Merge pull request #268 from BCDA-APS/136-coveralls

re-enable coveralls

.github/dependabot.yml

@@ -0,0 +1,12 @@
+# Set update schedule for GitHub Actions
+# https://docs.github.com/en/code-security/dependabot/working-with-dependabot/keeping-your-actions-up-to-date-with-dependabot
+# https://docs.github.com/code-security/dependabot/dependabot-version-updates/configuration-options-for-the-dependabot.yml-file
+
+version: 2
+updates:
+
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      # Check for updates to GitHub Actions every week
+      interval: "weekly"

.github/workflows/unit-tests-pytest.yml → .github/workflows/code.yml

@@ -1,4 +1,4 @@
-name: Unit Tests
+name: CI
 
 on:
   # Triggers the workflow on push or pull request events but only for the main branch
@@ -17,29 +17,36 @@ defaults:
 jobs:
 
   lint:
-    name: Code style
+    name: Linting & Code style
     runs-on: ubuntu-latest
 
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v4
 
-      - uses: actions/setup-python@v4
+      - uses: actions/setup-python@v5
         with:
           python-version: "3.11"
 
-      - name: Install Dependencies
+      - name: Install package
         run: |
-          which python
-          which pip
+          set -vxeuo pipefail
           python -m pip install --upgrade pip
-          pip install flake8
+          pip install ruff flake8
 
       - name: Run flake8
-        run: |
-          flake8
-
-  test-matrix:
-    name: Python ${{ matrix.python-version }}
+        run: flake8
+
+      # # TODO: will replace flake8
+      # - name: Run ruff
+      #   uses: davidslusser/[email protected]
+      #   with:
+      #     # src: "."
+      #     # options: "--cov=src"
+      #     pip_install_command: "pip install -e .[dev]"
+      #     python_version: "3.11"
+
+  tests:
+    name: CI py${{ matrix.python-version }}
     runs-on: ubuntu-latest
     needs: lint
     strategy:
@@ -49,14 +56,17 @@ jobs:
           - "3.9"
           - "3.10"
           - "3.11"
+          # - "3.12"  # 2023-Q4  wait for upstreams to be ready
       max-parallel: 5
 
     steps:
     - name: Set time zone
       run: echo "TZ=America/Chicago" >> "$GITHUB_ENV"
 
     - name: Checkout the project from GitHub
-      uses: actions/checkout@v3
+      uses: actions/checkout@v4
+      with:
+        fetch-depth: 0
 
     - name: Diagnostics
       run: |
@@ -129,6 +139,7 @@ jobs:
 
     - name: Run Bluesky queueserver
       run: |
+        set -vxeuo pipefail
         conda env list
         pushd ./bluesky/
         bash ./qserver.sh run &
@@ -140,37 +151,44 @@ jobs:
 
     - name: Run tests with pytest & coverage
       run: |
+        set -vxeuo pipefail
         coverage run --concurrency=thread --parallel-mode -m pytest -vvv .
         coverage combine
-        coverage report --precision 3
-
-  #   - name: Gather coverage data from matrix run
-  #     shell: bash -l {0}
-  #     run: |
-  #       micromamba list coveralls
-  #       which coveralls
-  #       coveralls debug
-  #       coveralls --service=github
-  #     env:
-  #       GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
-  #       COVERALLS_FLAG_NAME: ${{ matrix.test-name }}
-  #       COVERALLS_PARALLEL: true
-
-  # # https://coveralls-python.readthedocs.io/en/latest/usage/configuration.html#github-actions-support
-  # coveralls:
-  #   name: Report unit test coverage to coveralls
-  #   needs: test-matrix
-  #   runs-on: ubuntu-latest
-  #   container: python:3-slim
-
-  #   steps:
-  #     - name: Gather coverage and report to Coveralls
-  #       run: |
-  #         echo "Finally!"
-  #         pip3 install --upgrade coveralls
-  #         # debug mode: output prepared json and reported files list to stdout
-  #         # https://coveralls-python.readthedocs.io/en/latest/troubleshooting.html
-  #         # coveralls debug
-  #         coveralls --service=github --finish
-  #       env:
-  #         GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        python -m coverage report --precision 3
+
+    - name: Force Install coveralls by pip
+      shell: bash -l {0}
+      run: |
+        python -m pip install --force-reinstall coveralls
+  
+    - name: Upload coverage data to coveralls.io
+      shell: bash -l {0}
+      run: |
+        set -vxeuo pipefail
+        python -m coveralls debug
+        python -m coveralls --service=github
+      env:
+        GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+        COVERALLS_FLAG_NAME: ${{ matrix.python-version }}
+        COVERALLS_PARALLEL: true
+
+  # https://coveralls-python.readthedocs.io/en/latest/usage/configuration.html#github-actions-support
+  coveralls:
+    name: Report unit test coverage to coveralls
+    needs: tests
+    runs-on: ubuntu-latest
+    container: python:3-slim
+
+    steps:
+      - name: Gather coverage and report to Coveralls
+        run: |
+          set -vxeuo pipefail
+          echo "Finally!"
+          pip3 install --upgrade coveralls
+          # debug mode: output prepared json and reported files list to stdout
+          # https://coveralls-python.readthedocs.io/en/latest/troubleshooting.html
+          coveralls debug
+          coveralls --service=github --finish
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+

environment.yml

@@ -96,6 +96,7 @@ dependencies:
   - uvicorn
 
   - pip:
+    - ophyd-registry
     - tiled
 
     - https://github.com/BCDA-APS/adl2pydm/archive/main.zip