Merge pull request #456 from openpharma/estimate_KM-deprecation #79
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| name: Deploy interactive vignette to visr.shinyapps.io/tte-tutorial/ | |
| on: | |
| push: | |
| branches: [ main ] | |
| workflow_dispatch: | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout repo | |
| uses: actions/checkout@v2 | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| # Fails when R=4.1.3 | |
| # https://community.rstudio.com/t/error-unhandled-exception-child-task-1049745496-failed-error-building-image-r-version-4-1-2-currently-unavailable/121461/4 | |
| r-version: '4.1.2' | |
| - name: Query R 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} | |
| - name: Cache R packages | |
| uses: actions/cache@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- | |
| - name: Install system dependencies | |
| run: | | |
| while read -r cmd | |
| do | |
| eval sudo $cmd | |
| done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "20.04"))') | |
| - name: Deploy to shinyapps.io | |
| run: | | |
| remotes::install_deps(dependencies = TRUE) | |
| remotes::install_cran("learnr") | |
| remotes::install_cran("MatrixModels") | |
| remotes::install_cran("ModelMetrics") | |
| remotes::install_cran("RcppArmadillo") | |
| remotes::install_cran("RcppEigen") | |
| remotes::install_cran("SparseM") | |
| remotes::install_cran("abind") | |
| remotes::install_cran("car") | |
| remotes::install_cran("carData") | |
| remotes::install_cran("caret") | |
| remotes::install_cran("shiny") | |
| remotes::install_cran("corrplot") | |
| remotes::install_cran("ggpubr") | |
| remotes::install_cran("ggrepel") | |
| remotes::install_cran("ggsci") | |
| remotes::install_cran("ggsignif") | |
| remotes::install_cran("polynom") | |
| remotes::install_cran("rstatix") | |
| remotes::install_cran("visR") | |
| remotes::install_cran("rsconnect") | |
| library('rsconnect'); | |
| setAccountInfo(name='visr', token=${{secrets.SHINYAPPS_TOKEN}}, secret=${{secrets.SHINYAPPS_SECRET}}) | |
| deployApp(appName = 'tte-tutorial', appDir = 'vignettes/interactive_tte_tutorial') | |
| shell: Rscript {0} |