fix cohort issues #167
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| on: | |
| pull_request: | |
| branches: | |
| - main | |
| - master | |
| push: | |
| branches: | |
| - main | |
| - master | |
| paths: | |
| - .github/workflows/render-module-rmd.yaml | |
| - Biomass_core.Rmd | |
| - Biomass_core.R | |
| name: Render module Rmd | |
| jobs: | |
| render: | |
| if: "!contains(github.event.commits[0].message, '[skip-ci]')" | |
| name: Render module Rmd | |
| runs-on: ubuntu-20.04 | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| Ncpus: 2 | |
| - name: Install additional system dependencies | |
| run: | | |
| sudo apt-get install -y \ | |
| libcurl4-openssl-dev \ | |
| libgdal-dev \ | |
| libgeos-dev \ | |
| libgit2-dev \ | |
| libglpk-dev \ | |
| libmagick++-dev \ | |
| libproj-dev \ | |
| libudunits2-dev \ | |
| libxml2-dev \ | |
| python3-gdal | |
| - uses: PredictiveEcology/actions/install-Require@v0 | |
| with: | |
| GitTag: '5c44205bf407f613f53546be652a438ef1248147' | |
| - uses: PredictiveEcology/actions/install-SpaDES@v0 | |
| - uses: PredictiveEcology/actions/install-Rmd-pkgs@v0 | |
| - name: Install additional packages | |
| run: | | |
| options(repos = c(CRAN = "https://packagemanager.rstudio.com/all/__linux__/focal/latest", CRAN = "https://cran.rstudio.com")) | |
| Require::Require(c("PredictiveEcology/LandR@development"), require = FALSE) | |
| shell: Rscript {0} | |
| - name: Render module Rmd | |
| run: | | |
| rmarkdown::render("Biomass_core.Rmd", encoding = "UTF-8") | |
| shell: Rscript {0} | |
| - name: Commit results | |
| run: | | |
| git config user.email "[email protected]" | |
| git config user.name "GitHub Actions" | |
| git commit Biomass_core.html -m 'Re-build Biomass_core.Rmd' || echo "No changes to commit" | |
| git push https://${{github.actor}}:${{secrets.GITHUB_TOKEN}}@github.com/${{github.repository}}.git HEAD:${{github.ref}} || echo "No changes to commit" |