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Combine species abundance diagnostics into a single object

combineAbuDiags.Rd

The data pipeline produces one abundance model diagnostic file for each species and year. This function reads diagnostics files and combines them into a single object

Usage

combineAbuDiags(config, sp_codes, year)

Arguments

config

A list with pipeline configuration parameters. See configPipeline.

sp_codes

SAFRING reference numbers of the species we want diagnostics for.

year

The year(s) for which diagnostics are required. Years should be formated as the two last digits of the beginning and last years. See

Value

A dataframe with diagnostic paramters

Examples

if (FALSE) {
config <- configPipeline(
    year = 2021,
    dur = 29,
    mod_file = "cwac_ssm_two_season_mean_rev.R",
    package = "jagsUI",
    data_dir = NULL,
    out_dir = NULL,
    server = FALSE
)
sp_codes <- config$species

combineAbuDiags(config, sp_codes, "93_21")
}