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Code Releases Activity

(v3.0.1.9103) Replace dead EC Union Register URLs; URL check no longer includes closing braces

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The pre-commit URL extractor captured the closing brace of \url{}, which
made the EC server redirect to the dead health.ec.europa.eu domain, after
which urlchecker::url_update() wrote that dead URL back into R/ab.R and R/av.R.

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
This commit is contained in:
dr. M.S. (Matthijs) BerendsandClaude Opus 5.5 committed 2026-10-04 19:53:40 +02:00
1 parent e42237ff0d
commit 4aafe9a676
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DESCRIPTION
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Package: AMR
Version: 3.0.1.9102
Version: 3.0.1.9103
Date: 2026-10-04
Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR)
NEWS.md
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# AMR 3.0.1.9102
# AMR 3.0.1.9103
Planned as v3.1.0, mid October 2026.
R/ab.R
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@@ -54,7 +54,7 @@
#' @section Source:
#' World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: \url{https://atcddd.fhi.no/atc_ddd_index/}
#'
#' European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://health.ec.europa.eu/documents/community-register/html/index_en.htm}
#' European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://ec.europa.eu/health/documents/community-register/html/index_en.htm}
#' @aliases ab
#' @return A [character] [vector] with additional class [`ab`]
#' @seealso
R/av.R
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#' @section Source:
#' World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: \url{https://atcddd.fhi.no/atc_ddd_index/}
#'
#' European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://health.ec.europa.eu/documents/community-register/html/reg_hum_atc.htm}
#' European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://ec.europa.eu/health/documents/community-register/html/reg_hum_atc.htm}
#' @aliases av
#' @return A [character] [vector] with additional class [`ab`]
#' @seealso
data-raw/_pre_commit_checks.R
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@@ -847,7 +847,7 @@ if (files_changed()) {
# Function to extract URLs from a file
extract_urls_from_file <- function(file_path) {
lines <- readLines(file_path, warn = FALSE)
urls <- stringr::str_extract_all(lines, "https?://[^\\s)\"'>]+")
urls <- stringr::str_extract_all(lines, "https?://[^\\s)\"'>}]+")
urls <- unlist(urls)
if (length(urls) == 0) {
return(NULL)
man/ab_property.Rd
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@@ -101,7 +101,7 @@ The function \code{\link[=set_ab_names]{set_ab_names()}} is a special column ren
World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: \url{https://atcddd.fhi.no/atc_ddd_index/}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://health.ec.europa.eu/documents/community-register/html/index_en.htm}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://ec.europa.eu/health/documents/community-register/html/index_en.htm}
}
\section{Download Our Reference Data}{
man/as.ab.Rd
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@@ -62,7 +62,7 @@ You can add your own manual codes to be considered by \code{\link[=as.ab]{as.ab(
World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: \url{https://atcddd.fhi.no/atc_ddd_index/}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://health.ec.europa.eu/documents/community-register/html/index_en.htm}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://ec.europa.eu/health/documents/community-register/html/index_en.htm}
}
\section{WHOCC}{
man/as.av.Rd
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@@ -44,7 +44,7 @@ Note: the \code{\link[=as.av]{as.av()}} and \code{\link[=av_property]{av_*}} fun
World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: \url{https://atcddd.fhi.no/atc_ddd_index/}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://health.ec.europa.eu/documents/community-register/html/reg_hum_atc.htm}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://ec.europa.eu/health/documents/community-register/html/reg_hum_atc.htm}
}
\section{WHOCC}{
man/av_property.Rd
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@@ -74,7 +74,7 @@ The function \code{\link[=av_url]{av_url()}} will return the direct URL to the o
World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: \url{https://atcddd.fhi.no/atc_ddd_index/}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://health.ec.europa.eu/documents/community-register/html/reg_hum_atc.htm}
European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: \url{https://ec.europa.eu/health/documents/community-register/html/reg_hum_atc.htm}
}
\section{Download Our Reference Data}{