AMR/tests/testthat/test-_deprecated.R

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# ==================================================================== #
# TITLE #
# Antimicrobial Resistance (AMR) Data Analysis for R #
# #
# SOURCE #
# https://github.com/msberends/AMR #
# #
# LICENCE #
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# (c) 2018-2021 Berends MS, Luz CF et al. #
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# Developed at the University of Groningen, the Netherlands, in #
# collaboration with non-profit organisations Certe Medical #
# Diagnostics & Advice, and University Medical Center Groningen. #
# #
# 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. #
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# #
# Visit our website for the full manual and a complete tutorial about #
# how to conduct AMR data analysis: https://msberends.github.io/AMR/ #
# ==================================================================== #
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context("deprecated.R")
test_that("deprecated functions work", {
skip_on_cran()
expect_identical(suppressWarnings(p_symbol(c(0.001, 0.01, 0.05, 0.1, 1, NA, 3))),
c("***", "**", "*", ".", " ", NA, NA))
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expect_warning(key_antibiotics(example_isolates))
expect_identical(suppressWarnings(key_antibiotics(example_isolates)),
key_antimicrobials(example_isolates, antifungal = NULL))
expect_warning(key_antibiotics_equal("S", "S"))
expect_identical(suppressWarnings(key_antibiotics_equal("S", "S")),
antimicrobials_equal("S", "S", type = "keyantimicrobials"))
expect_warning(filter_first_weighted_isolate(example_isolates))
expect_identical(suppressWarnings(filter_first_weighted_isolate(example_isolates)),
filter_first_isolate(example_isolates))
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})