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(v3.0.0.9007) allow any tidyselect language in as.sir()

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dr. M.S. (Matthijs) Berends
2025-07-17 14:29:35 +02:00
parent 0138e33ce9
commit 8dab0a3730
16 changed files with 123 additions and 113 deletions
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9
R/antibiogram.R
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@ -576,6 +576,15 @@ antibiogram.default <- function(x,
}
antimicrobials <- unlist(antimicrobials)
} else {
existing_ab_combined_cols <- ab_trycatch[ab_trycatch %like% "[+]" & ab_trycatch %in% colnames(x)]
if (length(existing_ab_combined_cols) > 0 && !is.null(ab_transform)) {
ab_transform <- NULL
warning_(
"Detected column name(s) containing the '+' character, which conflicts with the expected syntax in `antibiogram()`: the '+' is used to combine separate antimicrobial agent columns (e.g., \"AMP+GEN\").\n\n",
"To avoid incorrectly guessing which antimicrobials this represents, `ab_transform` was automatically set to `NULL`.\n\n",
"If this is unintended, please rename the column(s) to avoid using '+' in the name, or set `ab_transform = NULL` explicitly to suppress this message."
)
}
antimicrobials <- ab_trycatch
}