P281424/AMR
1
0
Fork 0
mirror of https://github.com/msberends/AMR.git synced 2025-07-08 08:32:04 +02:00
Code Releases Activity

unknown codes, rsi fix

Browse Source
This commit is contained in:
dr. M.S. (Matthijs) Berends
2019-03-02 22:47:04 +01:00
parent c5efb272fd
commit e835525cf6
31 changed files with 528 additions and 409 deletions
Download Patch File Download Diff File Expand all files Collapse all files

4
tests/testthat/test-mo.R
View File

@ -103,7 +103,7 @@ test_that("as.mo works", {
expect_warning(as.mo("ab"))
expect_equal(suppressWarnings(as.character(as.mo(c("Qq species", "", "CRS", "K. pneu rhino", "esco")))),
c(NA_character_, NA_character_, "B_STNTR_MAL", "B_KLBSL_PNE_RHI", "B_ESCHR_COL"))
c("UNKNOWN", NA_character_, "B_STNTR_MAL", "B_KLBSL_PNE_RHI", "B_ESCHR_COL"))
# check for Becker classification
expect_identical(as.character(as.mo("S. epidermidis", Becker = FALSE)), "B_STPHY_EPI")
@ -196,7 +196,7 @@ test_that("as.mo works", {
print(mo_renamed())
# check uncertain names
expect_equal(suppressWarnings(as.character(as.mo("esco extra_text", allow_uncertain = FALSE))), NA_character_)
expect_equal(suppressWarnings(as.character(as.mo("esco extra_text", allow_uncertain = FALSE))), "UNKNOWN")
expect_equal(suppressWarnings(as.character(as.mo("esco extra_text", allow_uncertain = TRUE))), "B_ESCHR_COL")
expect_warning(as.mo("esco extra_text", allow_uncertain = TRUE))