(v1.6.0.9031) tinytest unit tests

2025-07-12 12:21:58 +02:00 · 2021-05-15 21:36:22 +02:00
parent 9a381c8d18
commit d8c91d5876
71 changed files with 2671 additions and 2901 deletions
--- a/inst/tinytest/test-ab.R
+++ b/inst/tinytest/test-ab.R
@ -0,0 +1,72 @@
+# ==================================================================== #
+# TITLE                                                                #
+# Antimicrobial Resistance (AMR) Data Analysis for R                   #
+#                                                                      #
+# SOURCE                                                               #
+# https://github.com/msberends/AMR                                     #
+#                                                                      #
+# LICENCE                                                              #
+# (c) 2018-2021 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.       # 
+#                                                                      #
+# 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.                                        #
+# We created this package for both routine data analysis and academic  #
+# research and it was publicly released in the hope that it will be    #
+# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY.              #
+#                                                                      #
+# Visit our website for the full manual and a complete tutorial about  #
+# how to conduct AMR data analysis: https://msberends.github.io/AMR/   #
+# ==================================================================== #
+
+expect_equal(as.character(as.ab(c("J01FA01",
+                                  "J 01 FA 01",
+                                  "Erythromycin",
+                                  "eryt",
+                                  "   eryt 123",
+                                  "ERYT",
+                                  "ERY",
+                                  "erytromicine",
+                                  "Erythrocin",
+                                  "Romycin"))),
+             rep("ERY", 10))
+
+expect_identical(class(as.ab("amox")), c("ab", "character"))
+expect_identical(class(antibiotics$ab), c("ab", "character"))
+expect_true(is.ab(as.ab("amox")))
+expect_stdout(print(as.ab("amox")))
+expect_stdout(print(data.frame(a = as.ab("amox"))))
+
+expect_warning(as.ab("J00AA00")) # ATC not yet available in data set
+expect_warning(as.ab("UNKNOWN"))
+expect_warning(as.ab(""))
+
+expect_stdout(print(as.ab("amox")))
+
+expect_equal(as.character(as.ab("Phloxapen")),
+             "FLC")
+
+expect_equal(suppressWarnings(as.character(as.ab(c("Bacteria", "Bacterial")))),
+             c(NA, "TMP"))
+
+expect_equal(as.character(as.ab("Amoxy + clavulaanzuur")),
+             "AMC")
+
+expect_equal(as.character(as.ab(c("mreopenem", "co-maoxiclav"))),
+             c("MEM", "AMC"))
+
+expect_message(as.ab("cipro mero"))
+
+# assigning and subsetting
+x <- antibiotics$ab
+expect_inherits(x[1], "ab")
+expect_inherits(x[[1]], "ab")
+expect_inherits(c(x[1], x[9]), "ab")
+expect_inherits(unique(x[1], x[9]), "ab")
+expect_warning(x[1] <- "invalid code")
+expect_warning(x[[1]] <- "invalid code")
+expect_warning(c(x[1], "test"))