removing google oauth2 authentication and replacing with opengwas jwt #253
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| on: | |
| push: | |
| branches: [main, master] | |
| pull_request: | |
| branches: [main, master] | |
| workflow_dispatch: | |
| schedule: | |
| - cron: '37 2 * * TUE' # run at 2:37am UTC on Tuesdays | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: macos-14, r: 'release'} | |
| - {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'} | |
| - {os: ubuntu-latest, r: 'oldrel-2'} | |
| - {os: ubuntu-latest, r: 'oldrel-3'} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| OPENGWAS_X_TEST_MODE_KEY: ${{ secrets.OPENGWAS_X_TEST_MODE_KEY }} | |
| 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: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: > | |
| any::rcmdcheck, | |
| randomForest=?ignore-before-r=4.1.0, | |
| car=?ignore-before-r=4.1.0, | |
| needs: check | |
| - name: Create and populate .Renviron file | |
| run: | | |
| echo OPENGWAS_X_TEST_MODE_KEY="$OPENGWAS_X_TEST_MODE_KEY" >> ~/.Renviron | |
| shell: bash | |
| - uses: r-lib/actions/check-r-package@v2 | |
| with: | |
| upload-snapshots: true | |
| args: 'c("--no-manual", "--as-cran")' | |
| error-on: '"error"' |