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31 lines
1.2 KiB
R
Executable File
31 lines
1.2 KiB
R
Executable File
context("mdro.R")
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test_that("mdro works", {
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library(dplyr)
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expect_error(suppressWarnings(mdro(septic_patients, "invalid", col_bactid = "mo", info = TRUE)))
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expect_error(suppressWarnings(mdro(septic_patients, "fr", col_bactid = "mo", info = TRUE)))
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expect_error(suppressWarnings(mdro(septic_patients, country = c("de", "nl"), info = TRUE)))
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expect_error(suppressWarnings(mdro(septic_patients, col_mo = "invalid", info = TRUE)))
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outcome <- suppressWarnings(mdro(septic_patients))
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outcome <- suppressWarnings(eucast_exceptional_phenotypes(septic_patients, info = TRUE))
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# check class
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expect_equal(outcome %>% class(), c('ordered', 'factor'))
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outcome <- suppressWarnings(mdro(septic_patients, "nl", info = TRUE))
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# check class
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expect_equal(outcome %>% class(), c('ordered', 'factor'))
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# septic_patients should have these finding using Dutch guidelines
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expect_equal(outcome %>% freq() %>% pull(count),
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c(1989, 9, 2)) # 1989 neg, 9 pos, 2 unconfirmed
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expect_equal(brmo(septic_patients, info = FALSE), mdro(septic_patients, "nl", info = FALSE))
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# still working on German guidelines
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expect_error(suppressWarnings(mrgn(septic_patients, info = TRUE)))
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})
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