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(v3.0.1.9059) Update taxonomy of microorganisms

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Matthijs Berends
2026-06-23 01:38:13 +02:00
committed by GitHub
parent 0af3f84655
commit 3f9f931777
123 changed files with 121928 additions and 94162 deletions
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10
tests/testthat/test-mo.R
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@@ -84,6 +84,16 @@ test_that("test-mo.R", {
# expect_warning(as.mo("Acinetobacter calcoaceticus/baumannii complex"))
# Issue #287: "X complex" fallback to "X" when complex is not a distinct taxon
expect_identical(as.character(suppressWarnings(as.mo("Proteus vulgaris complex"))), as.character(suppressWarnings(as.mo("Proteus vulgaris"))))
expect_identical(as.character(suppressWarnings(as.mo("Enterobacter cloacae complex"))), as.character(as.mo("Enterobacter cloacae complex")))
# Issue #288: abbreviated genus with exact species epithet match should win
expect_identical(
as.character(suppressWarnings(as.mo("S. apiospermum"))),
as.character(suppressWarnings(as.mo("Scedosporium apiospermum")))
)
# prevalent MO
expect_identical(
suppressWarnings(as.character(