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fix for Salmonella group A, unit tests

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dr. M.S. (Matthijs) Berends
2023-02-10 16:47:25 +01:00
parent bc434db835
commit 03294c7901
8 changed files with 20 additions and 16 deletions
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8
R/mo.R
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@ -966,14 +966,14 @@ convert_colloquial_input <- function(x) {
out[x %like_case% "(viridans.* (strepto|^s).*|^vgs[^a-z]*$)"] <- "B_STRPT_VIRI"
# Salmonella in different languages, like "Salmonella grupo B"
out[x %like_case% "salmonella.* [bcd]$"] <- gsub(".*salmonella.* ([bcd])$",
out[x %like_case% "salmonella.* [abcd]$"] <- gsub(".*salmonella.* ([abcd])$",
"B_SLMNL_GRP\\U\\1",
x[x %like_case% "salmonella.* [bcd]$"],
x[x %like_case% "salmonella.* [abcd]$"],
perl = TRUE
)
out[x %like_case% "group [bcd] salmonella"] <- gsub(".*group ([bcd]) salmonella*",
out[x %like_case% "group [abcd] salmonella"] <- gsub(".*group ([abcd]) salmonella*",
"B_SLMNL_GRP\\U\\1",
x[x %like_case% "group [bcd] salmonella"],
x[x %like_case% "group [abcd] salmonella"],
perl = TRUE
)