tests/testthat/test-fungorum.R

In taxize: Taxonomic Information from Around the Web

context("fungorum")

test_that("fungorum - fg_name_search", {
  skip_on_cran()
  vcr::use_cassette("fg_name_search", {
    aa <- fg_name_search(q = "Gymnopus", limit = 2)
    bb <- fg_name_search(q = "Gymnopus")
  }, preserve_exact_body_bytes = TRUE)

  expect_is(aa, "data.frame")
  expect_is(bb, "data.frame")

  expect_true(any(grepl("authors", names(aa))))
  expect_equal(NROW(aa), 2)
  expect_equal(unique(aa$infraspecific_epithet), "Gymnopus")

  expect_true(any(grepl("authors", names(bb))))
  expect_equal(NROW(bb), 10)
  expect_equal(unique(bb$infraspecific_epithet)[1], "Gymnopus")
})

test_that("fungorum - fg_epithet_search", {
  skip_on_cran()
  vcr::use_cassette("fg_epithet_search", {
    aa <- fg_epithet_search(q = "phalloides", limit = 2)
  })

  expect_is(aa, "data.frame")
  expect_true(any(grepl("authors", names(aa))))
  expect_equal(NROW(aa), 2)
  expect_equal(unique(aa$infraspecific_rank), "sp.")
})

test_that("fungorum - fg_name_by_key", {
  skip_on_cran()
  vcr::use_cassette("fg_name_by_key", {
    aa <- fg_name_by_key(17703)
  })

  expect_is(aa, "data.frame")
  expect_true(any(grepl("name_of_fungus", names(aa))))
  expect_true(any(grepl("uuid", names(aa))))
  expect_equal(NROW(aa), 1)
})

test_that("fungorum - fg_name_full_by_lsid", {
  skip_on_cran()
  vcr::use_cassette("fg_name_full_by_lsid", {
    aa <- fg_name_full_by_lsid("urn:lsid:indexfungorum.org:names:81085")
  })

  expect_is(aa, "character")
  expect_equal(length(aa), 1)
  expect_true(grepl("Omphalotaceae", aa))
  expect_true(grepl("1985", aa))
})

#test_that("fungorum - fg_all_updated_names", {
#  skip_on_cran()
#
#  date <- as.numeric(gsub("-", "", as.character(Sys.Date()))) - 200
#  aa <- fg_all_updated_names(date = date)
#
#  expect_is(aa, "data.frame")
#  expect_gt(NROW(aa), 1)
#  expect_match(aa[1,], "indexfungorum")
#
#  date <- as.numeric(gsub("-", "", as.character(Sys.Date() + 1)))
#  expect_equal(NROW(fg_all_updated_names(date = date)), 0)
#})

# FIXME: when date injection for vcr fixed, come back to this;
# also, the function is failing
# test_that("fungorum - fg_deprecated_names", {
#   skip_on_cran()

#   date <- as.numeric(gsub("-", "", as.character(Sys.Date() - 30)))
#   aa <- fg_deprecated_names(date = date)

#   expect_is(aa, "data.frame")
#   expect_gt(NROW(aa), 1)
#   expect_match(aa[1,1], "indexfungorum")

#   date <- as.numeric(gsub("-", "", as.character(Sys.Date() + 1)))
#   expect_equal(NROW(fg_deprecated_names(date = date)), 0)
# })

test_that("fungorum - fg_author_search", {
  skip_on_cran()
  vcr::use_cassette("fg_author_search", {
    aa <- fg_author_search(q = "Fayod", limit = 2)
  }, preserve_exact_body_bytes = TRUE)

  expect_is(aa, "data.frame")
  expect_equal(NROW(aa), 2)
  expect_match(aa$authors, "Fayod")
})