AMR/tests/testthat/test-read.4d.R

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# ==================================================================== #
# TITLE #
# Antimicrobial Resistance (AMR) Analysis #
# #
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# SOURCE #
# https://gitlab.com/msberends/AMR #
# #
# LICENCE #
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# (c) 2019 Berends MS (m.s.berends@umcg.nl), Luz CF (c.f.luz@umcg.nl) #
# #
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# 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. #
# #
# This R package was created for academic research and was publicly #
# released in the hope that it will be useful, but it comes WITHOUT #
# ANY WARRANTY OR LIABILITY. #
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# Visit our website for more info: https://msberends.gitlab.io/AMR. #
# ==================================================================== #
context("read.4d.R")
test_that("read 4D works", {
library(dplyr)
test1 <- data.frame(Patientnr = "ABC",
MV = "M",
Monsternr = "0123",
Afnamedat = "10-11-12",
Bepaling = "bk",
Afd. = "ABC",
Spec = "ABC",
Matbijz. = "ABC",
Mat = "ABC",
Mocode = "esccol",
PENI = "R",
stringsAsFactors = FALSE)
tf <- tempfile()
write.table(test1, file = tf, quote = F, sep = "\t")
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x <- read.4D(tf, skip = 0, info = TRUE)
unlink(tf)
expect_equal(ncol(x), 11)
expect_equal(class(x$date_received), "Date")
expect_equal(class(x$mo), "mo")
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expect_equal(as.character(x$mo), "B_ESCHR_COLI")
expect_equal(is.rsi(x$peni), TRUE)
})