conda_docker_pkgdown.yml

name: conda-docker-docs

on:
  push:
    branches:
      - deploy_0.5.0
      - rnasum-rpackage
env:
  atoken: ${{ secrets.ANACONDA_UPLOAD_TOKEN }}
  recipe_path: deploy/conda/recipe
  env_yaml_path: deploy/conda/env/yaml
  env_lock_path: deploy/conda/env/lock
  VERSION: '0.6.2' # versioned by bump2version

jobs:
  condarise-dockerise-document:
    # When merging to main and the commit message starts with 'Bump version:'
    if: "startsWith(github.event.head_commit.message, 'Bump version:')"
    name: Conda Docker Docs
    runs-on: ubuntu-latest
    defaults:
      run:
        shell: bash -l {0}

    steps:
      - name: Code checkout
        uses: actions/checkout@v3
      - name: Micromamba setup
        uses: mamba-org/setup-micromamba@v1
        with:
          environment-file: ${{ env.env_yaml_path }}/condabuild.yaml
      - name: 🐍 Conda pkg build and upload
        run: |
          conda mambabuild ${recipe_path} -c umccr -c conda-forge -c bioconda --token ${atoken}
      - name: 🔒 Conda lock
        run: |
          # 1. generate a combined lock file
          # 2. render platform-specific locks
          conda-lock lock --file ${env_yaml_path}/rnasum.yaml -p osx-64 -p linux-64
          conda-lock render --kind explicit -p osx-64 -p linux-64 conda-lock.yml --filename-template 'rnasum-{platform}.lock' && rm conda-lock.yml
          mv rnasum-*.lock ${env_lock_path}/
      - name: 💾 Commit lockfile
        run: |
          git status
          git config --local user.email "actions@github.com"
          git config --local user.name "GitHub Actions"
          MSG="[bot] Updating conda-lock files (v${VERSION})"
          git add .
          git commit -m "${MSG}"
          git push

      - name: 🌐 Website publish
        run: |
          micromamba env create -n pkgdownenv -f ${env_yaml_path}/pkgdown.yaml
          micromamba activate pkgdownenv
          rnasum.R --version
          Rscript -e "pkgdown::deploy_to_branch(pkg = '.', commit_message = paste(pkgdown:::construct_commit_message('.'), '- see https://umccr.github.io/RNAsum/'), branch = 'gh-pages', new_process = FALSE)"

      - name: 📥 Pull lock commit
        id: pull_lock_commit
        run: |
          git pull --no-rebase
          git --no-pager log --decorate=short --pretty=oneline -n3
          LATEST_COMMIT_HASH="$(git --no-pager log -1 --format='%H')"
          echo "latest_commit_hash=${LATEST_COMMIT_HASH}" >> ${GITHUB_OUTPUT}
      - name: 🔖 Create tag
        uses: actions/github-script@v6
        env:
          LATEST_COMMIT_HASH: ${{ steps.pull_lock_commit.outputs.latest_commit_hash }}
        with:
          script: |
            const the_tag_name = 'refs/tags/v' + process.env.VERSION
            const the_sha = process.env.LATEST_COMMIT_HASH
            github.rest.git.createRef({
              owner: context.repo.owner,
              repo: context.repo.repo,
              ref: the_tag_name,
              sha: the_sha
            })

      # work with tag from above
      - name: Code checkout
        uses: actions/checkout@v3
        with:
          ref: v${{ env.VERSION }}
      - name: 🏰 QEMU setup
        uses: docker/setup-qemu-action@v2
      - name: 🏯 Buildx setup
        uses: docker/setup-buildx-action@v2
        with:
          install: true
          config-inline: |
            [worker.oci]
              max-parallelism = 2
      - name: 🐙 GitHub CR login
        uses: docker/login-action@v2
        with:
          registry: ghcr.io
          username: ${{ github.actor }}
          password: ${{ secrets.GITHUB_TOKEN }}
      - name: 🐣 Lowercase repo
        env:
          REPO_NM: ${{ github.repository }}
        run: |
          echo "repo_nm: ${REPO_NM}"
          echo "REPO_NM_LC=${REPO_NM,,}" >> ${GITHUB_ENV}
      - name: 🐳 Docker img build and push
        uses: docker/build-push-action@v4
        with:
          tags: ghcr.io/${{ env.REPO_NM_LC }}:${{ env.VERSION }}
          context: .
          push: true
          platforms: linux/amd64