Merge branch 'dev' of https://github.com/biometryhub/biometryassist i… #186
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| on: | |
| push: | |
| branches: | |
| - main | |
| - dev | |
| #pull_request: | |
| # branches: | |
| # - master | |
| #schedule: | |
| # * is a special character in YAML so we have to quote this string | |
| # 3am Pacific = 11am UTC | |
| # https://crontab.guru is your friend | |
| # - cron: '0 17 * * *' | |
| name: test-coverage | |
| jobs: | |
| test-coverage: | |
| runs-on: ubuntu-22.04 | |
| env: | |
| RSPM: "https://packagemanager.rstudio.com/cran/__linux__/jammy/latest" | |
| vsni_LICENSE: ${{ secrets.vsni_LICENSE }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: r-lib/actions/setup-r@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Set up RSPM | |
| run: | | |
| echo "options(repos = c(CRAN = 'https://packagemanager.rstudio.com/all/__linux__/focal/latest'))" >> ~/.Rprofile.site | |
| echo "options(HTTPUserAgent = sprintf('R/%s R (%s)', getRversion(), paste(getRversion(), R.version['platform'], R.version['arch'], R.version['os'])))" >> ~/.Rprofile.site | |
| shell: bash | |
| - name: Query dependencies | |
| run: | | |
| install.packages('remotes') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| shell: Rscript {0} | |
| - name: Get R and OS version | |
| id: get-version | |
| run: | | |
| cat("##[set-output name=os-version;]", sessionInfo()$running, "\n", sep = "") | |
| cat("##[set-output name=r-version;]", R.Version()$version.string, sep = "") | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| uses: actions/cache@v3 | |
| with: | |
| path: ${{ env.R_LIBS_USER }} | |
| key: ${{ steps.get-version.outputs.os-version }}-${{ steps.get-version.outputs.r-version }}-${{ inputs.cache-version }}-${{ hashFiles('.github/depends.Rds') }} | |
| restore-keys: ${{ steps.get-version.outputs.os-version }}-${{ steps.get-version.outputs.r-version }}-${{inputs.cache-version }}- | |
| - name: Install dependencies | |
| run: | | |
| install.packages(c("remotes")) | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("covr") | |
| shell: Rscript {0} | |
| - name: Create and populate .Renviron file | |
| run: echo vsni_LICENSE="vsni_LICENSE" >> ~/.Renviron | |
| # - name: Licence ASreml | |
| # run: | | |
| # remotes::install_github("") | |
| # biometryassist::install_asreml() | |
| # shell: Rscript {0} | |
| - name: Test coverage | |
| run: covr::codecov() | |
| shell: Rscript {0} |