cleaning up #10
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| # Workflow is triggered on label and check installation on various operating systems | |
| # This action is adapted from https://github.com/t4d-gmbh/stubbed_versioning | |
| name: Macos Install | |
| on: | |
| push: | |
| branches: | |
| - "main" | |
| - "117-elaborate-if-inla-jags-and-gsl-can-be-installed-via-systemrequirements" | |
| env: | |
| BUILD_LOC: "./build" | |
| BRANCH: ${{ github.head_ref || github.ref_name }} | |
| permissions: | |
| packages: read | |
| contents: write | |
| pull-requests: write | |
| repository-projects: write | |
| jobs: | |
| setup-and-install: | |
| name: macos-latest R release | |
| runs-on: macos-latest | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| steps: | |
| - name: prepare macos | |
| run: | | |
| brew install R | |
| brew install pkg-config | |
| brew install automake # needed to run autoconf | |
| - name: install GSL | |
| run: | | |
| brew install gsl | |
| - name: install JAGS | |
| run: | | |
| brew install jags | |
| # - name: install rjags | |
| # run: | | |
| # install.packages("rjags", type="source", repos=c(CRAN="https://cran.r-project.org")) | |
| # library("rjags") | |
| # shell: Rscript {0} | |
| - name: install INLA dependencies | |
| run: | | |
| brew install udunits | |
| brew install openssl@1.1 # s2 package | |
| brew install gdal # installs geos as dependency | |
| # for s2 fmesher terra) | |
| brew install proj # sf package | |
| - name: install INLA | |
| run: | | |
| install.packages("INLA", repos = c(CRAN = "https://cran.r-project.org", INLA = "https://inla.r-inla-download.org/R/stable"), dep = TRUE) | |
| shell: Rscript {0} | |
| - name: install pak | |
| run: | | |
| install.packages('pak', repos=c(CRAN="https://cran.r-project.org")) | |
| shell: Rscript {0} | |
| # - name: install from CRAN with pak | |
| # run: | | |
| # pak::pkg_install('abn', dependencies=TRUE) | |
| # library('abn') | |
| # shell: Rscript {0} | |
| - name: pak install from GitHub | |
| run: | | |
| pak::repo_add(INLA = "https://inla.r-inla-download.org/R/stable/") | |
| pak::pkg_install("furrer-lab/abn@${{ env.BRANCH }}", dependencies=TRUE) | |
| library('abn') | |
| shell: Rscript {0} | |
| - name: fetch the repository from GitHub | |
| uses: actions/checkout@v4 | |
| - name: deactivate the renv | |
| run: | | |
| renv::deactivate() | |
| shell: Rscript {0} | |
| - name: install from source | |
| run: | | |
| pak::local_install(dependencies=TRUE) | |
| shell: Rscript {0} | |
| - name: run the tests | |
| run: | | |
| pak::pak('r-lib/testthat') | |
| library("abn") | |
| testthat::test_local(path='tests', load_package='none') | |
| shell: Rscript {0} | |
| - name: Show checks outcome | |
| if: always() | |
| run: | | |
| echo ::group::Show testthat output | |
| find check -name 'testthat.Rout*' -exec cat '{}' \; || true | |
| echo ::endgroup:: | |
| shell: bash --noprofile --norc -e -o pipefail {0} |