run.yml

on:
  push:
  schedule:
    - cron: '0 0 1 * *' # every month

jobs:
  build:
    runs-on: ubuntu-latest
    name: run R script 
    
    env:
      GBIF_USER: ${{ secrets.GBIF_USER }}
      GBIF_PWD: ${{ secrets.GBIF_PWD }}
    
    steps:
      - uses: actions/checkout@v3
      - name: Setup R
        uses: r-lib/actions/setup-r@v2
        with:
          r-version: '4.2.2'
      - run: Rscript -e 'print("hello")'
      
      - name: Cache R packages
        uses: actions/cache@v3
        with:
          path: ${{ env.R_LIBS_USER }}
          key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-2-${{ hashFiles('.github/depends.Rds') }}
          restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-2-

      - name: Install pak
        run: |
          install.packages("pak", repos = "https://r-lib.github.io/p/pak/devel/")
        shell: Rscript {0}

      - name: Install dependencies
        run: |
          pak::pkg_install("jhnwllr/gbifmt")  
          pak::pkg_install(c("httr2","tibble","tidyr","rgbif","readr","purrr","dplyr", "ascii"))
        shell: Rscript {0}

      - name: build table 
        run: Rscript build-table-script/R/table.R
        
      # - name: update machine tags
        # run: Rscript build-table-script/R/mt.R
   
      - uses: stefanzweifel/git-auto-commit-action@v4