add rodent census 534 [minor] #1183
Workflow file for this run
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| # Install packages, update data, test, and archive | |
| name: CI | |
| on: | |
| push: | |
| branches: [ main ] | |
| pull_request: | |
| branches: [ main ] | |
| schedule: | |
| - cron: "0 18 * * 1,4" | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| jobs: | |
| build: | |
| if: contains(toJson(github.event.commits), '[skip ci]') == false | |
| runs-on: ubuntu-latest | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Tests will fail on PRs from forks | |
| if: github.event_name == 'pull_request' && github.event.pull_request.head.repo.full_name != github.repository | |
| run: | | |
| echo Tests require pull requests be submitted from branches in the main repository | |
| exit 1 | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 3 | |
| - name: Setup R (Ubuntu) | |
| uses: eddelbuettel/github-actions/r2u-setup@master | |
| - name: Install Python and packages | |
| run: | | |
| python -m pip install --upgrade pip | |
| python -m pip install pandas numpy landsatxplore | |
| - name: Install packages | |
| run: Rscript install-packages.R | |
| - name: Update data | |
| run: | | |
| echo WU_API_KEY = ${{ secrets.WU_API_KEY }} >> $HOME/.Renviron | |
| echo USGS_PASSWORD = ${{ secrets.USGS_PASSWORD }} >> $HOME/.Renviron | |
| R -e 'readRenviron("~/.Renviron")' | |
| Rscript update-data.R | |
| - name: Test | |
| run: Rscript testthat.R | |
| - name: Check for new files | |
| id: check_files | |
| run: | | |
| if [[ -z "$(git status --porcelain)" ]] ; then | |
| echo "Git status is empty" | |
| echo "diff=FALSE" >> $GITHUB_OUTPUT | |
| else | |
| echo "diff=TRUE" >> $GITHUB_OUTPUT | |
| fi | |
| - name: Bump version | |
| id: version | |
| env: | |
| LOG: ${{ github.event_name == 'pull_request' && '$(git log --no-merges --format=%B -n 1 HEAD^2)' || '$(git log --no-merges --format=%B -n 1 HEAD)' }} | |
| CRON: ${{ github.event_name == 'schedule' && 'TRUE' || 'FALSE' }} | |
| run: | | |
| R -e "source('version_bump.R'); bump_version('${{ env.LOG }}', ${{ env.CRON }}, ${{ steps.check_files.outputs.diff }})" | |
| if echo "$(git status --porcelain)" | grep -q version.txt ; then | |
| echo "Version changed" | |
| echo "new_ver=TRUE" >> $GITHUB_OUTPUT | |
| else | |
| echo "No version bump" | |
| echo "new_ver=FALSE" >> $GITHUB_OUTPUT | |
| fi | |
| - name: Setup Tag | |
| if: github.event_name != 'pull_request' && steps.version.outputs.new_ver == 'TRUE' | |
| id: tagging | |
| run: | | |
| value=`cat version.txt` | |
| echo "tag=$value" >> $GITHUB_OUTPUT | |
| value="v${value}" | |
| echo "release=$value" >> $GITHUB_OUTPUT | |
| - name: Tag new version for release | |
| if: github.event_name != 'pull_request' && steps.version.outputs.new_ver == 'TRUE' | |
| env: | |
| JOB_TAGS: ${{ github.event_name == 'schedule' && '[skip ci] [cron]' || '[skip ci]' }} | |
| uses: EndBug/add-and-commit@v9 | |
| with: | |
| author_name: Weecology Deploy Bot | |
| author_email: [email protected] | |
| message: "Update data and trigger archive: GitHub Build ${{ github.run_number }} ${{ env.JOB_TAGS }}" | |
| tag: ${{ steps.tagging.outputs.tag }} | |
| - name: Create Release | |
| if: github.event_name != 'pull_request' && steps.version.outputs.new_ver == 'TRUE' | |
| id: create_release | |
| uses: softprops/action-gh-release@v2 | |
| with: | |
| token: ${{ secrets.GITHUB_TOKEN }} | |
| tag_name: ${{ steps.tagging.outputs.tag }} | |
| name: ${{ steps.tagging.outputs.tag }} | |
| body: ${{ steps.tagging.outputs.release }} |