mirror of
https://github.com/msberends/AMR.git
synced 2024-12-27 10:46:12 +01:00
62 lines
2.9 KiB
R
Executable File
62 lines
2.9 KiB
R
Executable File
# ==================================================================== #
|
|
# TITLE #
|
|
# Antimicrobial Resistance (AMR) Analysis #
|
|
# #
|
|
# SOURCE #
|
|
# https://gitlab.com/msberends/AMR #
|
|
# #
|
|
# LICENCE #
|
|
# (c) 2019 Berends MS (m.s.berends@umcg.nl), Luz CF (c.f.luz@umcg.nl) #
|
|
# #
|
|
# 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. #
|
|
# Visit our website for more info: https://msberends.gitab.io/AMR. #
|
|
# ==================================================================== #
|
|
|
|
context("join_microorganisms.R")
|
|
|
|
test_that("joins work", {
|
|
unjoined <- septic_patients
|
|
inner <- septic_patients %>% inner_join_microorganisms()
|
|
left <- septic_patients %>% left_join_microorganisms()
|
|
semi <- septic_patients %>% semi_join_microorganisms()
|
|
anti <- septic_patients %>% anti_join_microorganisms()
|
|
suppressWarnings(right <- septic_patients %>% right_join_microorganisms())
|
|
suppressWarnings(full <- septic_patients %>% full_join_microorganisms())
|
|
|
|
expect_true(ncol(unjoined) < ncol(inner))
|
|
expect_true(nrow(unjoined) == nrow(inner))
|
|
|
|
expect_true(ncol(unjoined) < ncol(left))
|
|
expect_true(nrow(unjoined) == nrow(left))
|
|
|
|
expect_true(ncol(semi) == ncol(semi))
|
|
expect_true(nrow(semi) == nrow(semi))
|
|
|
|
expect_true(nrow(anti) == 0)
|
|
|
|
expect_true(nrow(unjoined) < nrow(right))
|
|
expect_true(nrow(unjoined) < nrow(full))
|
|
|
|
|
|
expect_equal(nrow(inner_join_microorganisms("B_ESCHR_COL")), 1)
|
|
expect_equal(nrow(inner_join_microorganisms("B_ESCHR_COL", by = c("mo" = "mo"))), 1)
|
|
expect_warning(inner_join_microorganisms("Escherichia", by = c("mo" = "genus")))
|
|
|
|
expect_equal(nrow(left_join_microorganisms("B_ESCHR_COL")), 1)
|
|
expect_warning(left_join_microorganisms("Escherichia", by = c("mo" = "genus")))
|
|
|
|
expect_equal(nrow(semi_join_microorganisms("B_ESCHR_COL")), 1)
|
|
expect_equal(nrow(anti_join_microorganisms("B_ESCHR_COL")), 0)
|
|
|
|
expect_warning(right_join_microorganisms("B_ESCHR_COL"))
|
|
expect_warning(full_join_microorganisms("B_ESCHR_COL"))
|
|
|
|
})
|