main.yml

#  Copyright (c) University College London Hospitals NHS Foundation Trust
#
#  Licensed under the Apache License, Version 2.0 (the "License");
#  you may not use this file except in compliance with the License.
#  You may obtain a copy of the License at
#
#     http://www.apache.org/licenses/LICENSE-2.0
#
#  Unless required by applicable law or agreed to in writing, software
#  distributed under the License is distributed on an "AS IS" BASIS,
#  WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
#  See the License for the specific language governing permissions and
#  limitations under the License.
name: pixl-ci

on:
  push:
    branches:
      - main
  pull_request:
  workflow_dispatch:

# Only run actions on the most recent push to a branch
concurrency:
  group: "${{ github.workflow }}-${{ github.head_ref }}"
  cancel-in-progress: true

jobs:
  lint:
    runs-on: ubuntu-22.04
    timeout-minutes: 5
    steps:
      - name: Checkout
        uses: actions/checkout@v3

      - name: Ensure copyright and license header are present
        run: ./.github/linters/check_headers_exist.sh

      - name: Run pre-commit
        uses: pre-commit/action@v3.0.0
        with:
          extra_args: --all-files

      - name: Validate Docker Compose config file
        working-directory: .
        run: |
          cp .env.sample .env
          docker compose config --quiet

  hasher-tests:
    runs-on: ubuntu-22.04
    timeout-minutes: 10
    steps:
      - uses: actions/checkout@v3

      - name: Init Python
        uses: actions/setup-python@v4
        with:
          python-version: "3.10"
          cache: "pip"

      - name: Install package
        run: |
          pip install hasher/[test]

      - name: Run tests
        working-directory: hasher
        run: pytest
        env:
          ENV: test
          AZURE_KEY_VAULT_NAME: test
          AZURE_KEY_VAULT_SECRET_NAME: test

  core-tests:
    runs-on: ubuntu-22.04
    timeout-minutes: 10
    steps:
      - uses: actions/checkout@v3

      - name: Init Python
        uses: actions/setup-python@v4
        with:
          python-version: "3.10"
          cache: "pip"

      - name: Install Python dependencies
        run: |
          pip install pixl_core/[test]

      - name: Run tests
        working-directory: pixl_core/tests
        run: |
          pytest
        env:
          ENV: test

  dicom-de-id-tests:
    runs-on: ubuntu-22.04
    timeout-minutes: 10
    steps:
      - uses: actions/checkout@v3

      - name: Init Python
        uses: actions/setup-python@v4
        with:
          python-version: "3.9"
          cache: "pip"

      - name: Install Python dependencies
        run: |
          python -m pip install --upgrade pip
          pip install -e pixl_core
          pip install -e pixl_dcmd[test]

      - name: Run tests
        working-directory: pixl_dcmd
        run: |
          bin/run-tests.sh
        env:
          ENV: test

  cli-tests:
    runs-on: ubuntu-22.04
    timeout-minutes: 10
    steps:
      - uses: actions/checkout@v3

      - name: Init Python
        uses: actions/setup-python@v4
        with:
          python-version: "3.10"
          cache: "pip"

      - name: Install Python dependencies
        run: |
          pip install pixl_core/[test] cli/[test]

      - name: Run tests
        working-directory: cli/tests
        run: |
          ./run-tests.sh

  ehr-api-tests:
    runs-on: ubuntu-22.04
    timeout-minutes: 30
    steps:
      - uses: actions/checkout@v3

      - uses: docker/setup-buildx-action@v3
      # pre-build and cache the postgres container as installing python3 takes a while, doesn't push
      - name: Cache Docker layers
        uses: actions/cache@v3
        with:
          path: /tmp/.buildx-cache
          key: ${{ runner.os }}-buildx-${{ github.sha }}
          restore-keys: |
            ${{ runner.os }}-buildx-
      - uses: docker/build-push-action@v5
        with:
          context: .
          file: docker/postgres/Dockerfile
          cache-from: type=local,src=/tmp/.buildx-cache
          cache-to: type=local,dest=/tmp/.buildx-cache-new,mode=max
      - # Temp fix
        # https://github.com/docker/build-push-action/issues/252
        # https://github.com/moby/buildkit/issues/1896
        name: Move cache
        run: |
          rm -rf /tmp/.buildx-cache
          mv /tmp/.buildx-cache-new /tmp/.buildx-cache

      - name: Init Python
        uses: actions/setup-python@v4
        with:
          python-version: 3.10.6
          cache: "pip"

      - name: Install Python dependencies
        run: |
          pip install pixl_core/[test] pixl_ehr/[test]

      - name: Run tests
        working-directory: pixl_ehr/tests
        run: |
          pytest

  pacs-api-tests:
    runs-on: ubuntu-22.04
    timeout-minutes: 10
    steps:
      - uses: actions/checkout@v3

      - name: Init Python
        uses: actions/setup-python@v4
        with:
          python-version: 3.10.6
          cache: "pip"

      - name: Install Python dependencies
        run: |
          pip install pixl_core/[test] pixl_pacs/[test]

      - name: Run tests
        working-directory: pixl_pacs/tests
        run: |
          ./run-tests.sh

  system-test:
    if: ${{ ! github.event.pull_request.draft || contains(github.event.pull_request.title, '[force-system-test]') }}
    runs-on: ubuntu-22.04
    timeout-minutes: 30
    steps:
      - uses: actions/checkout@v3

      - uses: docker/setup-buildx-action@v3
      # pre-build and cache the postgres container as installing python3 takes a while, doesn't push
      - name: Cache Docker layers
        uses: actions/cache@v3
        with:
          path: /tmp/.buildx-cache
          key: ${{ runner.os }}-buildx-${{ github.sha }}
          restore-keys: |
            ${{ runner.os }}-buildx-
      - uses: docker/build-push-action@v5
        with:
          context: .
          file: docker/postgres/Dockerfile
          cache-from: type=local,src=/tmp/.buildx-cache
          cache-to: type=local,dest=/tmp/.buildx-cache-new,mode=max
      - # Temp fix
        # https://github.com/docker/build-push-action/issues/252
        # https://github.com/moby/buildkit/issues/1896
        name: Move cache
        run: |
          rm -rf /tmp/.buildx-cache
          mv /tmp/.buildx-cache-new /tmp/.buildx-cache

      - name: Init Python
        uses: actions/setup-python@v4
        with:
          python-version: 3.10.6
          cache: "pip"

      - name: Run tests
        working-directory: test
        run: |
          ./run-system-test.sh
      - name: Check ftp logs
        if: always()
        working-directory: test
        run: |
          docker logs system-test-ftp-server &&\
          docker logs system-test-orthanc-anon-1 --tail=1000