From b11866af570bdbf830870421be3320304afb7d29 Mon Sep 17 00:00:00 2001
From: Matthijs Berends <m.s.berends@umcg.nl>
Date: Sat, 13 Sep 2025 14:02:59 +0200
Subject: [PATCH] (v3.0.0.9032) add GitHub Action for dev version of packages

---
 .../check-current-testthat-dev-versions.yaml  | 86 +++++++++++++++++++
 DESCRIPTION                                   |  4 +-
 NEWS.md                                       |  6 +-
 3 files changed, 91 insertions(+), 5 deletions(-)
 create mode 100644 .github/workflows/check-current-testthat-dev-versions.yaml

diff --git a/.github/workflows/check-current-testthat-dev-versions.yaml b/.github/workflows/check-current-testthat-dev-versions.yaml
new file mode 100644
index 000000000..af1ae5902
--- /dev/null
+++ b/.github/workflows/check-current-testthat-dev-versions.yaml
@@ -0,0 +1,86 @@
+# ==================================================================== #
+# TITLE:                                                               #
+# AMR: An R Package for Working with Antimicrobial Resistance Data     #
+#                                                                      #
+# SOURCE CODE:                                                         #
+# https://github.com/msberends/AMR                                     #
+#                                                                      #
+# PLEASE CITE THIS SOFTWARE AS:                                        #
+# Berends MS, Luz CF, Friedrich AW, et al. (2022).                     #
+# AMR: An R Package for Working with Antimicrobial Resistance Data.    #
+# Journal of Statistical Software, 104(3), 1-31.                       #
+# https://doi.org/10.18637/jss.v104.i03                                #
+#                                                                      #
+# Developed at the University of Groningen and the University Medical  #
+# Center Groningen in The Netherlands, in collaboration with many      #
+# colleagues from around the world, see our website.                   # 
+#                                                                      #
+# This R package is free software; you can freely use and distribute   #
+# it for both personal and commercial purposes under the terms of the  #
+# GNU General Public License version 2.0 (GNU GPL-2), as published by  #
+# the Free Software Foundation.                                        #
+# We created this package for both routine data analysis and academic  #
+# research and it was publicly released in the hope that it will be    #
+# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY.              #
+#                                                                      #
+# Visit our website for the full manual and a complete tutorial about  #
+# how to conduct AMR data analysis: https://amr-for-r.org              #
+# ==================================================================== #
+
+on:
+  pull_request:
+    # run in each PR in this repo
+    branches: '**'
+  push:
+    branches: '**'
+  schedule:
+    # also run a schedule everyday at 1 AM.
+    # this is to check that all dependencies are still available (see R/zzz.R)
+    - cron:  '0 1 * * *'
+
+name: check-recent
+
+jobs:
+  R-code-check:
+    runs-on: ${{ matrix.config.os }}
+
+    continue-on-error: ${{ matrix.config.allowfail }}
+
+    name: ${{ matrix.config.os }} (dev-pkgs)
+
+    strategy:
+      fail-fast: false
+      matrix:
+        config:
+          # current 'release' version on Ubuntu
+          - {os: ubuntu-latest,  r: 'release', allowfail: false}
+
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+      R_KEEP_PKG_SOURCE: yes
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          r-version: ${{ matrix.config.r }}
+          use-public-rspm: false
+          extra-repositories: >
+            https://tidyverse.r-universe.dev
+            https://r-lib.r-universe.dev
+            https://tidymodels.r-universe.dev
+            https://yihui.r-universe.dev
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          extra-packages: any::rcmdcheck
+          needs: check
+          upgrade: 'TRUE'
+
+      - uses: r-lib/actions/check-r-package@v2
+        with:
+          upload-snapshots: true
+          build_args: 'c("--no-manual","--compact-vignettes=gs+qpdf")'
diff --git a/DESCRIPTION b/DESCRIPTION
index 575e6fc58..7a34b7db4 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: AMR
-Version: 3.0.0.9031
-Date: 2025-09-12
+Version: 3.0.0.9032
+Date: 2025-09-13
 Title: Antimicrobial Resistance Data Analysis
 Description: Functions to simplify and standardise antimicrobial resistance (AMR)
   data analysis and to work with microbial and antimicrobial properties by
diff --git a/NEWS.md b/NEWS.md
index fd97c0436..4221e1a5c 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -1,9 +1,9 @@
-# AMR 3.0.0.9031
+# AMR 3.0.0.9032
 
 This is a bugfix release following the release of v3.0.0 in June 2025.
 
 ### Changed
-* Allow support for newest `ggplot2` v4.0.0
+* Fixed bugs introduced by `ggplot2` v4.0.0 (#236)
 * Fixed a bug in `antibiogram()` for when no antimicrobials are set
 * Fixed a bug in `antibiogram()` to allow column names containing the `+` character (#222)
 * Fixed a bug in `as.ab()` for antimicrobial codes with a number in it if they are preceded by a space
@@ -22,7 +22,7 @@ This is a bugfix release following the release of v3.0.0 in June 2025.
 * Added `names` to `age_groups()` so that custom names can be given (#215)
 * Added note to `as.sir()` to make it explicit when higher-level taxonomic breakpoints are used (#218)
 * Added antibiotic codes from the Comprehensive Antibiotic Resistance Database (CARD) to the `antimicrobials` data set (#225)
-* Updated Fosfomycin to be of antibiotic class 'Phosphonics' (#225)
+* Updated Fosfomycin to be of antibiotic class Phosphonics (#225)
 * Updated `random_mic()` and `random_disk()` to set skewedness of the distribution and allow multiple microorganisms