rebuild-mpxv.yaml

name: Rebuild mpxv

on:
  repository_dispatch:
    types:
      - rebuild
      - rebuild_mpxv

  workflow_dispatch:
    inputs:
      trial_name:
        description: "If set, result will be at nextstrain.org/staging/trial/${trial_name}/${auspice_name}"
        required: false
      image:
        description: 'Specific container image to use for build (will override the default of "nextstrain build")'
        required: false

jobs:
  set_config_overrides:
    runs-on: ubuntu-latest
    steps:
      - id: config
        name: Set config overrides
        env:
          TRIAL_NAME: ${{ inputs.trial_name }}
        run: |
          config=""
          if [[ "$TRIAL_NAME" ]]; then
            config+="--config"
            config+=" deploy_url='s3://nextstrain-staging/'"
            config+=" auspice_prefix='"$TRIAL_NAME"'"
          fi

          echo "config=$config" >> "$GITHUB_OUTPUT"
    outputs:
      config_overrides: ${{ steps.config.outputs.config }}

  rebuild_mpxv:
    needs: [set_config_overrides]
    permissions:
      id-token: write
    uses: nextstrain/.github/.github/workflows/pathogen-repo-build.yaml@master
    secrets: inherit
    with:
      runtime: aws-batch
      env: |
        NEXTSTRAIN_DOCKER_IMAGE: ${{ inputs.image }}
        CONFIG_OVERRIDES: ${{ needs.set_config_overrides.outputs.config_overrides }}
        GITHUB_RUN_ID: ${{ github.run_id }}
        SLACK_CHANNELS: ${{ inputs.trial_name && vars.TEST_SLACK_CHANNEL || vars.SLACK_CHANNELS }}
        BUILD_DIR: phylogenetic
        BUILD_NAME: mpxv
      run: |
        nextstrain build \
          --detach \
          --no-download \
          --cpus 8 \
          --memory 32gib \
          --env GITHUB_RUN_ID \
          --env SLACK_TOKEN \
          --env SLACK_CHANNELS \
          . \
            notify_on_deploy \
              --configfiles $BUILD_DIR/defaults/$BUILD_NAME/config.yaml $BUILD_DIR/build-configs/nextstrain-automation/config.yaml \
              $CONFIG_OVERRIDES --directory $BUILD_DIR --snakefile $BUILD_DIR/Snakefile