Pull biological data (age, length, weight) from the NWFSC data warehouse The website is: https://www.webapps.nwfsc.noaa.gov/data This function can be used to pull a single species or all observed species In order to pull all species leave Name = NULL and SciName = NULL

Usage

PullBio.fn(
  Name = NULL,
  SciName = NULL,
  YearRange = c(1980, 5000),
  SurveyName = NULL,
  SaveFile = lifecycle::deprecated(),
  Dir = NULL,
  verbose = TRUE
)

Arguments

Name: common name of species data to pull from the data warehouse
SciName: scientific name of species data to pull from the data warehouse
YearRange: range of years to pull data
SurveyName: survey to pull the data for the options are: Triennial, AFSC.Slope, NWFSC.Combo, NWFSC.Slope, NWFSC.Shelf, NWFSC.Hypoxia, NWFSC.Santa.Barb.Basin, NWFSC.Shelf.Rockfish (NWFSC.Hook.Line but both are not working), NWFSC.Video#'
SaveFile: Deprecated with nwfscSurvey 2.3. Output will be save automatically if the Dir input is specified.
Dir: The directory where you want the output file to be saved. The name of the file within Dir will start with Catch_ and end with .rdata. Default NULL which will not save an output file.
verbose: A logical that specifies if you want to print messages and warnings to the console. The default is TRUE.

Author

Chantel Wetzel based on code by John Wallace

Examples

if (FALSE) { # \dontrun{
# SurveyName is only arg that has to be specified
bio_dat <- PullBio.fn(SurveyName = "NWFSC.Combo")

# Example with specified common name
bio_dat <- PullBio.fn(
  Name = "vermilion rockfish",
  SurveyName = "NWFSC.Combo"
)

# Example with specified scientific name
bio_dat <- PullBio.fn(
  SciName = "Eopsetta jordani",
  SurveyName = "NWFSC.Combo"
)

# Example with multiple names
bio_dat <- PullBio.fn(
  SciName = c("Sebastes aurora", "Eopsetta jordani"),
  SurveyName = "NWFSC.Combo"
)
} # }