tests/testthat/test-api-taxonomy.R

In rotl: Interface to the 'Open Tree of Life' API

context("taxonomy API")


############################################################################
## .taxonomy_taxon_info                                                        ##
############################################################################


test_that("ott_id is not null for .taxonomy_taxon_info", {
  skip_on_cran()
  expect_error(
    .taxonomy_taxon_info(NULL),
    "must supply"
  )
})

test_that("ott_id is of length 1 for .taxonomy_taxon_info", {
  skip_on_cran()
  expect_error(
    .taxonomy_taxon_info(c(123, 456, 789)),
    "Must only supply"
  )
})

test_that("ott_id is a numeric for .taxonomy_taxon_info", {
  skip_on_cran()
  expect_error(
    .taxonomy_taxon_info(TRUE),
    "look like numbers"
  )
})

test_that("include_lineage is a flag", {
  skip_on_cran()
  expect_error(
    .taxonomy_taxon_info(ott_id = 515698, include_lineage = c(TRUE, FALSE)),
    "is not a flag"
  )
  expect_error(
    .taxonomy_taxon_info(ott_id = 515698, include_lineage = c("na")),
    "is not a flag"
  )
  expect_error(
    .taxonomy_taxon_info(ott_id = 515698, include_lineage = c(1235)),
    "is not a flag"
  )
})

test_that("list_terminal_descendants is a flag", {
  skip_on_cran()
  expect_error(
    .taxonomy_taxon_info(ott_id = 515698, include_terminal_descendants = c(TRUE, FALSE)),
    "is not a flag"
  )
  expect_error(
    .taxonomy_taxon_info(ott_id = 515698, include_terminal_descendants = c("na")),
    "is not a flag"
  )
  expect_error(
    .taxonomy_taxon_info(ott_id = 515698, include_terminal_descendants = c(1235)),
    "is not a flag"
  )
})


############################################################################
## .taxonomy_subtree                                                      ##
############################################################################


test_that("ott_id is not null for .taxonomy_subtree", {
  skip_on_cran()
  expect_error(
    .taxonomy_subtree(NULL),
    "must supply"
  )
})

test_that("ott_id is of length 1 for .taxonomy_subtree", {
  skip_on_cran()
  expect_error(
    .taxonomy_subtree(c(123, 456, 789)),
    "Must only supply"
  )
})

test_that("ott_id is a numeric for .taxonomy_subtree", {
  skip_on_cran()
  expect_error(
    .taxonomy_subtree(TRUE),
    "look like numbers"
  )
})


############################################################################
## .taxonomy_mrca                                                         ##
############################################################################


test_that("ott_id is not null for .taxonomy_lica", {
  skip_on_cran()
  expect_error(
    .taxonomy_mrca(NULL),
    "must supply"
  )
})

test_that("ott_id is a numeric for .taxonomy_lica", {
  skip_on_cran()
  expect_error(
    .taxonomy_mrca(TRUE),
    "look like numbers"
  )
})