AMR/tests/testthat/test-key_antibiotics.R

38 lines
2.1 KiB
R

# ==================================================================== #
# TITLE #
# Antimicrobial Resistance (AMR) Analysis #
# #
# SOURCE #
# https://github.com/msberends/AMR #
# #
# LICENCE #
# (c) 2018-2020 Berends MS, Luz CF et al. #
# #
# This R package is free software; you can freely use and distribute #
# it for both personal and commercial purposes under the terms of the #
# GNU General Public License version 2.0 (GNU GPL-2), as published by #
# the Free Software Foundation. #
# #
# We created this package for both routine data analysis and academic #
# research and it was publicly released in the hope that it will be #
# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY. #
# Visit our website for more info: https://msberends.github.io/AMR. #
# ==================================================================== #
context("key_antibiotics.R")
test_that("keyantibiotics work", {
skip_on_cran()
expect_equal(length(key_antibiotics(example_isolates, warnings = FALSE)), nrow(example_isolates))
expect_false(all(is.na(key_antibiotics(example_isolates))))
expect_true(key_antibiotics_equal("SSS", "SSS"))
expect_false(key_antibiotics_equal("SSS", "SRS"))
expect_true(key_antibiotics_equal("SSS", "SIS", ignore_I = TRUE))
expect_false(key_antibiotics_equal("SSS", "SIS", ignore_I = FALSE))
expect_true(key_antibiotics_equal(".SS", "SI.", ignore_I = TRUE))
expect_false(key_antibiotics_equal(".SS", "SI.", ignore_I = FALSE))
library(dplyr)
expect_warning(key_antibiotics(example_isolates %>% slice(rep(1, 10))))
})