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Fix emend. author bug in get_author_year() and update ref documentation

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Strip emend. and everything after it so the ref column retains the
combination authority, not the emendation author. Update data.R and
mo_property.R docs to describe the correct semantics of the ref field.

https://claude.ai/code/session_01VH4Ju4Xq9aW1AHuoVbjGEo
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Claude
2026-05-02 14:34:45 +00:00
parent 0af3f84655
commit 9707450b89
5 changed files with 8 additions and 5 deletions
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NEWS.md
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@@ -1,4 +1,4 @@
# AMR 3.0.1.9057
# AMR 3.0.1.9058
Planned as v3.1.0, May 2026.
@@ -18,6 +18,7 @@ Planned as v3.1.0, May 2026.
* `as.mic()`: values in scientific notation (e.g. `1e-3`) now handled correctly
* `as.ab()`: codes containing "PH" or "TH" (e.g. `ETH`, `PHE`) no longer return `NA` when mixed with unrecognised input (#245)
* Combined MIC/SIR input values (e.g. `"<= 0.002; S"` or `"S; 0.002"`) now parsed correctly (#252)
* `get_author_year()` in the microorganism reproduction script now strips `emend.` and everything after it, so `ref` reflects the combination authority rather than the emendation author (e.g. *Rhodococcus equi* now returns "Goodfellow et al., 1977" instead of "Nouioui et al., 2018")
* BRMO classification now includes bacterial complexes (#275)
* Translation fixes for Italian CoNS/CoPS names (#256), Dutch antimicrobials, and `sir_df()` foreign-language output (#272)