{ "_id": "6a28d474732311cd8758e284", "Package": "Rceattle", "Title": "Fits the Multispecies Assessment Model (CEATTLE) Using TMB", "Version": "4.5.0", "Authors@R": "person(given = \"Grant\",\nfamily = \"Adams\",\nrole = c(\"aut\", \"cre\"),\nemail = \"grant.adams@noaa.gov\",\ncomment = c(ORCID = \"0000-0003-0297-8347\"))", "Description": "Implements the CEATTLE model using Template Model Builder\n('TMB'; Kristensen et al. 2015), which can be installed\nfollowing .\nStructured similar to the original manuscript in terms of\nmodularization. Separate functions estimate retrospective\ntemperature- and size-specific predator rations, prey\npreference, and weight-at-age. These are then used as inputs to\nthe CEATTLE model to evaluate how predation mortality,\nrecruitment, and survival of three target species change under\nhistorical climate conditions and harvest rates.", "URL": "https://grantdadams.github.io/Rceattle/,\nhttps://github.com/grantdadams/Rceattle", "BugReports": "https://github.com/grantdadams/Rceattle/issues", "License": "GPL (>= 2)", "Encoding": "UTF-8", "LazyData": "true", "LazyDataCompression": "xz", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.3", "Remotes": [ "TMBhelper=github::kaskr/TMB_contrib_R/TMBhelper" ], "VignetteBuilder": "knitr", "Config/pak/sysreqs": "libicu-dev zlib1g-dev", "Repository": "https://noaa-fisheries-integrated-toolbox.r-universe.dev", "Date/Publication": "2026-06-10 02:40:42 UTC", "RemoteUrl": "https://github.com/grantdadams/Rceattle", "RemoteRef": "HEAD", "RemoteSha": "3ccf8f15d3d8364235906cf71d35952cb2464a27", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-06-10 02:51:22 UTC", "User": "root" }, "Author": "Grant Adams [aut, cre] (ORCID: )", "Maintainer": "Grant Adams ", "MD5sum": "49d495bf55a1b168f553aaefa0bc646c", "_user": "noaa-fisheries-integrated-toolbox", "_type": "src", "_file": "Rceattle_4.5.0.tar.gz", "_fileid": "4a66304b8370d9f62f9a05fd14f7afc8d7f839b7aacf261af1d1d29fd2398a21", "_filesize": 9568372, "_sha256": "4a66304b8370d9f62f9a05fd14f7afc8d7f839b7aacf261af1d1d29fd2398a21", "_created": "2026-06-10T02:51:22.000Z", "_published": "2026-06-10T03:05:24.424Z", "_distro": "noble", "_jobs": [ { "job": 80471930652, "time": 445, "config": "linux-devel-arm64", "r": "4.7.0", "check": "OK", "artifact": "7525498398" }, { "job": 80471930646, "time": 400, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7525488006" }, { "job": 80471930641, "time": 321, "config": "linux-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7525472048" }, { "job": 80471930627, "time": 340, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", 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"build_map_selectivity", "title": "Helper to set map for Selectivity parameters", "topics": [ "build_map_selectivity" ] }, { "page": "build_params", "title": "Build parameter list from cpp file", "topics": [ "build_params" ] }, { "page": "build_srr", "title": "Specify the stock-recruit relationship (SRR) for Rceattle", "topics": [ "build_srr" ] }, { "page": "check_mse", "title": "Function to load .RDs files from MSE runs", "topics": [ "check_mse" ] }, { "page": "clean_data", "title": "Function to clean data prior to Rceattle runs", "topics": [ "clean_data" ] }, { "page": "coef.Rceattle", "title": "Extract estimated parameters from an Rceattle fit", "topics": [ "coef.Rceattle" ] }, { "page": "combine_data", "title": "Combine data sets. 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}, { "page": "GOAsafe2018", "title": "Gulf of Alaska 2018 SAFE report reference values", "topics": [ "GOAsafe2018" ] }, { "page": "jitter", "title": "Jitter analysis", "topics": [ "jitter" ] }, { "page": "linkage_spec", "title": "Capture a linkage specification", "topics": [ "linkage_spec" ] }, { "page": "load_mse", "title": "Function to load .RDs files from MSE runs", "topics": [ "load_mse" ] }, { "page": "logLik.Rceattle", "title": "Log-likelihood of an Rceattle fit", "topics": [ "logLik.Rceattle" ] }, { "page": "model_average", "title": "Model average of derived quantities", "topics": [ "model_average" ] }, { "page": "mse_summary", "title": "Management strategy evaluation performance metric summary", "topics": [ "mse_summary" ] }, { "page": "NorthernRockfish2022", "title": "Data inputs for Northern Rockfish CEATTLE model (2022)", "topics": [ "NorthernRockfish2022" ] }, { "page": "plot_b_eaten", "title": "Plot biomass eaten", "topics": [ "plot_b_eaten" ] }, { "page": "plot_b_eaten_prop", "title": "Plot biomass consumed of each prey species by predator", "topics": [ "plot_b_eaten_prop" ] }, { "page": "plot_biomass", "title": "Plot biomass", "topics": [ "plot_biomass" ] }, { "page": "plot_catch", "title": "Landings fits", "topics": [ "plot_catch" ] }, { "page": "plot_comp", "title": "Plot time series of comp data", "topics": [ "plot_comp" ] }, { "page": "plot_data", "title": "Timeline of data used in the model likelihoods", "topics": [ "plot_data" ] }, { "page": "plot_depletion", "title": "Plot biomass depletion", "topics": [ "plot_depletion" ] }, { "page": "plot_depletionSSB", "title": "Plot SSB depletion", "topics": [ "plot_depletionSSB" ] }, { "page": "plot_diet_comp", "title": "Plot diet composition fits", "topics": [ "plot_diet_comp" ] }, { "page": "plot_exploitable_biomass", "title": "Plot exploitable biomass", "topics": [ "plot_exploitable_biomass" ] }, { "page": "plot_f", "title": "plot F", "topics": [ "plot_f" ] }, { "page": "plot_form", "title": "Plot functional form", "topics": [ "plot_form" ] }, { "page": "plot_index", "title": "CPUE fits", "topics": [ "plot_index" ] }, { "page": "plot_indexresidual", "title": "CPUE residual", "topics": [ "plot_indexresidual" ] }, { "page": "plot_logindex", "title": "log(CPUE) fits", "topics": [ "plot_logindex" ] }, { "page": "plot_m_at_age", "title": "Plot natural mortality by age", "topics": [ "plot_m_at_age" ] }, { "page": "plot_m2_at_age_prop", "title": "Plot predation mortality by age and predator", "topics": [ "plot_m2_at_age_prop" ] }, { "page": "plot_maturity", "title": "Plot maturity", "topics": [ "plot_maturity" ] }, { "page": "plot_mortality", "title": "Plot M1 + M2", "topics": [ "plot_mortality" ] }, { "page": "plot_ration", "title": "Plot ration", "topics": [ "plot_ration" ] }, { "page": "plot_recruitment", "title": "Plot recruitment", "topics": [ "plot_recruitment" ] }, { "page": "plot_selectivity", "title": "Plot selectivity", "topics": [ "plot_selectivity" ] }, { 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