{
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  "Package": "nonmemica",
  "Type": "Package",
  "Title": "Create and Evaluate NONMEM Models in a Project Context",
  "Version": "1.1.8",
  "Authors@R": "person(given = \"Tim\",\nfamily = \"Bergsma\",\nrole = c(\"aut\", \"cre\"),\nemail = \"bergsmat@gmail.com\")",
  "Maintainer": "Tim Bergsma <bergsmat@gmail.com>",
  "Description": "Systematically creates and modifies NONMEM(R) control\nstreams. Harvests NONMEM output, builds run logs, creates\nderivative data, generates diagnostics. NONMEM (ICON\nDevelopment Solutions <https://www.iconplc.com/>) is software\nfor nonlinear mixed effects modeling. See 'package?nonmemica'.",
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  "VignetteBuilder": "knitr",
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  "Repository": "https://bergsmat.r-universe.dev",
  "Date/Publication": "2026-06-03 01:39:14 UTC",
  "RemoteUrl": "https://github.com/bergsmat/nonmemica",
  "RemoteRef": "HEAD",
  "RemoteSha": "6c51d09abed187934cf5e92d2b21f8ac72c5bc73",
  "NeedsCompilation": "no",
  "Packaged": {
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    "User": "root"
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  "Author": "Tim Bergsma [aut, cre]",
  "MD5sum": "b78dc91e77dd679f715cce1de8979f80",
  "_user": "bergsmat",
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      "role": "Suggests"
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  "_stars": 5,
  "_contributors": [
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    "type": "user",
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    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/nonmemica"
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  "_rbuild": "4.6.0",
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    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/nonmemica.html",
    "manual.pdf"
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  "_homeurl": "https://github.com/bergsmat/nonmemica",
  "_realowner": "bergsmat",
  "_cranurl": true,
  "_releases": [
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  ],
  "_exports": [
    "%contains%",
    "as_nms_canonical",
    "as_nms_nonmem",
    "as_nms_pmx",
    "as_nms_psn",
    "as.best",
    "as.bootstrap",
    "as.halfmatrix",
    "as.init",
    "as.inits",
    "as.items",
    "as.matrices",
    "as.model",
    "as.omega",
    "as.problem",
    "as.sigma",
    "as.tab",
    "as.theta",
    "as.xml_document",
    "bakfor",
    "but",
    "comments",
    "comwidth",
    "comwidthOne",
    "datafile",
    "definitions",
    "depends",
    "enclose",
    "errors",
    "estimates",
    "filter_estimation",
    "fixed",
    "fixed<-",
    "forbak",
    "generalize",
    "half",
    "ignored",
    "initDex",
    "initial",
    "initial<-",
    "initSubscripts",
    "is.defined",
    "is.square",
    "like",
    "likebut",
    "locf",
    "lower",
    "lower<-",
    "maxWidths",
    "meta",
    "metasuperset",
    "modeldir",
    "modelfile",
    "modelpath",
    "ninput",
    "nms_canonical",
    "nms_nonmem",
    "nms_pmx",
    "nms_psn",
    "nocb",
    "num_parameters",
    "offdiag",
    "ord",
    "padded",
    "parameters",
    "parens",
    "partab",
    "pool",
    "prettycom",
    "problem",
    "problem_",
    "psn_nested",
    "psn_options",
    "read.model",
    "readxml",
    "row_col",
    "runhead",
    "runlog",
    "safe_join",
    "shuffle",
    "specfile",
    "superset",
    "superspec",
    "tad",
    "text2decimal",
    "tod",
    "tweak",
    "updated",
    "upper",
    "upper<-",
    "val_name",
    "write.model",
    "xpath"
  ],
  "_datasets": [
    {
      "name": "tad1",
      "title": "A NONMEM-like Dataset",
      "object": "tad1",
      "class": [
        "data.frame"
      ],
      "fields": [
        "C",
        "ID",
        "TIME",
        "EVID",
        "CMT",
        "AMT",
        "RATE",
        "ADDL",
        "II",
        "DV"
      ],
      "rows": 51,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "absolute",
      "title": "Check if File Path is Absolute",
      "topics": [
        "absolute"
      ]
    },
    {
      "page": "as_nms_canonical",
      "title": "Coerce to 'nms_canonical'",
      "concept": [
        "nms"
      ],
      "topics": [
        "as_nms_canonical"
      ]
    },
    {
      "page": "as_nms_nonmem",
      "title": "Coerce to 'nms_nonmem'",
      "concept": [
        "nms"
      ],
      "topics": [
        "as_nms_nonmem"
      ]
    },
    {
      "page": "as_nms_pmx",
      "title": "Coerce to 'nms_pmx'",
      "concept": [
        "nms"
      ],
      "topics": [
        "as_nms_pmx"
      ]
    },
    {
      "page": "as_nms_psn",
      "title": "Coerce to 'nms_psn'",
      "concept": [
        "nms"
      ],
      "topics": [
        "as_nms_psn"
      ]
    },
    {
      "page": "as.best.default",
      "title": "Convert Vector to Best of Numeric or Character",
      "concept": [
        "util"
      ],
      "topics": [
        "as.best.default"
      ]
    },
    {
      "page": "as.bootstrap.bootstrap",
      "title": "Create Bootstrap from Bootstrap",
      "concept": [
        "as.bootstrap"
      ],
      "topics": [
        "as.bootstrap.bootstrap"
      ]
    },
    {
      "page": "as.halfmatrix.default",
      "title": "Coerce to Half Matrix by Default",
      "concept": [
        "halfmatrix"
      ],
      "topics": [
        "as.halfmatrix.default"
      ]
    },
    {
      "page": "as.init.init",
      "title": "Coerce init to init",
      "concept": [
        "as.init"
      ],
      "topics": [
        "as.init.init"
      ]
    },
    {
      "page": "as.inits.list",
      "title": "Coerce list to inits",
      "concept": [
        "as.inits"
      ],
      "topics": [
        "as.inits.list"
      ]
    },
    {
      "page": "as.matrix.halfmatrix",
      "title": "Coerce Half Matrix to Matrix",
      "concept": [
        "halfmatrix"
      ],
      "topics": [
        "as.matrix.halfmatrix"
      ]
    },
    {
      "page": "as.model.character",
      "title": "Coerce character to model",
      "concept": [
        "as.model"
      ],
      "topics": [
        "as.model.character"
      ]
    },
    {
      "page": "as.xml_document",
      "title": "Create an xml_document in a Project Context",
      "concept": [
        "xpath"
      ],
      "topics": [
        "as.xml_document",
        "as.xml_document.xml_document"
      ]
    },
    {
      "page": "as.xml_document.character",
      "title": "Create xml_document From Character",
      "concept": [
        "xpath"
      ],
      "topics": [
        "as.xml_document.character"
      ]
    },
    {
      "page": "comments.inits",
      "title": "Extract Comments from Inits",
      "concept": [
        "comments"
      ],
      "topics": [
        "comments.inits"
      ]
    },
    {
      "page": "comments.items",
      "title": "Extract Comments from Items",
      "concept": [
        "comments"
      ],
      "topics": [
        "comments.items"
      ]
    },
    {
      "page": "comments.model",
      "title": "Extract Comments from Model",
      "concept": [
        "comments"
      ],
      "topics": [
        "comments.model"
      ]
    },
    {
      "page": "contains",
      "title": "Check Whether Text Contains Pattern",
      "topics": [
        "contains"
      ]
    },
    {
      "page": "datafile.character",
      "title": "Identify the Datafile for a Model",
      "concept": [
        "path"
      ],
      "topics": [
        "datafile.character"
      ]
    },
    {
      "page": "definitions",
      "title": "Harvest Model Item Definitions",
      "concept": [
        "definitions"
      ],
      "topics": [
        "definitions",
        "definitions.character"
      ]
    },
    {
      "page": "definitions.definitions",
      "title": "Create Model Item Definitions from definitions",
      "concept": [
        "definitions"
      ],
      "topics": [
        "definitions.definitions"
      ]
    },
    {
      "page": "depends.default",
      "title": "Identify Model Dependencies",
      "concept": [
        "depends"
      ],
      "topics": [
        "depends.default"
      ]
    },
    {
      "page": "errors.character",
      "title": "Get Errors for Character",
      "concept": [
        "errors"
      ],
      "topics": [
        "errors.character"
      ]
    },
    {
      "page": "estimates.character",
      "title": "Get Estimates for Character",
      "concept": [
        "estimates"
      ],
      "topics": [
        "estimates.character"
      ]
    },
    {
      "page": "filter_estimation",
      "title": "Filter XML for Relevant Estimation Step",
      "concept": [
        "xpath"
      ],
      "topics": [
        "filter_estimation"
      ]
    },
    {
      "page": "fixed.init",
      "title": "Check if init is fixed",
      "concept": [
        "fixed"
      ],
      "topics": [
        "fixed.init"
      ]
    },
    {
      "page": "fixed.model",
      "title": "Check If Model is Fixed",
      "concept": [
        "fixed"
      ],
      "topics": [
        "fixed.model"
      ]
    },
    {
      "page": "generalize",
      "title": "Generalize a Nonmissing Value",
      "concept": [
        "superset"
      ],
      "topics": [
        "generalize"
      ]
    },
    {
      "page": "ignored",
      "title": "Extract Index for Ignored Records",
      "concept": [
        "superset"
      ],
      "topics": [
        "ignored"
      ]
    },
    {
      "page": "initial.model",
      "title": "Get Model Initial Estimates",
      "concept": [
        "initial"
      ],
      "topics": [
        "initial.model"
      ]
    },
    {
      "page": "initial-set-.model",
      "title": "Set Upper Bounds for Model Initial Estimates",
      "concept": [
        "initial"
      ],
      "topics": [
        "initial<-.model"
      ]
    },
    {
      "page": "likebut",
      "title": "Modify a Model",
      "concept": [
        "likebut"
      ],
      "topics": [
        "likebut"
      ]
    },
    {
      "page": "lower.model",
      "title": "Get Lower Bounds for Model Initial Estimates",
      "concept": [
        "lower"
      ],
      "topics": [
        "lower.model"
      ]
    },
    {
      "page": "lower-set-.model",
      "title": "Set Lower Bounds for Model Initial Estimates",
      "concept": [
        "lower"
      ],
      "topics": [
        "lower<-.model"
      ]
    },
    {
      "page": "meta.character",
      "title": "Get Metadata for Character",
      "concept": [
        "superset"
      ],
      "topics": [
        "meta.character"
      ]
    },
    {
      "page": "metaplot_character",
      "title": "Metaplot Character, Standard Evaluation",
      "concept": [
        "superset"
      ],
      "topics": [
        "metaplot_character"
      ]
    },
    {
      "page": "metaplot.character",
      "title": "Metaplot Character",
      "concept": [
        "superset"
      ],
      "topics": [
        "metaplot.character"
      ]
    },
    {
      "page": "metasuperset",
      "title": "Retrieve Model Outputs with Metadata",
      "concept": [
        "superset"
      ],
      "topics": [
        "metasuperset"
      ]
    },
    {
      "page": "modeldir",
      "title": "Identify the Directory for a Model",
      "concept": [
        "path"
      ],
      "topics": [
        "modeldir"
      ]
    },
    {
      "page": "modelfile",
      "title": "Identify the Modelfile for a Model",
      "concept": [
        "path"
      ],
      "topics": [
        "modelfile"
      ]
    },
    {
      "page": "modelpath",
      "title": "Resolve A Path to a Model-related File",
      "concept": [
        "path"
      ],
      "topics": [
        "modelpath"
      ]
    },
    {
      "page": "modelpath.character",
      "title": "Resolve A Path to a Model-related File for Character",
      "concept": [
        "path"
      ],
      "topics": [
        "modelpath.character"
      ]
    },
    {
      "page": "ninput",
      "title": "Calculate Number of Inputs",
      "concept": [
        "superset"
      ],
      "topics": [
        "ninput"
      ]
    },
    {
      "page": "ninput.character",
      "title": "Calculate Number of Inputs for Character",
      "concept": [
        "superset"
      ],
      "topics": [
        "ninput.character"
      ]
    },
    {
      "page": "ninput.numeric",
      "title": "Calculate Number of Inputs for Numeric",
      "concept": [
        "superset"
      ],
      "topics": [
        "ninput.numeric"
      ]
    },
    {
      "page": "nms_canonical.character",
      "title": "Generate Canonical Names for Character",
      "concept": [
        "nms"
      ],
      "topics": [
        "nms_canonical.character"
      ]
    },
    {
      "page": "nms_canonical.model",
      "title": "Generate Canonical Names for Model",
      "concept": [
        "nms"
      ],
      "topics": [
        "nms_canonical.model"
      ]
    },
    {
      "page": "nms_canonical.nms_nonmem",
      "title": "Convert NONMEM Parameter Names to Canonical",
      "concept": [
        "nms"
      ],
      "topics": [
        "nms_canonical.nms_nonmem"
      ]
    },
    {
      "page": "nms_nonmem.character",
      "title": "Generate NONMEM Names for Character",
      "concept": [
        "nms"
      ],
      "topics": [
        "nms_nonmem.character"
      ]
    },
    {
      "page": "nms_nonmem.model",
      "title": "Generate NONMEM Names for Model",
      "concept": [
        "nms"
      ],
      "topics": [
        "nms_nonmem.model"
      ]
    },
    {
      "page": "nms_nonmem.nms_canonical",
      "title": "Convert Canonical Parameter Names to NONMEM",
      "concept": [
        "nms"
      ],
      "topics": [
        "nms_nonmem.nms_canonical"
      ]
    },
    {
      "page": "nms_nonmem.nms_pmx",
      "title": "Convert pmxTools Names to NONMEM",
      "concept": [
        "nm",
        "nms"
      ],
      "topics": [
        "nms_nonmem.nms_pmx"
      ]
    },
    {
      "page": "nms_pmx.nms_canonical",
      "title": "Convert Canonical Names to pmxTools",
      "concept": [
        "nms"
      ],
      "topics": [
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    },
    {
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      "topics": [
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    },
    {
      "page": "offdiag.halfmatrix",
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      "concept": [
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      ],
      "topics": [
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    },
    {
      "page": "parameters.character",
      "title": "Get Parameters for Character",
      "concept": [
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      "topics": [
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    },
    {
      "page": "partab",
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      "topics": [
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    },
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      "page": "partab.character",
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    },
    {
      "page": "problem.character",
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    },
    {
      "page": "psn_nested",
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    },
    {
      "page": "psn_options",
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    {
      "page": "readxml",
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    },
    {
      "page": "relativizePath",
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      "topics": [
        "relativizePath"
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    },
    {
      "page": "resolve",
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      "topics": [
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    {
      "page": "rosetta",
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    },
    {
      "page": "runlog.character",
      "title": "Create a Runlog for Character",
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      ],
      "topics": [
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    },
    {
      "page": "safe_join",
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      "topics": [
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    },
    {
      "page": "safe_join.data.frame",
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    },
    {
      "page": "shuffle",
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    },
    {
      "page": "specfile.character",
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    },
    {
      "page": "superset.character",
      "title": "Coerce to Superset from Character",
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    },
    {
      "page": "superspec",
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    },
    {
      "page": "superspec.character",
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      "concept": [
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      "topics": [
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    },
    {
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      "concept": [
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    },
    {
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    },
    {
      "page": "tweak.default",
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    },
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    },
    {
      "page": "updated.character",
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    },
    {
      "page": "upper.model",
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    },
    {
      "page": "upper-set-.model",
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    {
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    },
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  "_vignettes": [
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      "source": "parameter-table.Rmd",
      "filename": "parameter-table.html",
      "title": "Creating a Nonmem Parameter Table",
      "author": "Tim Bergsma",
      "engine": "knitr::rmarkdown",
      "headings": [
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        "Conventions",
        "Challenges",
        "Solution",
        "A Word about Object Orientation",
        "A Word about Piping",
        "Finding Estimates",
        "Finding Bootstraps",
        "Finding Metadata",
        "Customizing Your Parameter Table",
        "Rendering Your Parameter Table",
        "Getting Help",
        "Conclusion"
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      "created": "2017-01-16 14:28:13",
      "modified": "2023-05-09 13:23:19",
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