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added mo_shortname

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dr. M.S. (Matthijs) Berends
2018-09-05 10:51:46 +02:00
parent 790bd1622d
commit e39a9a8b05
8 changed files with 88 additions and 12 deletions
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2
tests/testthat/test-mo.R
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@ -14,6 +14,8 @@ test_that("as.mo works", {
expect_equal(as.character(as.mo("K. pneu rhino")), "KLEPNERH") # K. pneumoniae subspp. rhinoscleromatis
expect_equal(as.character(as.mo("Bartonella")), "BAR")
expect_equal(as.character(as.mo("S. pyo")), "STCPYO") # not Actinomyces pyogenes
expect_equal(as.character(as.mo("P. aer")), "PSEAER") # not Pasteurella aerogenes
expect_equal(as.character(as.mo("Negative rods")), "GNR")

6
tests/testthat/test-mo_property.R
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@ -10,6 +10,12 @@ test_that("mo_property works", {
expect_equal(mo_gramstain("E. coli"), "Negative rods")
expect_equal(mo_aerobic("E. coli"), TRUE)
expect_equal(mo_shortname("MRSA"), "S. aureus")
expect_equal(mo_shortname("MRSA", Becker = TRUE), "S. aureus")
expect_equal(mo_shortname("MRSA", Becker = "all"), "CoPS")
expect_equal(mo_shortname("S. aga"), "S. agalactiae")
expect_equal(mo_shortname("S. aga", Lancefield = TRUE), "GBS")
expect_equal(mo_type("E. coli", language = "de"), "Bakterien")
expect_equal(mo_gramstain("E. coli", language = "de"), "Negative Staebchen")