- Ran reproduction_of_microorganisms.groups.R and reproduction_of_clinical_breakpoints.R
against the latest WHONET/AMRIE source (includes EUCAST 2026, CLSI 2025)
- Updated data/clinical_breakpoints.rda, microorganisms.codes.rda, microorganisms.groups.rda,
and data-raw/organisms.rds
- Fixed reproduction_of_microorganisms.groups.R: replaced base ifelse() with dplyr::if_else()
to preserve the <mo> S3 class; base ifelse() strips class attributes, causing
bind_rows() to fail with strict vctrs type checking in dplyr >= 1.1.0
- Added data-raw/_run_reproduction.R: non-interactive wrapper that overrides View(),
sets UTF-8 locale, and sources both scripts in the correct order
https://claude.ai/code/session_01S5vMqfsiJb59RN2Gyz1tDY
