htcondor.yaml

name: Test SnakemakeProfiles/htcondor
env:
  SNAKEMAKE_IMAGE: quay.io/biocontainers/snakemake:7.32.4--hdfd78af_1
  HTCONDOR_IMAGE: htcondor/mini:23.0-el8
  DOCKER_COMPOSE: tests/docker-compose.yaml

on: [push, pull_request]

jobs:
  htcondortest:
    name: Test htcondor profile in docker containers
    runs-on: ubuntu-latest
    timeout-minutes: 30
    steps:
      - uses: actions/checkout@v2
      - run: mkdir -p ~/image-cache
      - name: cache-conda
        uses: actions/cache@v2
        env:
          CACHE_NUMBER: 0
        with:
          path: ~/conda_pkgs_dir
          key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{ hashFiles('test-environment.yml') }}

      - uses: actions/cache@v2
        id: cache-images
        env:
          CACHE_NUMBER: 0
        with:
          path: ~/image-cache
          key: image-cache-${{ runner.os }}-${{ env.CACHE_NUMBER }}-${{ env.SNAKEMAKE_IMAGE }}-${{ env.HTCONDOR_IMAGE }}

      - name: install miniconda
        uses: conda-incubator/setup-miniconda@v2
        with:
          channels: conda-forge,bioconda,defaults
          channel-priority: true
          environment-file: test-environment.yml

      - name: docker swarm init
        run: docker swarm init

      - if: steps.cache-images.outputs.cache-hit == 'true'
        run: docker load -i ~/image-cache/snakemake.tar

      - if: steps.cache-images.outputs.cache-hit == 'true'
        run: docker load -i ~/image-cache/htcondor.tar

      - name: docker deploy
        shell: bash -l {0}
        env:
          DOCKER_COMPOSE: ${{ env.DOCKER_COMPOSE }}
          SNAKEMAKE_IMAGE: ${{ env.SNAKEMAKE_IMAGE }}
          HTCONDOR_IMAGE: ${{ env.HTCONDOR_IMAGE }}
        run: ./tests/deploystack.sh

      - if: steps.cache-images.outputs.cache-hit != 'true'
        run: docker save -o ~/image-cache/snakemake.tar ${{ env.SNAKEMAKE_IMAGE }}

      - if: steps.cache-images.outputs.cache-hit != 'true'
        run: docker save -o ~/image-cache/htcondor.tar ${{ env.HTCONDOR_IMAGE }}

      - name: run tests
        shell: bash -l {0}
        run: |
          pytest -v -s tests/test_cookie.py
          pytest -v -s tests/test_submit.py