yes",
  "LazyData": "Yes",
  "Encoding": "UTF-8",
  "RoxygenNote": "7.3.1",
  "Config/pak/sysreqs": "libicu-dev",
  "Repository": "https://flr.r-universe.dev",
  "Date/Publication": "2025-07-07 14:32:38 UTC",
  "RemoteUrl": "https://github.com/lauriekell/mpb",
  "RemoteRef": "HEAD",
  "RemoteSha": "ac6deac65c4586704ca9f578ca8cb736c1087331",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-06-04 07:54:54 UTC",
    "User": "root"
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  "Author": "Laurence Kell [aut, cre]",
  "MD5sum": "2f40cf6d539503dfb5da4de40e0cd924",
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  "_exports": [
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    "aspics",
    "biodyn",
    "bmsy",
    "boot",
    "chkIters",
    "control",
    "control<-",
    "controlFn",
    "diags",
    "diagsFn",
    "fapexAge",
    "feasible",
    "fit",
    "fmsy",
    "fnProfile",
    "fwd",
    "harvest",
    "hcr",
    "hcrParam",
    "hrate",
    "is.aspic",
    "is.biodyn",
    "jk",
    "K",
    "kobe",
    "mfclGrw",
    "mixnorm",
    "mseBiodyn",
    "msy",
    "mvn",
    "nll",
    "nmcFn",
    "p",
    "plot",
    "plotCcf",
    "plotEql",
    "plotHcr",
    "plotIndex",
    "plotIndexResidual",
    "plotJack",
    "plotMSEfn",
    "plotProduction",
    "production",
    "profileFn",
    "randFn",
    "randJackFn",
    "readAspic",
    "refpts",
    "refptSD",
    "resample",
    "setControl<-",
    "setMP",
    "setParams<-",
    "sim",
    "tac",
    "timeSeries",
    "writeAspic",
    "xval"
  ],
  "_datasets": [
    {
      "name": "object",
      "title": "",
      "object": "jabba",
      "class": [
        "list"
      ],
      "fields": [],
      "table": false,
      "tojson": true
    },
    {
      "name": "swon",
      "title": "",
      "object": "swon",
      "class": [
        "biodyn"
      ],
      "fields": [],
      "table": false,
      "tojson": false
    }
  ],
  "_help": [
    {
      "page": "alkMFCL",
      "title": "Returns length age data from Multifan-CL as a list with four data frames",
      "topics": [
        "alkMFCL"
      ]
    },
    {
      "page": "as",
      "title": "as(\"biodyn\", \"FLStock\")",
      "concept": [
        "biodyn"
      ],
      "topics": [
        "as"
      ]
    },
    {
      "page": "aspicConstructors",
      "title": "aspic constructor",
      "topics": [
        "aspic",
        "aspic,ANY,ANY-method",
        "aspic,ANY-method",
        "aspic,character-method",
        "aspic,data.frame-method",
        "aspic,missing-method",
        "aspic-method"
      ]
    },
    {
      "page": "aspicClass",
      "title": "ASPIC Biomass Dynamic Model Class",
      "topics": [
        "aspic,biodyn,FLQuant-method",
        "aspic,biodyn,FLQuants,FLQuant-method",
        "aspic,biodyn,FLQuants-method",
        "aspic,character,missing,FLQuant-method",
        "aspic,character,missing-method",
        "aspic,data.frame,missing,FLQuant-method",
        "aspic,data.frame,missing-method",
        "aspic,FLQuant-method",
        "aspic,FLStock,missing-method",
        "aspic,missing,missing,FLQuant-method",
        "aspic,missing,missing-method",
        "aspic-class",
        "catch,aspic-method",
        "catch<-"
      ]
    },
    {
      "page": "aspicsConstructors",
      "title": "aspics",
      "topics": [
        "aspics",
        "aspics,ANY-method",
        "aspics,aspic-method",
        "aspics,character-method",
        "aspics,list-method",
        "aspics,missing-method",
        "aspics-method",
        "aspics-methods"
      ]
    },
    {
      "page": "aspics-class",
      "title": "aspics a class that contains a list of ASPIC biomass dynamic stock assessment model classes",
      "topics": [
        "aspics-class"
      ]
    },
    {
      "page": "biodynConstructors",
      "title": "biodyn constructor",
      "topics": [
        "biodyn"
      ]
    },
    {
      "page": "biodynClass",
      "title": "biodyn class",
      "topics": [
        "biodyn,character,FLPar-method",
        "biodyn,character,missing-method",
        "biodyn,factor,FLPar-method",
        "biodyn,factor,missing-method",
        "biodyn,FLQuant,FLPar-method",
        "biodyn,FLQuant,missing-method",
        "biodyn,FLStock,FLPar-method",
        "biodyn,FLStock,missing-method",
        "biodyn,missing,FLPar-method",
        "biodyn,missing,missing-method",
        "biodyn-class"
      ]
    },
    {
      "page": "biodyn-FLPar-missing-method",
      "title": "Create biodyn Object from FLPar Parameters",
      "topics": [
        "biodyn,FLPar,missing-method"
      ]
    },
    {
      "page": "biodyns-biodyn-method",
      "title": "biodyns creates a list of biodyn objects",
      "topics": [
        "biodyns,biodyn-method"
      ]
    },
    {
      "page": "aspic-fit",
      "title": "fit",
      "topics": [
        "boot",
        "fit,aspic,missing-method"
      ]
    },
    {
      "page": "boot",
      "title": "boot, Bootstraps biodyn.",
      "topics": [
        "boot,aspic-method",
        "boot,aspics-method",
        "boot,biodyn-method",
        "boot-method"
      ]
    },
    {
      "page": "control-biodyn-method",
      "title": "control",
      "topics": [
        "control,biodyn-method"
      ]
    },
    {
      "page": "biodynAccessors",
      "title": "control<-",
      "topics": [
        "control<-,biodyn,FLPar-method"
      ]
    },
    {
      "page": "controlFn",
      "title": "controlFn",
      "topics": [
        "controlFn"
      ]
    },
    {
      "page": "params",
      "title": "params",
      "topics": [
        "diags",
        "setParams<-,aspic,data.frame-method",
        "setParams<-,biodyn,data.frame-method",
        "setParams<-,biodyn,FLPar-method",
        "setParams<-,biodyn,FLQuant-method",
        "setParams<-,biodyn,FLQuants-method"
      ]
    },
    {
      "page": "biodyn-fit",
      "title": "fit",
      "topics": [
        "diagsFn",
        "fit,aspics,missing-method",
        "fit,biodyn,FLQuantJK-method",
        "fit,biodyn,FLQuantJKs-method",
        "fit,FLPar,FLQuant-method"
      ]
    },
    {
      "page": "timeSeries1",
      "title": "mng",
      "topics": [
        "aspic,missing",
        "biodyn,missing",
        "fapexAge",
        "timeSeries",
        "timeSeries,aspic,missing-method",
        "timeSeries,biodyn,missing-method",
        "timeSeries,FLStock,FLBRP-method",
        "timeSeries,FLStocks,FLBRP-method",
        "timeSeries,FLStocks,FLBRPs-method",
        "timeSeries-method"
      ]
    },
    {
      "page": "feasible",
      "title": "feasible",
      "topics": [
        "feasible",
        "feasible,biodyn,missing-method",
        "feasible,data.frame,FLQuant-method",
        "feasible,FLPar,FLQuant-method"
      ]
    },
    {
      "page": "fit",
      "title": "fit",
      "topics": [
        "fit",
        "fit,aspic-method",
        "fit,aspics-method",
        "fit,biodyn,FLQuant-method",
        "fit,biodyn,FLQuants-method"
      ]
    },
    {
      "page": "fitPella",
      "title": "-mcmc 100000 -mcsave 100'",
      "topics": [
        "fitPella"
      ]
    },
    {
      "page": "FLQuantJKs",
      "title": "Class FLQuantJKs",
      "topics": [
        "FLQuantJKs",
        "FLQuantJKs,ANY-method",
        "FLQuantJKs,FLQuantJKs-method",
        "FLQuantJKs,list-method",
        "FLQuantJKs,missing-method",
        "FLQuantJKs-class",
        "FLQuantJKs-methods"
      ]
    },
    {
      "page": "fnProfile",
      "title": "fnProfile",
      "topics": [
        "fnProfile"
      ]
    },
    {
      "page": "fwd",
      "title": "fwd",
      "topics": [
        "fwd,biodyn,FLQuants,missing",
        "fwd,biodyn,FLQuants-method",
        "fwd,biodyn,missing,missing",
        "fwd,biodyn,missing,missing-method",
        "fwd,biodyn,missing-method",
        "fwd,FLPar,missing,missing",
        "fwd,FLPar,missing-method",
        "fwd-method"
      ]
    },
    {
      "page": "harvest",
      "title": "harvest",
      "topics": [
        "harvest",
        "harvest,aspic-method",
        "harvest,biodyn,missing-method",
        "harvest,biodyn-method"
      ]
    },
    {
      "page": "hcr",
      "title": "hcr",
      "topics": [
        "hcr,biodyn,FLPar-method",
        "hcr,biodyn-method",
        "hcr,FLStock,FLBRP-method"
      ]
    },
    {
      "page": "hcrParam",
      "title": "hcrParam",
      "topics": [
        "hcrParam"
      ]
    },
    {
      "page": "hrate",
      "title": "hrate",
      "topics": [
        "hrate",
        "hrate,aspic-method",
        "hrate,biodyn-method"
      ]
    },
    {
      "page": "is.aspic",
      "title": "is.aspic",
      "topics": [
        "is.aspic"
      ]
    },
    {
      "page": "is.biodyn",
      "title": "is.biodyn",
      "topics": [
        "is.biodyn"
      ]
    },
    {
      "page": "jk",
      "title": "jk",
      "topics": [
        "chkIters",
        "jk",
        "jk,aspic-method",
        "jk,biodyn,FLQuant-method",
        "jk,biodyn,FLQuants-method"
      ]
    },
    {
      "page": "K",
      "title": "Carrying capacity",
      "topics": [
        "K"
      ]
    },
    {
      "page": "kobe",
      "title": "kobe",
      "topics": [
        "kobe",
        "kobe,biodyn,missing-method",
        "kobe,biodyns,ANY-method",
        "kobe,biodyns,missing-method"
      ]
    },
    {
      "page": "mfclGrw",
      "title": "Returns von Bertalannfy growth parameters from Multifan-CL",
      "topics": [
        "mfclGrw"
      ]
    },
    {
      "page": "methodsMixnorm",
      "title": "mixnorm",
      "topics": [
        "mixnorm"
      ]
    },
    {
      "page": "runMSE",
      "title": "mseBiodyn",
      "topics": [
        "mse",
        "mseBiodyn"
      ]
    },
    {
      "page": "mvn",
      "title": "mvn",
      "topics": [
        "mvn"
      ]
    },
    {
      "page": "nll",
      "title": "nll",
      "topics": [
        "nll,biodyn,FLQuant,missing-method",
        "nll,biodyn,FLQuants,missing-method",
        "nll,FLQuant,FLQuant,FLPar-method",
        "nll,FLQuant,FLQuants,FLPar-method"
      ]
    },
    {
      "page": "nmc",
      "title": "nmc",
      "topics": [
        "nmcFn"
      ]
    },
    {
      "page": "om",
      "title": "om",
      "topics": [
        "om"
      ]
    },
    {
      "page": "plot",
      "title": "plot",
      "topics": [
        "plot,aspics,missing",
        "plot,biodyn,missing-method",
        "plot,biodyns,missing-method",
        "plotCcf,biodyns,missing-method",
        "plotCcf,FLQuants-method",
        "plotEql,biodyn,FLQuant",
        "plotIndex,biodyn"
      ]
    },
    {
      "page": "plotEql",
      "title": "plotEql",
      "topics": [
        "plotEql,biodyn,missing-method"
      ]
    },
    {
      "page": "plotHcr",
      "title": "plotHcr",
      "topics": [
        "plotHcr,biodyn-method",
        "plotHcr-method"
      ]
    },
    {
      "page": "plotIndex",
      "title": "plotIndex",
      "topics": [
        "plotIndex,aspic,missing-method",
        "plotIndex,biodyn,missing-method",
        "plotIndex,FLQuants,missing-method",
        "plotIndex,FLQuants-method"
      ]
    },
    {
      "page": "plotIndexResidual",
      "title": "plotIndexResidual",
      "topics": [
        "plotIndexResidual,aspic,missing-method",
        "plotIndexResidual,biodyn,missing-method",
        "plotIndexResidual,FLQuants,missing-method",
        "plotIndexResidual,FLQuants-method"
      ]
    },
    {
      "page": "plotJack",
      "title": "plotJack",
      "topics": [
        "plotJack"
      ]
    },
    {
      "page": "plotMSE",
      "title": "plotMSE",
      "topics": [
        "harvest'=catch(om)/stock(om)%/%(brp@refpts['msy','yield']/brp@refpts['msy','biomass']),",
        "plotMSE,biodyn,FLStock,FLBRP-method",
        "plotMSEfn"
      ]
    },
    {
      "page": "plotProduction",
      "title": "plot aspics,missing plotIndex aspic plotIndex aspics",
      "topics": [
        "plotProduction",
        "plotProduction,biodyn,FLBRP-method",
        "plotProduction,biodyn,FLQuant-method",
        "plotProduction,biodyn,missing-method",
        "plotProduction,biodyns,missing-method"
      ]
    },
    {
      "page": "production",
      "title": "production",
      "topics": [
        "production,biodyn,FLQuant",
        "production,biodyn-method",
        "production,FLStock,missing",
        "productionFn"
      ]
    },
    {
      "page": "profile",
      "title": "profile",
      "topics": [
        "profileFn"
      ]
    },
    {
      "page": "rand",
      "title": "rand",
      "topics": [
        "numeric,biodyn,biodyn-method",
        "numeric,FLPar,FLPar-method",
        "numeric,FLQuant,FLQuant-method",
        "rand,",
        "rand,numeric,biodyn,biodyn-method",
        "rand,numeric,biodyn-method",
        "rand,numeric,FLPar,FLPar-method",
        "rand,numeric,FLQuant,FLQuant-method",
        "rand-method",
        "randFn"
      ]
    },
    {
      "page": "randJack",
      "title": "randJack",
      "topics": [
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        "randJack,numeric,biodyn-method",
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