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Merge pull request #9 from nlmixr2/update-ci
Update continuous integration
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,48 +1,46 @@ | ||
| # 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 | ||
| branches: [main, master] | ||
| pull_request: | ||
| branches: [main, master] | ||
| release: | ||
| types: [published] | ||
| workflow_dispatch: | ||
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| name: pkgdown | ||
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| jobs: | ||
| pkgdown: | ||
| runs-on: macOS-latest | ||
| runs-on: ubuntu-latest | ||
| # Only restrict concurrency for non-PR jobs | ||
| concurrency: | ||
| group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }} | ||
| env: | ||
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | ||
| steps: | ||
| - uses: actions/checkout@v2 | ||
| - uses: actions/checkout@v3 | ||
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| - uses: r-lib/actions/setup-r@v1 | ||
| - uses: r-lib/actions/setup-pandoc@v2 | ||
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| - uses: r-lib/actions/setup-pandoc@v1 | ||
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| - name: Query dependencies | ||
| run: | | ||
| install.packages('remotes') | ||
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | ||
| writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | ||
| shell: Rscript {0} | ||
| - uses: r-lib/actions/setup-r@v2 | ||
| with: | ||
| use-public-rspm: true | ||
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| - name: Restore R package cache | ||
| uses: actions/cache@v2 | ||
| - uses: r-lib/actions/setup-r-dependencies@v2 | ||
| with: | ||
| path: ${{ env.R_LIBS_USER }} | ||
| key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }} | ||
| restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1- | ||
| extra-packages: any::pkgdown, local::. | ||
| needs: website | ||
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| - name: Install dependencies | ||
| run: | | ||
| remotes::install_deps(dependencies = TRUE) | ||
| install.packages("pkgdown", type = "binary") | ||
| - name: Build site | ||
| run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE) | ||
| shell: Rscript {0} | ||
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| - name: Install package | ||
| run: R CMD INSTALL . | ||
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| - name: Deploy package | ||
| run: | | ||
| git config --local user.email "[email protected]" | ||
| git config --local user.name "GitHub Actions" | ||
| Rscript -e 'pkgdown::deploy_to_branch(new_process = FALSE)' | ||
| - name: Deploy to GitHub pages 🚀 | ||
| if: github.event_name != 'pull_request' | ||
| uses: JamesIves/[email protected] | ||
| with: | ||
| clean: false | ||
| branch: gh-pages | ||
| folder: docs |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,50 @@ | ||
| # 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: | ||
| branches: [main, master] | ||
|
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| name: test-coverage | ||
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| jobs: | ||
| test-coverage: | ||
| runs-on: ubuntu-latest | ||
| env: | ||
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | ||
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| steps: | ||
| - uses: actions/checkout@v3 | ||
|
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| - uses: r-lib/actions/setup-r@v2 | ||
| with: | ||
| use-public-rspm: true | ||
|
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| - uses: r-lib/actions/setup-r-dependencies@v2 | ||
| with: | ||
| extra-packages: any::covr | ||
| needs: coverage | ||
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| - name: Test coverage | ||
| run: | | ||
| covr::codecov( | ||
| quiet = FALSE, | ||
| clean = FALSE, | ||
| install_path = file.path(Sys.getenv("RUNNER_TEMP"), "package") | ||
| ) | ||
| shell: Rscript {0} | ||
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| - name: Show testthat output | ||
| if: always() | ||
| run: | | ||
| ## -------------------------------------------------------------------- | ||
| find ${{ runner.temp }}/package -name 'testthat.Rout*' -exec cat '{}' \; || true | ||
| shell: bash | ||
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| - name: Upload test results | ||
| if: failure() | ||
| uses: actions/upload-artifact@v3 | ||
| with: | ||
| name: coverage-test-failures | ||
| path: ${{ runner.temp }}/package |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
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@@ -14,3 +14,4 @@ inst/doc | |
| /src/.Rhistory | ||
| /src/dparser/.* | ||
| *.so | ||
| docs | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,4 @@ | ||
| url: https://nlmixr2.github.io/dparser-R/ | ||
| template: | ||
| bootstrap: 5 | ||
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| Original file line number | Diff line number | Diff line change |
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| @@ -1,7 +1,3 @@ | ||
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| comment: false | ||
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| coverage: | ||
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