Name the record fields

Tells flag_occurrences() which columns of the input hold each field. The defaults are the Darwin Core terms GBIF uses; matching is case-insensitive, so GBIF's lower-case snapshot columns (decimallongitude, ...) are found by the defaults too. Fields are resolved only when a requested test needs them.

Usage

occ_columns(
  lon = "decimalLongitude",
  lat = "decimalLatitude",
  species = "species",
  country = "countryCode",
  issue = "issue",
  basis = "basisOfRecord",
  establishment = "establishmentMeans",
  min_age = "min_ma",
  max_age = "max_ma",
  dataset = "datasetKey",
  genus = "genus",
  kingdom = "kingdom",
  id = "gbifID"
)

Arguments

lon, lat

Longitude and latitude in decimal degrees.

species

Taxon name or key used by the duplicate test.

country

Country code of the record (ISO 3166-1 alpha-2 or alpha-3), used by the country_mismatch test.

issue

GBIF issue flags, either a character column with the issue names separated by ; (as the GBIF snapshot read through vectra gives) or a list column of character vectors.

basis

Basis of record (basisOfRecord).

establishment

Establishment means (establishmentMeans).

min_age, max_age

Minimum and maximum age of a fossil record, in million years, as the Paleobiology Database's min_ma and max_ma.

dataset

Dataset the record belongs to, for the dataset-level tests (datasetKey in GBIF data).

genus

Genus of the record, for the habitat tests sea_nonmarine and land_marine. The first word is taken, so a binomial species column (occ_columns(genus = "species")) works as well as a genus column.

kingdom

Kingdom of the record, read by the habitat tests when the column is present, to tell apart genus names used in two kingdoms.

id

Record identifier, copied into on-disk flag output when present.

Value

A named list of column names with class occ_columns.

Examples

occ_columns(lon = "x", lat = "y")