06-Model AZMET data #1
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| #' This example runs an R script that errors when there are problems with the | |
| #' data, causing the action to fail on GitHub. It is set to run when changes | |
| #' are pushed to the main branch or when pull requests are made to the main | |
| #' branch, but *only* if the data/ folder has changes. You can also run it with | |
| #' a button on GitHub (`workflow_dispatch`). Compared to the simple | |
| #' `hello_world.yaml` example, this handles installing R packages differently. | |
| #' The required packages are in a renv.lock file created by the `renv` R package. | |
| #' This workflow uses the setup-renv action to install those needed packages and | |
| #' cache them so this step runs faster subsequent times. It also uses the `pak` | |
| #' package as a back-end to do the actual installing. `pak` is able to deterine | |
| #' any system libraries or command line tools an R package needs and installs | |
| #' those as well. | |
| on: | |
| workflow_dispatch | |
| name: Model AZMET data | |
| jobs: | |
| azmet: | |
| strategy: | |
| matrix: | |
| station_id: [az01, az02, az04, az05, az06, az07, az08, az09, az12, az14, az15, az19, az20, az22, az23, az24, az26, az27, az28, az32, az33, az35, az36, az37, az38, az39, az40, az41, az42, az43, az44] | |
| runs-on: ubuntu-latest | |
| env: | |
| RENV_CONFIG_PAK_ENABLED: TRUE #use the `pak` package for installing R packages—it automatically detects and install system dependencies on ubuntu | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: "renv" #use the same version of R recorded in renv.lock | |
| - name: Install R packages | |
| uses: r-lib/actions/setup-renv@v2 #uses `renv::restore()` | |
| - name: Run azmet.R | |
| run: | | |
| Rscript R/azmet.R | |
| env: | |
| AZMET_STATION: ${{ matrix.station_id }} #pass the station IDs defined in matrix: via an environment variable | |
| - name: Upload artifacts | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| path: output/* #upload everything in the output/ folder as an artifact | |
| name: ${{ matrix.station_id }} #name it the station ID name | |
| # a second job that combines the files generated by the jobs above | |
| combine: | |
| runs-on: ubuntu-latest | |
| needs: azmet #requires that the 'azmet' job is completed | |
| env: | |
| RENV_CONFIG_PAK_ENABLED: TRUE #use the `pak` package for installing R packages—it automatically detects and install system dependencies on ubuntu | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: "renv" #use the same version of R recorded in renv.lock | |
| - name: Install R packages | |
| uses: r-lib/actions/setup-renv@v2 #uses `renv::restore()` | |
| - name: Download artifacts | |
| uses: actions/download-artifact@v4 | |
| with: | |
| path: output/ | |
| merge-multiple: true #puts all of the artifacts in output/ rather than in subdirectories | |
| - name: Combine model reports | |
| run: Rscript R/combine.R | |
| # Uploads combined report as an artifact | |
| # Other options would be to commit this file (as in render_readme.yaml) | |
| # or to use something like rclone to copy the output to a cloud drive. | |
| # See https://github.com/marketplace/actions/setup-rclone-action and | |
| # https://rclone.org/ for examples. | |
| - name: Upload artifacts | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| path: output/model_report.csv | |
| name: model_report |