From d2d4a933ff3b7e8c30eec7be4dc6626cb8d0e663 Mon Sep 17 00:00:00 2001
From: raivo-otus <rasmus.hindstrom@utu.fi>
Date: Tue, 2 Jun 2026 09:27:18 +0200
Subject: [PATCH 1/4] Add GHA to test package

Adds R CMD check and BiocCheck on push/merge to main
---
 .github/workflows/R-CMD-check.yaml | 30 ++++++++++++++++++++++++++++++
 1 file changed, 30 insertions(+)
 create mode 100644 .github/workflows/R-CMD-check.yaml

diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml
new file mode 100644
index 0000000..30869f8
--- /dev/null
+++ b/.github/workflows/R-CMD-check.yaml
@@ -0,0 +1,30 @@
+on:
+  push:
+    branches: [main]
+  pull_request:
+    branches: [main]
+
+name: BioC-check
+
+jobs:
+  BioC-check:
+    runs-on: ubuntu-latest
+    container: bioconductor/bioconductor_docker:devel
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Install dependencies
+        run: |
+          options(repos = BiocManager::repositories())
+          BiocManager::install(c("rcmdcheck", "BiocCheck", "remotes"), ask = FALSE)
+          remotes::install_deps(dependencies = TRUE)
+        shell: Rscript {0}
+
+      - name: R CMD check
+        run: rcmdcheck::rcmdcheck(".", args = c("--no-manual", "--timings"), error_on = "error")
+        shell: Rscript {0}
+
+      - name: BiocCheck
+        run: BiocCheck::BiocCheck(getwd(), `new-package` = TRUE)
+        shell: Rscript {0}

From 4566f399efad8ca7898c5ab2392c8412f59c1799 Mon Sep 17 00:00:00 2001
From: raivo-otus <rasmus.hindstrom@utu.fi>
Date: Tue, 2 Jun 2026 12:48:40 +0200
Subject: [PATCH 2/4] trying to fix GHA

---
 .github/workflows/R-CMD-check.yaml | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml
index 30869f8..00e872a 100644
--- a/.github/workflows/R-CMD-check.yaml
+++ b/.github/workflows/R-CMD-check.yaml
@@ -6,6 +6,9 @@ on:
 
 name: BioC-check
 
+env:
+  FORCE_JAVASCRIPT_ACTIONS_TO_NODE24: true
+
 jobs:
   BioC-check:
     runs-on: ubuntu-latest

From b05f84666782326ae6783d68453f903fbe877c76 Mon Sep 17 00:00:00 2001
From: raivo-otus <rasmus.hindstrom@utu.fi>
Date: Tue, 2 Jun 2026 12:52:09 +0200
Subject: [PATCH 3/4] Add BiocStyle

---
 DESCRIPTION | 1 +
 1 file changed, 1 insertion(+)

diff --git a/DESCRIPTION b/DESCRIPTION
index a225cc6..7dc2060 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -28,6 +28,7 @@ Suggests:
     rmarkdown,
     testthat (>= 3.0.0),
     withr
+    BiocStyle
 VignetteBuilder: knitr
 Imports: 
     Rapp

From 11387d5cde05b74c2c30d2874df645678ee05938 Mon Sep 17 00:00:00 2001
From: raivo-otus <rasmus.hindstrom@utu.fi>
Date: Tue, 2 Jun 2026 12:54:22 +0200
Subject: [PATCH 4/4] missing colon

---
 DESCRIPTION | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index 7dc2060..682251d 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -27,7 +27,7 @@ Suggests:
     knitr,
     rmarkdown,
     testthat (>= 3.0.0),
-    withr
+    withr,
     BiocStyle
 VignetteBuilder: knitr
 Imports: