rgbif (version 1.3.0)

occ_download_import: Import a downloaded file from GBIF.

Description

Import a downloaded file from GBIF.

Usage

occ_download_import(x = NULL, key = NULL, path = ".", fill = TRUE,
  ...)
as.download(path = ".", key = NULL)
# S3 method for character
as.download(path = ".", key = NULL)
# S3 method for download
as.download(path = ".", key = NULL)

Arguments

x

The output of a call to occ_download_get

key

A key generated from a request, like that from occ_download

path

Path to unzip file to. Default: "." Writes to folder matching zip file name

fill

(logical) (default: FALSE). If TRUE then in case the rows have unequal length, blank fields are implicitly filled. passed on to fill parameter in data.table::fread. If you get problems with this function crashing it could be due to data.table failing, in which case try setting fill=FALSE

...

parameters passed on to data.table::fread()

Value

a tibble (data.frame)

Details

You can provide either x as input, or both key and path. We use data.table::fread() internally to read data.

Examples

# NOT RUN {
# First, kick off at least 1 download, then wait for the job to be complete
# Then use your download keys
res <- occ_download_get(key="0000066-140928181241064", overwrite=TRUE)
occ_download_import(res)

occ_download_get(key="0000066-140928181241064", overwrite = TRUE) %>%
  occ_download_import

# coerce a file path to the right class to feed to occ_download_import
# as.download("0000066-140928181241064.zip")
# as.download(key = "0000066-140928181241064")
# occ_download_import(as.download("0000066-140928181241064.zip"))

# download a dump that has a CSV file
# res <- occ_download_get(key = "0001369-160509122628363", overwrite=TRUE)
# occ_download_import(res)
# occ_download_import(key = "0001369-160509122628363")

# download and import a species list (in csv format)
# x <- occ_download_get("0000172-190415153152247")
# occ_download_import(x)
# }