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AMR
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This commit is contained in:
dr. M.S. (Matthijs) Berends 2023-02-18 13:08:08 +01:00
parent ba255ddb00
commit 8dcf101a9c
4 changed files with 9 additions and 9 deletions
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12
.github/prehooks/pre-commit vendored
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@ -36,8 +36,8 @@ if command -v Rscript > /dev/null; then
if [ "$(Rscript -e 'cat(all(c('"'pkgload'"', '"'devtools'"', '"'dplyr'"') %in% rownames(installed.packages())))')" = "TRUE" ]; then
Rscript -e "source('data-raw/_pre_commit_hook.R')"
currentpkg=$(Rscript -e "cat(pkgload::pkg_name())")
echo "-> Adding files in 'data-raw' and 'man' to this commit"
git add data-raw/*
echo "- Adding changed files in ./data-raw and ./man to this commit"
git add data-raw/* --quiet
git add man/*
git add R/sysdata.rda
git add NAMESPACE
@ -65,7 +65,7 @@ if [ "$currenttag" = "" ]; then
# there is no tag, so set tag to 0.0.1 and commit index to current count
currenttag="0.0.1"
currentcommit=$(git rev-list --count ${defaultbranch})
echo "- no git tags found, create one in format 'v(x).(y).(z)' - curently ${currentcommit} previous commits in ${defaultbranch}"
echo "- no git tags found, create one in format 'v(x).(y).(z)' - curently ${currentcommit} previous commits in '${defaultbranch}'"
else
# there is a tag, so base version number on that
currentcommit=$(git rev-list --count ${currenttagfull}..${defaultbranch})
@ -73,7 +73,7 @@ else
# tag is new, so this must become the version number
currentversion="$currenttag"
fi
echo "- latest tag is '${currenttagfull}', with ${currentcommit} previous commits in ${defaultbranch}"
echo "- latest tag is '${currenttagfull}', with ${currentcommit} previous commits in '${defaultbranch}'"
fi
if [ "$currentversion" = "" ]; then
# combine tag (e.g. 1.2.3) and commit number (like 5) increased by 9000 to indicate beta version
@ -84,7 +84,7 @@ echo "- ${currentpkg} pkg version set to ${currentversion}"
# set version number and date to DESCRIPTION file
sed -i -- "s/^Version: .*/Version: ${currentversion}/" DESCRIPTION
sed -i -- "s/^Date: .*/Date: $(date '+%Y-%m-%d')/" DESCRIPTION
echo "- updated DESCRIPTION"
echo "- updated version number and date in ./DESCRIPTION"
# remove leftover on macOS
rm -f DESCRIPTION--
# add to commit
@ -96,7 +96,7 @@ if [ -e "NEWS.md" ]; then
currentpkg=""
fi
sed -i -- "1s/.*/# ${currentpkg} ${currentversion}/" NEWS.md
echo "- updated NEWS.md"
echo "- updated version number in ./NEWS.md"
# remove leftover on macOS
rm -f NEWS.md--
# add to commit

2
DESCRIPTION
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@ -1,5 +1,5 @@
Package: AMR
Version: 1.8.2.9134
Version: 1.8.2.9135
Date: 2023-02-18
Title: Antimicrobial Resistance Data Analysis
Description: Functions to simplify and standardise antimicrobial resistance (AMR)

2
NEWS.md
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@ -1,4 +1,4 @@
# AMR 1.8.2.9134
# AMR 1.8.2.9135
*(this beta version will eventually become v2.0! We're happy to reach a new major milestone soon!)*

2
R/aa_helper_functions.R
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@ -1139,7 +1139,7 @@ try_colour <- function(..., before, after, collapse = " ") {
}
is_dark <- function() {
if (is.null(AMR_env$is_dark_theme)) {
!has_colour() || AMR_env$is_dark_theme <- tryCatch(isTRUE(getExportedValue("getThemeInfo", ns = asNamespace("rstudioapi"))()$dark), error = function(e) FALSE)
AMR_env$is_dark_theme <- !has_colour() || tryCatch(isTRUE(getExportedValue("getThemeInfo", ns = asNamespace("rstudioapi"))()$dark), error = function(e) FALSE)
}
isTRUE(AMR_env$is_dark_theme)
}