AMR/tests/testthat/test-guess_ab_col.R

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# ==================================================================== #
# TITLE #
# Antimicrobial Resistance (AMR) Analysis #
# #
# SOURCE #
# https://gitlab.com/msberends/AMR #
# #
# LICENCE #
# (c) 2019 Berends MS (m.s.berends@umcg.nl), Luz CF (c.f.luz@umcg.nl) #
# #
# 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. #
# #
# This R package was created for academic research and 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 more info: https://msberends.gitlab.io/AMR. #
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# ==================================================================== #
context("guess_ab_col.R")
test_that("guess_ab_col works", {
expect_equal(guess_ab_col(septic_patients, "amox"),
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"AMX")
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expect_equal(guess_ab_col(septic_patients, "amoxicillin"),
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"AMX")
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expect_equal(guess_ab_col(septic_patients, "J01AA07"),
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"TCY")
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expect_equal(guess_ab_col(septic_patients, "tetracycline"),
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"TCY")
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expect_equal(guess_ab_col(septic_patients, "TETR"),
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"TCY")
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df <- data.frame(AMP_ND10 = "R",
AMC_ED20 = "S")
expect_equal(guess_ab_col(df, "ampicillin"),
"AMP_ND10")
expect_equal(guess_ab_col(df, "J01CR02"),
"AMC_ED20")
expect_equal(guess_ab_col(df, as.atc("augmentin")),
"AMC_ED20")
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})