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mirror of https://github.com/msberends/AMR.git synced 2025-07-12 23:41:57 +02:00

styled, unit test fix

This commit is contained in:
2022-08-28 10:31:50 +02:00
parent 4cb1db4554
commit 4d050aef7c
147 changed files with 10897 additions and 8169 deletions

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@ -9,7 +9,7 @@
# (c) 2018-2022 Berends MS, Luz CF et al. #
# Developed at the University of Groningen, the Netherlands, in #
# collaboration with non-profit organisations Certe Medical #
# Diagnostics & Advice, and University Medical Center Groningen. #
# 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 #
@ -76,16 +76,20 @@ expect_equal(nrow(example_isolates[all(c(carbapenems(), aminoglycosides()) == "R
expect_equal(nrow(example_isolates[any(carbapenems() == "R"), penicillins()]), 55, tolerance = 0.5)
expect_equal(ncol(example_isolates[any(carbapenems() == "R"), penicillins()]), 7, tolerance = 0.5)
x <- data.frame(x = 0,
mo = 0,
gen = "S",
genta = "S",
J01GB03 = "S",
tobra = "S",
Tobracin = "S")
x <- data.frame(
x = 0,
mo = 0,
gen = "S",
genta = "S",
J01GB03 = "S",
tobra = "S",
Tobracin = "S"
)
# should have the first hits
expect_identical(colnames(x[, aminoglycosides()]),
c("gen", "tobra"))
expect_identical(
colnames(x[, aminoglycosides()]),
c("gen", "tobra")
)
if (AMR:::pkg_is_available("dplyr", min_version = "1.0.0")) {
expect_equal(example_isolates %>% select(administrable_per_os() & penicillins()) %>% ncol(), 5, tolerance = 0.5)