From 2de91cec089ad1d40d3d7a17c3a6f2949f51e1a2 Mon Sep 17 00:00:00 2001 From: VisruthSK <67435125+VisruthSK@users.noreply.github.com> Date: Wed, 22 Oct 2025 15:38:42 -0700 Subject: [PATCH 1/4] Add r command check GHA --- .github/.gitignore | 1 + .github/workflows/R-CMD-check.yaml | 51 ++++++++++++++++++++++++++++++ README.Rmd | 1 + 3 files changed, 53 insertions(+) create mode 100644 .github/.gitignore create mode 100644 .github/workflows/R-CMD-check.yaml diff --git a/.github/.gitignore b/.github/.gitignore new file mode 100644 index 000000000..2d19fc766 --- /dev/null +++ b/.github/.gitignore @@ -0,0 +1 @@ +*.html diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml new file mode 100644 index 000000000..562fe0ff6 --- /dev/null +++ b/.github/workflows/R-CMD-check.yaml @@ -0,0 +1,51 @@ +# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples +# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help +on: + push: + branches: [main, master] + pull_request: + +name: R-CMD-check.yaml + +permissions: read-all + +jobs: + R-CMD-check: + runs-on: ${{ matrix.config.os }} + + name: ${{ matrix.config.os }} (${{ matrix.config.r }}) + + strategy: + fail-fast: false + matrix: + config: + - {os: macos-latest, r: 'release'} + - {os: windows-latest, r: 'release'} + - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'} + - {os: ubuntu-latest, r: 'release'} + - {os: ubuntu-latest, r: 'oldrel-1'} + + 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 }} + http-user-agent: ${{ matrix.config.http-user-agent }} + use-public-rspm: true + + - uses: r-lib/actions/setup-r-dependencies@v2 + with: + extra-packages: any::rcmdcheck + needs: check + + - uses: r-lib/actions/check-r-package@v2 + with: + upload-snapshots: true + build_args: 'c("--no-manual","--compact-vignettes=gs+qpdf")' diff --git a/README.Rmd b/README.Rmd index 1502238b3..31cac8730 100644 --- a/README.Rmd +++ b/README.Rmd @@ -16,6 +16,7 @@ knitr::opts_chunk$set( [![CRAN_Status_Badge](https://www.r-pkg.org/badges/version/projpred?color=blue)](https://CRAN.R-project.org/package=projpred) +[![R-CMD-check](https://github.com/stan-dev/projpred/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/stan-dev/projpred/actions/workflows/R-CMD-check.yaml) # projpred [Stan Logo](https://mc-stan.org) From 508547a50137f863d620f5b8beccd1effff529d8 Mon Sep 17 00:00:00 2001 From: VisruthSK <67435125+VisruthSK@users.noreply.github.com> Date: Wed, 22 Oct 2025 16:44:57 -0700 Subject: [PATCH 2/4] Add stan-dev R universe as repo in workflow --- .github/workflows/R-CMD-check.yaml | 1 + 1 file changed, 1 insertion(+) diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml index 562fe0ff6..5468c5cc8 100644 --- a/.github/workflows/R-CMD-check.yaml +++ b/.github/workflows/R-CMD-check.yaml @@ -39,6 +39,7 @@ jobs: r-version: ${{ matrix.config.r }} http-user-agent: ${{ matrix.config.http-user-agent }} use-public-rspm: true + extra-repositories: https://stan-dev.r-universe.dev - uses: r-lib/actions/setup-r-dependencies@v2 with: From 5a1edcf3433d84fda4afecbe9d261d3fd8eab265 Mon Sep 17 00:00:00 2001 From: VisruthSK <67435125+VisruthSK@users.noreply.github.com> Date: Wed, 22 Oct 2025 16:59:57 -0700 Subject: [PATCH 3/4] Add BH as dependency --- .github/workflows/R-CMD-check.yaml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml index 5468c5cc8..2d09fd866 100644 --- a/.github/workflows/R-CMD-check.yaml +++ b/.github/workflows/R-CMD-check.yaml @@ -43,7 +43,9 @@ jobs: - uses: r-lib/actions/setup-r-dependencies@v2 with: - extra-packages: any::rcmdcheck + extra-packages: | + any::rcmdcheck + any::BH needs: check - uses: r-lib/actions/check-r-package@v2 From 616611a3e21d2b3802d0a42042f3bc26bc97709f Mon Sep 17 00:00:00 2001 From: VisruthSK <67435125+VisruthSK@users.noreply.github.com> Date: Wed, 22 Oct 2025 17:09:12 -0700 Subject: [PATCH 4/4] Added some more deps --- .github/workflows/R-CMD-check.yaml | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml index 2d09fd866..54661d0ec 100644 --- a/.github/workflows/R-CMD-check.yaml +++ b/.github/workflows/R-CMD-check.yaml @@ -46,6 +46,10 @@ jobs: extra-packages: | any::rcmdcheck any::BH + any::Rcpp + any::RcppEigen + any::RcppParallel + any::StanHeaders needs: check - uses: r-lib/actions/check-r-package@v2