{
  "_id": "6a1ef2c9b401979e73414934",
  "Package": "ebswp",
  "Title": "Facilitates Model Running for EBS Pollock",
  "Version": "0.0.1.0000",
  "Authors@R": "person(\"Jim\", \"Ianelli\", , \"Jim.Ianelli@noaa.gov\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0002-7170-8677\"))",
  "Author": "Jim Ianelli [aut, cre]",
  "Maintainer": "Jim Ianelli <Jim.Ianelli@noaa.gov>",
  "Description": "Facilitates model running for EBS Pollock.",
  "License": "MIT + file LICENSE",
  "Encoding": "UTF-8",
  "Roxygen": "list(markdown = TRUE)",
  "RoxygenNote": "7.3.2",
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  "URL": "http://afsc-assessments.github.io/EBSpollock/,\nhttp://afsc-assessments.github.io/EBSwp/,\nhttp://afsc-assessments.github.io/ebswp/,\nhttps://afsc-assessments.github.io/ebs_pollock/",
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  "Repository": "https://jimianelli.r-universe.dev",
  "Date/Publication": "2026-02-18 06:08:31 UTC",
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    ".run_mod_windows",
    ".run_proj",
    ".run_proj_windows",
    "get_results",
    "get_vars",
    "model_settings",
    "plot_agefit",
    "plot_ats",
    "plot_avo",
    "plot_bts",
    "plot_cope",
    "plot_cpue",
    "plot_likes",
    "plot_mnage",
    "plot_Nage_3",
    "plot_R_rel",
    "plot_recruitment",
    "plot_sel",
    "plot_ser",
    "plot_srr",
    "plot_ssb",
    "plot_ssb_rel",
    "print_Tier3_tbl",
    "read_admb",
    "read_ctl",
    "read_dat",
    "read_fit",
    "read_psv",
    "read_rep",
    "rescale_cov",
    "run_model",
    "run_proj",
    "tab_fit",
    "tab_ref",
    "upperCaseFirst",
    "write_dat"
  ],
  "_help": [
    {
      "page": "dot-get_ats_df",
      "title": "Extract Acoustic Trawl Survey Data",
      "topics": [
        ".get_ats_df"
      ]
    },
    {
      "page": "dot-get_avo_df",
      "title": "Get avo data into frame",
      "topics": [
        ".get_avo_df"
      ]
    },
    {
      "page": "dot-get_bts_df",
      "title": "Extract bottom trawl survey data from a list of models",
      "topics": [
        ".get_bts_df"
      ]
    },
    {
      "page": "dot-get_cope_df",
      "title": "Extract copE data",
      "topics": [
        ".get_cope_df"
      ]
    },
    {
      "page": "dot-get_cpue_df",
      "title": "Extract CPUE data",
      "topics": [
        ".get_cpue_df"
      ]
    },
    {
      "page": "dot-get_like_df",
      "title": "Extract Likelihood Data Frame",
      "topics": [
        ".get_like_df"
      ]
    },
    {
      "page": "dot-get_mnage_df",
      "title": "Extract mean age from pollock model run",
      "topics": [
        ".get_mnage_df"
      ]
    },
    {
      "page": "dot-get_Nage_3_df",
      "title": "Extract Numbers at age 3",
      "topics": [
        ".get_Nage_3_df"
      ]
    },
    {
      "page": "dot-get_R_rel_df",
      "title": "Extract Recruits (R) from pollock run",
      "topics": [
        ".get_R_rel_df"
      ]
    },
    {
      "page": "dot-get_recruitment_df",
      "title": "Get recruitment data",
      "topics": [
        ".get_recruitment_df"
      ]
    },
    {
      "page": "dot-get_ser_df",
      "title": "Extract spawning exploitation rate",
      "topics": [
        ".get_ser_df"
      ]
    },
    {
      "page": "dot-get_srr_df",
      "title": "Extract stock recruitment results",
      "topics": [
        ".get_srr_df"
      ]
    },
    {
      "page": "dot-get_ssb_df",
      "title": "Extract spawning stock biomass (ssb)",
      "topics": [
        ".get_ssb_df"
      ]
    },
    {
      "page": "dot-get_ssb_rel_df",
      "title": "Extract spawning stock biomass (ssb)",
      "topics": [
        ".get_ssb_rel_df"
      ]
    },
    {
      "page": "dot-run_mod",
      "title": "run pollock model",
      "topics": [
        ".run_mod"
      ]
    },
    {
      "page": "dot-run_mod_windows",
      "title": "run pollock model on windows",
      "topics": [
        ".run_mod_windows"
      ]
    },
    {
      "page": "dot-run_proj",
      "title": "run projection model DOESN\"T WORK...dunno why",
      "topics": [
        ".run_proj"
      ]
    },
    {
      "page": "dot-run_proj_windows",
      "title": "run projection model for windows",
      "topics": [
        ".run_proj_windows"
      ]
    },
    {
      "page": "get_input_data",
      "title": "Input Data for Model Configuration",
      "topics": [
        "get_input_data"
      ]
    },
    {
      "page": "get_results",
      "title": "Fetch Model Results in Parallel",
      "topics": [
        "get_results"
      ]
    },
    {
      "page": "get_tier3_res",
      "title": "Extract Tier 3 Results",
      "topics": [
        "get_tier3_res"
      ]
    },
    {
      "page": "get_vars",
      "title": "Extract and Compute Several Metrics from Model Output",
      "topics": [
        "get_vars"
      ]
    },
    {
      "page": "model_settings",
      "title": "Model Settings List",
      "topics": [
        "model_settings"
      ]
    },
    {
      "page": "plot_agefit",
      "title": "Age Composition Data Plotter t(t() This function generates a series of plots visualizing the age composition data from fisheries assessment. It compares observed and predicted data across different years.",
      "topics": [
        "plot_agefit"
      ]
    },
    {
      "page": "plot_ats",
      "title": "Plot Acoustic Trawl Survey Biomass Data",
      "topics": [
        "plot_ats"
      ]
    },
    {
      "page": "plot_avo",
      "title": "Plot avo data",
      "topics": [
        "plot_avo"
      ]
    },
    {
      "page": "plot_bts",
      "title": "Plot bottom trawl survey data",
      "topics": [
        "plot_bts"
      ]
    },
    {
      "page": "plot_cope",
      "title": "Plot copepod something",
      "topics": [
        "plot_cope"
      ]
    },
    {
      "page": "plot_cpue",
      "title": "Plot predicted CPUE",
      "topics": [
        "plot_cpue"
      ]
    },
    {
      "page": "plot_likes",
      "title": "Plot Likelihood Values",
      "topics": [
        "plot_likes"
      ]
    },
    {
      "page": "plot_mnage",
      "title": "Plot predicted mean age by gear type",
      "topics": [
        "plot_mnage"
      ]
    },
    {
      "page": "plot_Nage_3",
      "title": "Plot predicted Numbers at age 3",
      "topics": [
        "plot_Nage_3"
      ]
    },
    {
      "page": "plot_R_rel",
      "title": "Plot predicted recruitment",
      "topics": [
        "plot_R_rel"
      ]
    },
    {
      "page": "plot_recruitment",
      "title": "Plot predicted recruitment and approximate asymptotic error-bars",
      "topics": [
        "plot_recruitment"
      ]
    },
    {
      "page": "plot_sel",
      "title": "Plot selectivity",
      "topics": [
        "plot_sel"
      ]
    },
    {
      "page": "plot_ser",
      "title": "Plot predicted spawning stock biomass (SER)",
      "topics": [
        "plot_ser"
      ]
    },
    {
      "page": "plot_srr",
      "title": "Plot Stock-Recruitment Relationship (SRR)",
      "topics": [
        "plot_srr"
      ]
    },
    {
      "page": "plot_ssb",
      "title": "Plot predicted spawning stock biomass (ssb)",
      "topics": [
        "plot_ssb"
      ]
    },
    {
      "page": "plot_ssb_rel",
      "title": "Plot predicted spawning stock biomass (ssb)",
      "topics": [
        "plot_ssb_rel"
      ]
    },
    {
      "page": "print_Tier3_tbl",
      "title": "Generate and Print Tier 3 Summary Tables",
      "topics": [
        "print_Tier3_tbl"
      ]
    },
    {
      "page": "read_admb",
      "title": "Read ADMB output files",
      "topics": [
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      ]
    },
    {
      "page": "read_ctl",
      "title": "Read ADMB .ctl file",
      "topics": [
        "read_ctl"
      ]
    },
    {
      "page": "read_dat",
      "title": "Read ADMB Data File",
      "topics": [
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      ]
    },
    {
      "page": "read_fit",
      "title": "Read ADMB .par, .std, and .cor file and return an R object of type 'list' of estimates and correlations",
      "topics": [
        "read_fit"
      ]
    },
    {
      "page": "read_psv",
      "title": "Read ADMB .psv file",
      "topics": [
        "read_psv"
      ]
    },
    {
      "page": "read_rep",
      "title": "Read ADMB .rep file",
      "topics": [
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      ]
    },
    {
      "page": "rescale_cov",
      "title": "Rescale a Covariance Matrix",
      "topics": [
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      ]
    },
    {
      "page": "run_model",
      "title": "Run Multiple ADMB Models in Parallel",
      "topics": [
        "run_model"
      ]
    },
    {
      "page": "run_proj",
      "title": "Run Multiple projection models in Parallel",
      "topics": [
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      ]
    },
    {
      "page": "tab_fit",
      "title": "Tabulate fits from models using extended metrics.",
      "topics": [
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      ]
    },
    {
      "page": "tab_ref",
      "title": "Tabulate fits from models using extended metrics.",
      "topics": [
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    },
    {
      "page": "upperCaseFirst",
      "title": "Helper function to convert the first character of a string to uppercase.",
      "topics": [
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      ]
    },
    {
      "page": "write_dat",
      "title": "Write Data to Text File",
      "topics": [
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    }
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      "headings": [
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        "Parameter estimation",
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      "date": "2026-06-02T15:11:38.000Z",
      "commit": "0420e77369383d7c929b164a234fb75e064c4fd2",
      "fileid": "759c726de77e40368904d11a73596e2c5d7b4ee10952461e7dc99d4810720b59",
      "status": "success",
      "buildurl": "https://github.com/r-universe/jimianelli/actions/runs/26083368803"
    }
  ]
}