2020-06-17 01:39:30 +02:00
|
|
|
# ==================================================================== #
|
|
|
|
|
# TITLE #
|
2020-10-08 11:16:03 +02:00
|
|
|
# Antimicrobial Resistance (AMR) Analysis for R #
|
2020-06-17 01:39:30 +02:00
|
|
|
# #
|
|
|
|
|
# SOURCE #
|
2020-07-08 14:48:06 +02:00
|
|
|
# https://github.com/msberends/AMR #
|
2020-06-17 01:39:30 +02:00
|
|
|
# #
|
|
|
|
|
# LICENCE #
|
|
|
|
|
# (c) 2018-2020 Berends MS, Luz CF et al. #
|
2020-10-08 11:16:03 +02:00
|
|
|
# Developed at the University of Groningen, the Netherlands, in #
|
|
|
|
|
# collaboration with non-profit organisations Certe Medical #
|
|
|
|
|
# Diagnostics & Advice, and University Medical Center Groningen. #
|
2020-06-17 01:39:30 +02:00
|
|
|
# #
|
|
|
|
|
# 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. #
|
2020-10-08 11:16:03 +02:00
|
|
|
# #
|
|
|
|
|
# Visit our website for the full manual and a complete tutorial about #
|
|
|
|
|
# how to conduct AMR analysis: https://msberends.github.io/AMR/ #
|
2020-06-17 01:39:30 +02:00
|
|
|
# ==================================================================== #
|
|
|
|
|
|
|
|
|
|
context("ab_class_selectors.R")
|
|
|
|
|
|
|
|
|
|
test_that("Antibiotic class selectors work", {
|
|
|
|
|
skip_on_cran()
|
|
|
|
|
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(aminoglycosides()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(carbapenems()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(cephalosporins()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(cephalosporins_1st()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(cephalosporins_2nd()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(cephalosporins_3rd()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(cephalosporins_4th()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(cephalosporins_5th()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(fluoroquinolones()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(glycopeptides()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(macrolides()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(penicillins()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
expect_lt(example_isolates %>% dplyr::select(tetracyclines()) %>% ncol(), ncol(example_isolates))
|
|
|
|
|
|
|
|
|
|
})
|
