From c33dd4cdb5fed70b0e4a8284aa6dc981bfe5b937 Mon Sep 17 00:00:00 2001
From: walkowif <59475134+walkowif@users.noreply.github.com>
Date: Tue, 9 Apr 2024 16:20:17 +0200
Subject: [PATCH 1/2] Update packages in `build-check-install` workflow + run
 `staged.dependencies` conditionally (#222)

Signed-off-by: walkowif <59475134+walkowif@users.noreply.github.com>
Co-authored-by: cicdguy <26552821+cicdguy@users.noreply.github.com>
---
 .github/workflows/build-check-install.yaml | 25 +++++++++++++++++++++-
 1 file changed, 24 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/build-check-install.yaml b/.github/workflows/build-check-install.yaml
index 1bf22de7..6a53c524 100644
--- a/.github/workflows/build-check-install.yaml
+++ b/.github/workflows/build-check-install.yaml
@@ -174,6 +174,18 @@ on:
         required: false
         type: string
         default: ""
+      enable-sd:
+        description: |
+          Whether the installation of package dependencies via staged.dependencies should be enabled.
+        required: false
+        type: boolean
+        default: true
+      update-r-packages:
+        description: |
+          Whether R packages installed in the container should be updated to their latest version from CRAN/BioC.
+        required: false
+        type: boolean
+        default: false
 
 concurrency:
   group: r-cmd-${{ inputs.concurrency-group }}-${{ github.event.pull_request.number || github.ref }}
@@ -296,11 +308,13 @@ jobs:
           junit_xml_comparison_input="${{ inputs.junit-xml-comparison }}"
           junit_xml_positive_threshold="${{ inputs.junit-xml-positive-threshold }}"
           junit_xml_negative_threshold="${{ inputs.junit-xml-negative-threshold }}"
+          enable_sd="${{ inputs.enable-sd }}"
           echo "junit_xml_storage=${junit_xml_storage_input:-_junit_xml_reports}" >> $GITHUB_ENV
           echo "junit_xml_diff_branch=${junit_xml_diff_branch_input:-main}" >> $GITHUB_ENV
           echo "junit_xml_comparison=${junit_xml_comparison_input:-true}" >> $GITHUB_ENV
           echo "junit_xml_positive_threshold=${junit_xml_positive_threshold:-1.0}" >> $GITHUB_ENV
           echo "junit_xml_negative_threshold=${junit_xml_negative_threshold:-1.0}" >> $GITHUB_ENV
+          echo "enable_sd=${enable_sd:-true}" >> $GITHUB_ENV
         shell: bash
 
       - name: Restore npm cache 💰
@@ -338,8 +352,17 @@ jobs:
           key: sd-${{ runner.os }}-${{ github.event.repository.name }}
           path: ~/.staged.dependencies
 
+      - name: Update R packages 🗓️
+        if: >-
+          inputs.update-r-packages == true
+        run: |
+          update.packages()
+        shell: Rscript {0}
+
       - name: Run Staged dependencies 🎦
-        if: inputs.install-deps-from-package-repositories == ''
+        if: >-
+          env.enable_sd == 'true'
+            && inputs.install-deps-from-package-repositories == ''
         uses: insightsengineering/staged-dependencies-action@v1
         env:
           GITHUB_PAT: ${{ steps.github-token.outputs.token }}

From 301013daf982d557be1ac139c0046efe33f99401 Mon Sep 17 00:00:00 2001
From: walkowif <walkowif@users.noreply.github.com>
Date: Tue, 9 Apr 2024 14:21:19 +0000
Subject: [PATCH 2/2] [skip actions] Bump version to 0.1.0.9150

---
 .pre-commit-config.yaml | 4 ++--
 DESCRIPTION             | 4 ++--
 NEWS.md                 | 2 +-
 3 files changed, 5 insertions(+), 5 deletions(-)

diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index 6e937f41..a77b13cd 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -3,7 +3,7 @@
 # R specific hooks: https://github.com/lorenzwalthert/precommit
 repos:
   - repo: https://github.com/lorenzwalthert/precommit
-    rev: v0.4.0
+    rev: v0.4.1
     hooks:
       - id: style-files
         args: [--style_pkg=styler, --style_fun=tidyverse_style]
@@ -51,7 +51,7 @@ repos:
     hooks:
       - id: prettier
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.5.0
+    rev: v4.6.0
     hooks:
       - id: check-added-large-files
         args: ["--maxkb=200"]
diff --git a/DESCRIPTION b/DESCRIPTION
index 689e916b..e20d364a 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,8 +1,8 @@
 Type: Package
 Package: r.pkg.template
 Title: R Package Template
-Version: 0.1.0.9149
-Date: 2024-03-21
+Version: 0.1.0.9150
+Date: 2024-04-09
 Authors@R:
     person("insightsengineering", , , "insightsengineering@example.com", role = c("aut", "cre"))
 Description: R package template with GitHub Actions workflows included.
diff --git a/NEWS.md b/NEWS.md
index f9db321b..76ce8071 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -1,4 +1,4 @@
-# r.pkg.template 0.1.0.9149
+# r.pkg.template 0.1.0.9150
 
 ### New features