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AMR
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contrib update

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dr. M.S. (Matthijs) Berends 2023-01-12 23:16:05 +01:00
parent 51906d6f97
commit 33f269e2f4
5 changed files with 7 additions and 4 deletions
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3
DESCRIPTION
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@ -1,5 +1,5 @@
Package: AMR Package: AMR
Version: 1.8.2.9090 Version: 1.8.2.9091
Date: 2023-01-12 Date: 2023-01-12
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)
@ -21,6 +21,7 @@ Authors@R: c(
person(family = "Meijer", c("Bart", "C."), role = "ctb"), person(family = "Meijer", c("Bart", "C."), role = "ctb"),
person(family = "Mykhailenko", c("Dmytro"), role = "ctb"), person(family = "Mykhailenko", c("Dmytro"), role = "ctb"),
person(family = "Mymrikov", c("Anton"), role = "ctb"), person(family = "Mymrikov", c("Anton"), role = "ctb"),
person(family = "Norgan", c("Andrew", "P."), role = "ctb", comment = c(ORCID = "0000-0002-2955-2066")),
person(family = "Ny", c("Sofia"), role = "ctb", comment = c(ORCID = "0000-0002-2017-1363")), person(family = "Ny", c("Sofia"), role = "ctb", comment = c(ORCID = "0000-0002-2017-1363")),
person(family = "Salm", c("Jonas"), role = "ctb"), person(family = "Salm", c("Jonas"), role = "ctb"),
person(family = "Schade", c("Rogier", "P."), role = "ctb"), person(family = "Schade", c("Rogier", "P."), role = "ctb"),

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NEWS.md
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@ -1,4 +1,4 @@
# AMR 1.8.2.9090 # AMR 1.8.2.9091
*(this beta version will eventually become v2.0! We're happy to reach a new major milestone soon!)* *(this beta version will eventually become v2.0! We're happy to reach a new major milestone soon!)*
@ -117,8 +117,8 @@ We now added extensive support for antiviral agents! For the first time, the `AM
## Other ## Other
* Added Peter Dutey-Magni, Dmytro Mykhailenko, Anton Mymrikov, Andrew Norgan, and Jonas Salm as contributors, to thank them for their valuable input
* New website to make use of the new Bootstrap 5 and pkgdown 2.0. The website now contains results for all examples and will be automatically regenerated with every change to our repository, using GitHub Actions * New website to make use of the new Bootstrap 5 and pkgdown 2.0. The website now contains results for all examples and will be automatically regenerated with every change to our repository, using GitHub Actions
* Added Peter Dutey-Magni, Dmytro Mykhailenko, Anton Mymrikov, and Jonas Salm as contributors, to thank them for their valuable input
* All R and Rmd files in this project are now styled using the `styler` package * All R and Rmd files in this project are now styled using the `styler` package
* Set scalar conditional expressions (`&&` and `||`) where possible to comply with the upcoming R 4.3 * Set scalar conditional expressions (`&&` and `||`) where possible to comply with the upcoming R 4.3
* An enormous lot of code cleaning, fixing some small bugs on the way * An enormous lot of code cleaning, fixing some small bugs on the way

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R/sysdata.rda
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man/AMR.Rd
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@ -93,6 +93,7 @@ Other contributors:
\item Bart C. Meijer [contributor] \item Bart C. Meijer [contributor]
\item Dmytro Mykhailenko [contributor] \item Dmytro Mykhailenko [contributor]
\item Anton Mymrikov [contributor] \item Anton Mymrikov [contributor]
\item Andrew P. Norgan (\href{https://orcid.org/0000-0002-2955-2066}{ORCID}) [contributor]
\item Sofia Ny (\href{https://orcid.org/0000-0002-2017-1363}{ORCID}) [contributor] \item Sofia Ny (\href{https://orcid.org/0000-0002-2017-1363}{ORCID}) [contributor]
\item Jonas Salm [contributor] \item Jonas Salm [contributor]
\item Rogier P. Schade [contributor] \item Rogier P. Schade [contributor]

3
pkgdown/extra.js
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@ -41,7 +41,7 @@ $(document).ready(function() {
$("#ref-examples ~ div pre").html($("#ref-examples ~ div pre").html().replaceAll("# \\dontrun{", "")); $("#ref-examples ~ div pre").html($("#ref-examples ~ div pre").html().replaceAll("# \\dontrun{", ""));
$("#ref-examples ~ div pre").html($("#ref-examples ~ div pre").html().replaceAll("# }", "")); $("#ref-examples ~ div pre").html($("#ref-examples ~ div pre").html().replaceAll("# }", ""));
} }
// remove leading newline in code examples on changelog // remove leading newline in code examples on changelog
if ($("body .template-news").length > 0) { if ($("body .template-news").length > 0) {
$("body .template-news").html($("body .template-news").html().replaceAll('sourceCode R">\n<span', 'sourceCode R"><span')); $("body .template-news").html($("body .template-news").html().replaceAll('sourceCode R">\n<span', 'sourceCode R"><span'));
@ -56,6 +56,7 @@ $(document).ready(function() {
x = x.replace(/Thesis advisor/g, "(former) Doctoral advisor"); x = x.replace(/Thesis advisor/g, "(former) Doctoral advisor");
// contributors // contributors
x = x.replace("Alex", "Prof. Alex"); x = x.replace("Alex", "Prof. Alex");
x = x.replace("Andrew", "Dr. Andrew");
x = x.replace("Anthony", "Dr. Anthony"); x = x.replace("Anthony", "Dr. Anthony");
x = x.replace("Annick", "Dr. Annick"); x = x.replace("Annick", "Dr. Annick");
x = x.replace("Bart", "Dr. Bart"); x = x.replace("Bart", "Dr. Bart");