added render_readme workflow, fixes #29

.github/workflows/render_readme.yml

@@ -0,0 +1,66 @@
+# Name of the workflow
+name: render-readme
+
+# Controls when the action will run. Triggers include:
+# 
+# - button trigger from github action page
+# - on changes to readme.Rmd
+
+on:
+  workflow_dispath:
+  push:
+    branches:
+      - 'main'
+    paths: 
+      - 'README.Rmd'
+
+# A workflow is made up of one or more jobs that can run sequentially or in parallel
+# Important: ubuntu-latest is not set up properly for R, so use macOS
+jobs:
+  render-readme:
+    runs-on: macos-latest
+    env:
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+    steps:
+      - name: Checkout repo
+        uses: actions/checkout@v2
+        with:
+          ref: main
+          fetch-depth: 0
+          persist-credentials: false # to avoid reusing these credentials when pushing
+
+      - name: Setup R
+      - uses: r-lib/actions/setup-r@v2
+
+      - name: Setup pandoc
+      - uses: r-lib/actions/setup-pandoc@v2
+
+      - name: Install dependencies
+        run: |
+          Sys.setenv(R_REMOTES_NO_ERRORS_FROM_WARNNINGS = "true")
+          options(install.packages.check.source = "no")
+          pkgs <- c("rmarkdown", "remotes")
+          install.packages(pkgs, repos = "https://cloud.r-project.org/")
+          remotes::install_github("epiverse-trace/epiparameter")
+        shell: Rscript {0}
+
+
+      - name: Compile the readme
+        run: |
+          rmarkdown::render("readme.Rmd")
+        shell Rscript {0}
+
+      - name: Commit files
+        run: |
+          git config --local user.email "action@github.com"
+          git config --local user.name "GitHub Action"
+          git add README.md
+          git diff-index --quiet HEAD || git commit -m "Automatic readme update"
+          
+          
+      - name: Push changes
+        uses: ad-m/github-push-action@master
+        with:
+          github_token: {{ secrets.GITHUB_TOKEN }}
+          branch: 'main'
+          force: true