mirror of https://github.com/msberends/AMR.git
39 lines
1.6 KiB
R
Executable File
39 lines
1.6 KiB
R
Executable File
context("eucast.R")
|
|
|
|
test_that("EUCAST rules work", {
|
|
expect_identical(colnames(septic_patients),
|
|
colnames(suppressWarnings(EUCAST_rules(septic_patients))))
|
|
|
|
a <- data.frame(bactid =
|
|
c("KLEPNE", # Klebsiella pneumoniae
|
|
"PSEAER", # Pseudomonas aeruginosa
|
|
"ENTAER"), # Enterobacter aerogenes
|
|
amox = "-", # Amoxicillin
|
|
stringsAsFactors = FALSE)
|
|
b <- data.frame(bactid =
|
|
c("KLEPNE", # Klebsiella pneumoniae
|
|
"PSEAER", # Pseudomonas aeruginosa
|
|
"ENTAER"), # Enterobacter aerogenes
|
|
amox = "R", # Amoxicillin
|
|
stringsAsFactors = FALSE)
|
|
expect_identical(EUCAST_rules(a, info = FALSE), b)
|
|
expect_identical(suppressWarnings(interpretive_reading(a, info = TRUE)), b)
|
|
|
|
a <- data.frame(bactid =
|
|
c("STAAUR", # Staphylococcus aureus
|
|
"STCGRA"), # Streptococcus pyognenes (Lancefield Group A)
|
|
coli = "-", # Colistin
|
|
stringsAsFactors = FALSE)
|
|
b <- data.frame(bactid =
|
|
c("STAAUR", # Staphylococcus aureus
|
|
"STCGRA"), # Streptococcus pyognenes (Lancefield Group A)
|
|
coli = "R", # Colistin
|
|
stringsAsFactors = FALSE)
|
|
expect_equal(EUCAST_rules(a, info = FALSE), b)
|
|
})
|
|
|
|
test_that("MO properties work", {
|
|
expect_equal(mo_property("ESCCOL"), "Escherichia coli")
|
|
expect_equal(mo_property("STAAUR"), "Staphylococcus aureus")
|
|
})
|