Nothing
test_that("atlas_species fails nicely if no email is provided", {
skip_if_offline()
galah_config(email = "", run_checks = TRUE) # run_checks = FALSE doesn't provide error message
expect_error(atlas_species(identify = galah_identify("Osphranter")))
galah_config(email = "ala4r@ala.org.au")
})
test_that("atlas_species returns a tibble", {
skip_if_offline()
species <- atlas_species(identify = galah_identify("Osphranter"))
expect_s3_class(species, c("tbl_df", "tbl", "data.frame"))
expect_gt(nrow(species), 1)
})
test_that("atlas_species returns correct results when piped", {
skip_if_offline()
galah_config(run_checks = TRUE)
species <- galah_call() |>
galah_identify("perameles") |>
galah_filter(year > 2000) |>
atlas_species()
expected_species <- c("Perameles nasuta", "Perameles gunnii",
"Perameles pallescens", "Perameles bougainville")
expected_cols <- c("kingdom", "phylum", "class", "order", "family",
"genus", "species", "author", "species_guid",
"vernacular_name")
expect_setequal(names(species), expected_cols)
expect_equal(species$species[1:4], expected_species)
expect_gt(nrow(species), 1)
expect_s3_class(species, c("tbl_df", "tbl", "data.frame"))
})
test_that("atlas_species returns correct results filtered by galah_geolocate", {
skip_if_offline()
galah_config(run_checks = TRUE)
wkt <- "POLYGON ((146.5425 -42.63203, 146.8312 -43.13203, 147.4085 -43.13203,
147.6972 -42.63203, 147.4085 -42.13203, 146.8312 -42.13203, 146.5425 -42.63203))"
species <- galah_call() |>
galah_identify("perameles") |>
galah_filter(year > 2000) |>
galah_geolocate(wkt) |>
atlas_species()
expected_species <- c("Perameles gunnii")
expected_cols <- c("kingdom", "phylum", "class", "order", "family",
"genus", "species", "author", "species_guid",
"vernacular_name")
expect_setequal(names(species), expected_cols)
expect_equal(species$species[1], expected_species)
expect_gt(nrow(species), 0)
expect_s3_class(species, c("tbl_df", "tbl", "data.frame"))
})
test_that("atlas_species works when no species are present", {
skip_if_offline()
galah_config(email = "ala4r@ala.org.au")
galah_config(run_checks = TRUE)
result <- galah_call() |>
galah_identify("eolophus") |>
galah_filter(cl1048 == "Kimberley") |>
atlas_species()
expect_s3_class(result, c("tbl_df", "tbl", "data.frame"))
})
test_that("collapse -> compute -> collect workflow is functional", {
skip_if_offline()
galah_config(email = "ala4r@ala.org.au")
query <- galah_call(method = "data",
type = "species") |>
galah_identify("perameles") |>
galah_filter(year > 2000)
species_collapse <- query |> collapse()
species_compute <- species_collapse |> compute()
species_collect <- species_compute |> collect()
atlas_species <- query |> atlas_species()
expect_s3_class(query, "data_request")
expect_s3_class(species_collapse, "query_set")
expect_s3_class(species_compute, "query")
expect_s3_class(species_collect, c("tbl_df", "tbl", "data.frame"))
expect_equal(species_collect, atlas_species)
})
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