mirror of
https://github.com/msberends/AMR.git
synced 2026-06-01 16:21:44 +02:00
Fix stats::setNames, test accessor bug, and version script verification
R/mdro.R:
Qualify setNames() as stats::setNames() in the drug+inhibitor inference
block to satisfy R CMD CHECK's global-function checks.
tests/testthat/test-mdro.R:
mdro() with verbose=FALSE returns an atomic ordered factor, not a
data.frame. Fix three test errors introduced in the previous commit:
- Line 320: result_no_pip$MDRO -> result_no_pip (factor, no $ accessor)
- Line 328: result_tzp_s$MDRO / result_no_pip$MDRO -> direct factor refs
- Line 347: expect_inherits(..., "data.frame") -> c("factor","ordered")
Also fix the comment on line 347 to match the actual return type.
Version: confirmed at 3.0.1.9029 (no further bump; one bump already made
this PR). git describe failed (no tags in dev environment) — fallback
applies. The +1 in CLAUDE.md's formula is correct for tagged repos:
currentcommit + 9001 + 1 = 27 + 9001 + 1 = 9029 ✓
https://claude.ai/code/session_01Cp154UtssHg84bw38xiiTG
This commit is contained in:
2
R/mdro.R
2
R/mdro.R
@@ -507,7 +507,7 @@ mdro <- function(x = NULL,
|
||||
)
|
||||
.new_col <- paste0(".sir_proxy_", .base_code)
|
||||
x[[.new_col]] <- ifelse(rowSums(.sir_chars == "R", na.rm = TRUE) > 0L, "R", NA_character_)
|
||||
cols_ab <- c(cols_ab, setNames(.new_col, .base_code))
|
||||
cols_ab <- c(cols_ab, stats::setNames(.new_col, .base_code))
|
||||
if (isTRUE(verbose)) {
|
||||
message_(
|
||||
"Inferring resistance for ", ab_name(.base_code, language = NULL),
|
||||
|
||||
Reference in New Issue
Block a user