azure-pipeline-nightly.yml

schedules:
  - cron: "0 0 * * *"
    displayName: Nightly uploader
    branches:
      include:
        - master
    always: true
pr: none
trigger:
  branches:
    exclude:
      - "*"

jobs:
  - job: "build_and_push_linux"
    pool:
      vmImage: "ubuntu-latest"
    strategy:
      maxParallel: 8
    timeoutInMinutes: 360

    steps:
      - script: |
          git checkout master

      - bash: echo "##vso[task.prependpath]/opt/mambaforge/bin"
        displayName: Add conda to PATH

      - bash: |
          wget https://raw.githubusercontent.com/bioconda/bioconda-common/master/{common,install-and-set-up-conda,configure-conda}.sh
        displayName: Fetch bioconda install script

      - bash: |
          sudo mkdir -p /opt
          sudo chown -R $USER /opt
        displayName: Ensure cache has path to restore to

      - task: Cache@2
        inputs:
          path: "/opt/mambaforge"
          key: '"$(Agent.OS)" | install-and-set-up-conda.sh | configure-conda.sh | common.sh'
          cacheHitVar: CACHE_RESTORED
        displayName: Restore cache

      - script: bash install-and-set-up-conda.sh
        condition: ne(variables.CACHE_RESTORED, 'true')
        displayName: Install bioconda-utils

      # We reconfigure conda to use the right channel setup.
      # This has to be done after the cache is restored, because
      # the channel setup is not cached as it resides in the home directory.
      # We could use a system-wide (and therefore cached) channel setup,
      # but mamba does not support that at the time of implementation
      # (it ignores settings made by --system).
      - script: bash configure-conda.sh
        displayName: Configure conda

      - bash: |
          set -e
          eval "$(conda shell.bash hook)"
          conda activate bioconda
          conda build --token $ANACONDA_TOKEN --user bioconda --quiet recipes/bioconda-repodata-patches
        env:
          ANACONDA_TOKEN: $(ANACONDA_TOKEN)
        displayName: Rebuild and push the bioconda-repodata-patches package

      - bash: |
          set -e
          eval "$(conda shell.bash hook)"
          conda activate bioconda
          docker pull quay.io/dpryan79/mulled_container:latest

          export OSTYPE="linux-gnu"
          export CI="true"

          # build and push all leftover packages
          bioconda-utils build recipes config.yml \
              --docker --mulled-test --anaconda-upload --mulled-upload-target biocontainers \
              --prelint --exclude bioconda-repodata-patches
          docker rmi quay.io/dpryan79/mulled_container:latest
        env:
          QUAY_OAUTH_TOKEN: $(QUAY_OAUTH_TOKEN)
          ANACONDA_TOKEN: $(ANACONDA_TOKEN)
          INVOLUCRO_AUTH: $(INVOLUCRO_AUTH)
        displayName: Build and push leftover packages

  - job: "build_and_push_osx"
    pool:
      vmImage: "macOS-latest"
    strategy:
      maxParallel: 4
    timeoutInMinutes: 360

    steps:
      - script: |
          git checkout master

      - bash: echo "##vso[task.prependpath]/opt/mambaforge/bin"
        displayName: Add conda to PATH

      - bash: |
          wget https://raw.githubusercontent.com/bioconda/bioconda-common/master/{common,install-and-set-up-conda,configure-conda}.sh
        displayName: Fetch bioconda install script

      - bash: |
          sudo mkdir -p /opt
          sudo chown -R $USER /opt
        displayName: Ensure cache has path to restore to

      - task: Cache@2
        inputs:
          path: "/opt/mambaforge"
          key: '"$(Agent.OS)" | install-and-set-up-conda.sh | configure-conda.sh | common.sh'
          cacheHitVar: CACHE_RESTORED
        displayName: Restore cache

      - script: bash install-and-set-up-conda.sh
        condition: ne(variables.CACHE_RESTORED, 'true')
        displayName: Install bioconda-utils

      # We reconfigure conda to use the right channel setup.
      # This has to be done after the cache is restored, because
      # the channel setup is not cached as it resides in the home directory.
      # We could use a system-wide (and therefore cached) channel setup,
      # but mamba does not support that at the time of implementation
      # (it ignores settings made by --system).
      - script: bash configure-conda.sh
        displayName: Configure conda

      - bash: |
          set -e
          eval "$(conda shell.bash hook)"
          conda activate bioconda
          export OSTYPE="darwin"
          export CI="true"
          bioconda-utils build recipes config.yml \
              --anaconda-upload \
              --prelint
        env:
          QUAY_OAUTH_TOKEN: $(QUAY_OAUTH_TOKEN)
          ANACONDA_TOKEN: $(ANACONDA_TOKEN)
          INVOLUCRO_AUTH: $(INVOLUCRO_AUTH)
        displayName: Build and push leftover packages