2018-04-18 12:24:54 +02:00
|
|
|
context("eucast.R")
|
2018-03-27 17:43:42 +02:00
|
|
|
|
|
|
|
|
test_that("EUCAST rules work", {
|
2018-05-09 11:44:46 +02:00
|
|
|
a <- suppressWarnings(EUCAST_rules(septic_patients))
|
2018-05-02 14:56:25 +02:00
|
|
|
|
2018-03-27 17:43:42 +02:00
|
|
|
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_equal(EUCAST_rules(a, info = FALSE), b)
|
2018-04-02 16:05:09 +02:00
|
|
|
expect_equal(suppressWarnings(interpretive_reading(a, info = TRUE)), b)
|
|
|
|
|
|
2018-03-27 17:43:42 +02:00
|
|
|
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")
|
|
|
|
|
})
|
