NEFSC-Spatial/.github/workflows/update_mdeb_data.yaml at main · NEFSC/NEFSC-Spatial · GitHub

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name: pull data from MDEB data hub

on:
  push:
    branches:
      - main2
  pull_request:
    branches:
      - main2
  #schedule:
    # uses UTC/GMT time (+ 5 hrs)
    ## put on HOLD temporarily
    #- cron: "0 17 * * 3" # Every Wednesday at 1200 hrs = 1700 UTC


jobs:

  build:
    runs-on: ubuntu-latest
    env:
      GITHUB_PAT: ${{ secrets.GH_RELEASE }}
      R_REMOTES_NO_ERRORS_FROM_WARNINGS: false

    steps:
      - name: Checkout repo
        uses: actions/checkout@v4
        with:
          fetch-depth: 0

      - name: set up pandoc
        uses: r-lib/actions/setup-pandoc@v2

      - name: Install command line packages
        run: |
          sudo apt update
          sudo apt-get install libcurl4-openssl-dev libgit2-dev
#          sudo apt-get install  libgdal-dev libcurl4-gnutls-dev libgit2-dev libudunits2-dev libharfbuzz-dev libfribidi-dev
        shell: bash

      - name: Set up R
        uses: r-lib/actions/setup-r@v2
        with:
          r-version: '4.2.0'

      - name: Install packages
        run: |
          install.packages(c("remotes","jsonlite", "dplyr", "httr2", "here", "sf","rmarkdown"))
          remotes::install_github("NEFSC/NEFSC-Spatial")
        shell: Rscript {0}

      - name: Pull MDEB data and save to repo
        run: |
          options(timeout = 60 * 60 * 6)
          source(here::here("data-raw/get_mdeb_for_package.R"))
          get_mdeb_for_package()
        shell: Rscript {0}

   - name: Make Comparisons for commit
      # check for new data added or data omitted. Not concerned with data fixes
      # update NEWS.md, DESCRIPTION with version/notes
      # increments package version in description
        run: |
          options(timeout = 60 * 60 * 6)
          source(here::here("data-raw/compare_data.r"))
          source(here::here("data-raw/update_description.R"))
          source(here::here("data-raw/update_news.R"))
          diffs <- compare_data()
          version <- update_description(diffs, digit=3)
          update_news(version, diffs)
          rmarkdown::render(here::here("data-raw/sendAsEmail.Rmd"),
                    params = diffs)

          saveRDS(version,here::here("data-raw/version.rds"))
        shell: Rscript {0}

      - name: render readme.rmd
        run: |
          options(timeout = 60 * 60 * 6)
          rmarkdown::render(here::here("README.Rmd"))
        shell: Rscript {0}

      # Send email indicating if anything has changed
      # - name: Send email
      #   uses: dawidd6/action-send-mail@v3
      #
      #   with:
      #     server_address: smtp.gmail.com
      #     server_port: 465
      #
      #     username: ${{ secrets.MAIL_USERNAME }}
      #     password: ${{ secrets.MAIL_PASSWORD }}
      #
      #     subject: Github Actions job result
      #     to: andrew.beet@noaa.gov
      #
      #     from: NEFSCspatial GitHub
      #
      #     #body: file://${{github.workspace}}/data-raw/datapull.txt
      #
      #     html_body: file://${{github.workspace}}/data-raw/sendAsEmail.html
      #
      #     #attachments: ./data-raw/sendAsEmail.html
      #
      # - name: commit data files
      #   run: |
      #     git config user.name github-actions
      #     git config user.email github-actions@github.com
      #     git add data/*
      #     git add README.md
      #     git add NEWS.md
      #     git add DESCRIPTION
      #     git commit -m "automated mdeb pull from update_mdeb_data yml"
      #     git push
      #
      # - name: create gh-release
      #   run: |
      #       version <- readRDS(here::here("data-raw/version.rds"))
      #       if(!is.null(version)){
      #       usethis::use_github_release(publish = TRUE)
      #       }
      #   shell: Rscript {0}