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(v3.0.1.9069) fix Python wrapper

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dr. M.S. (Matthijs) Berends
2026-06-24 20:27:39 +02:00
parent b6c1c26a5d
commit 4fac683fac
3 changed files with 3 additions and 3 deletions
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2
DESCRIPTION
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@@ -1,5 +1,5 @@
Package: AMR Package: AMR
Version: 3.0.1.9068 Version: 3.0.1.9069
Date: 2026-06-24 Date: 2026-06-24
Title: Antimicrobial Resistance Data Analysis Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR) Description: Functions to simplify and standardise antimicrobial resistance (AMR)

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NEWS.md
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@@ -1,4 +1,4 @@
# AMR 3.0.1.9068 # AMR 3.0.1.9069
Planned as v3.1.0, end of June 2026. Planned as v3.1.0, end of June 2026.

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R/sir.R
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@@ -525,7 +525,7 @@ as.sir.default <- function(x,
} else if (!all(is.na(x)) && !identical(levels(x), VALID_SIR_LEVELS) && !all(x %in% c(VALID_SIR_LEVELS, NA))) { } else if (!all(is.na(x)) && !identical(levels(x), VALID_SIR_LEVELS) && !all(x %in% c(VALID_SIR_LEVELS, NA))) {
if (all(x %unlike% "(S|I|R)", na.rm = TRUE) && !all(x %in% c(1, 2, 3, 4, 5), na.rm = TRUE)) { if (all(x %unlike% "(S|I|R)", na.rm = TRUE) && !all(x %in% c(1, 2, 3, 4, 5), na.rm = TRUE)) {
# check if they are actually MICs or disks # check if they are actually MICs or disks
if (all_valid_mics(x) && !(all_valid_disks(x) && identical(x, floor(x)))) { if (all_valid_mics(x) && !(all_valid_disks(x) && identical(x, tryCatch(floor(x), error = function(e) NULL)))) {
warning_("in {.help [{.fun as.sir}](AMR::as.sir)}: input values were guessed to be MIC values - preferably transform them with {.help [{.fun as.mic}](AMR::as.mic)} before running {.help [{.fun as.sir}](AMR::as.sir)}.") warning_("in {.help [{.fun as.sir}](AMR::as.sir)}: input values were guessed to be MIC values - preferably transform them with {.help [{.fun as.mic}](AMR::as.mic)} before running {.help [{.fun as.sir}](AMR::as.sir)}.")
return(as.sir(as.mic(x), ...)) return(as.sir(as.mic(x), ...))
} else if (all_valid_disks(x)) { } else if (all_valid_disks(x)) {