submissions-pilot5-datasetjson/.github/workflows/publish-ectd-bundle.yaml at main · RConsortium/submissions-pilot5-datasetjson · GitHub

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on:
    workflow_dispatch:
    push:
      branches:
        - main
      paths:
        - 'ectd_readme/README.qmd'
        - 'adrg/_adrg.qmd'
        - 'cover-letter/cover-letter.qmd'
        - 'pilot5-submission/**'
        - 'renv.lock'

name: Publish ECTD bundle

jobs:
    build-deploy:
      runs-on: ubuntu-latest
      permissions:
        contents: write
        pages: write
        id-token: write
      steps:
        - name: Check out repository
          uses: actions/checkout@v4
          with:
            submodules: recursive

        - name: Install Nix
          uses: DeterminateSystems/nix-installer-action@main
          with:
            logger: pretty
            log-directives: nix-installer=trace
            backtrace: full

        - name: Nix cache
          uses: DeterminateSystems/magic-nix-cache-action@main

        - name: Build development environment
          run: |
            nix-build

        - name: Render ADRG PDF (custom)
          env:
            QUARTO_PRINT_STACK: true
          run: |
            nix-shell --run 'quarto render adrg/adrg-quarto-pdf.qmd --to pdf'
          shell: bash

        - name: Publish ADRG HTML to QuartoPub
          env:
            QUARTO_PUB_AUTH_TOKEN: ${{ secrets.QUARTO_PUB_AUTH_TOKEN }}
          run: |
            nix-shell --run "quarto publish --no-prompt --no-browser --id 91e55c70-e667-47c8-ae39-bd0284b68ca8 adrg/adrg-quarto-html.qmd"

        - name: Render ECTD README (custom)
          env:
            QUARTO_PRINT_STACK: true
          run: |
            nix-shell --run 'quarto render ectd_readme/README.qmd --to gfm'

        - name: Render cover letter (custom)
          env:
            QUARTO PRINT STACK: true
          run: |
            nix-shell --run 'quarto render cover-letter/cover-letter.qmd'

        - name: Set up object storage s3cmd cli tool
          uses: s3-actions/s3cmd@v1.6.1
          with:
            provider: linode
            region: 'us-east-1'
            access_key: ${{ secrets.S3_ACCESS_KEY }}
            secret_key: ${{ secrets.S3_SECRET_KEY }}

        - name: Publish ADRG PDF to object storage
          run: |
            s3cmd put adrg/adrg-quarto-pdf.pdf --mime-type 'application/pdf' --acl-public s3://rsubmission-draft/pilot4-container-adrg.pdf

        - name: Check out ECTD bundle destination repo
          uses: actions/checkout@v4
          with:
            repository: RConsortium/submissions-pilot5-datasetjson-to-fda
            path: ./submissions-pilot5-datasetjson-to-fda
            token: ${{ secrets.API_TOKEN_GITHUB }}

        - name: Create ECTD bundle
          run: bash ./.github/scripts/create-ectd-bundle.sh

        - name: Archive ECTD bundle
          uses: actions/upload-artifact@v4
          with:
            name: ectd-bundle-archive
            path: submissions-pilot5-datasetjson-to-fda
        - name: Push ECTD bundle repository
          run: bash ./.github/scripts/push-ectd-bundle.sh