Ruff and UV

.github/workflows/ci.yaml

@@ -27,136 +27,113 @@ jobs:
           fetch-depth: 0
           ref: ${{ github.event.pull_request.head.sha }}
 
-      - name: Setup python
-        uses: actions/setup-python@v4
+      - name: Setup Python
+        uses: actions/setup-python@v6
         with:
-          python-version: 3.9
-          cache: "pip"
-          cache-dependency-path: requirements.txt
+          python-version-file: ".python-version"
 
-      - name: Install Dependencies
-        run: |
-          pip install --upgrade pip
-          pip install -r requirements.txt
-
-      - name: Run black
-        shell: bash
-        run: pre-commit run black --all-files
+      - name: Install uv
+        uses: astral-sh/setup-uv@v6
+        with:
+          enable-cache: true
 
-      - name: Run flake8
-        shell: bash
-        run: pre-commit run flake8 --all-files
+      - name: Install Dependencies
+        run: uv sync --locked --all-extras --dev
 
-      - name: Run docformatter
+      - name: Run ruff linter
         shell: bash
-        run: pre-commit run docformatter --all-files
+        run: uv run pre-commit run ruff-check --all-files
 
-      - name: Run pydocstyle
+      - name: Run ruff formatter
         shell: bash
-        run: pre-commit run pydocstyle --all-files
+        run: uv run pre-commit run ruff-format --all-files
 
       - name: Run mypy
         shell: bash
-        run: pre-commit run mypy --all-files
-   
+        run: uv run pre-commit run mypy --all-files
+
       - name: Run pytest with code coverage
         run: |
-          pytest --junitxml pytest.xml --cov=. --cov-report=term-missing --cov-report=xml:coverage.xml --cov-branch | tee pytest-coverage.txt
-
-      - name: Upload Coverage Results
-        uses: actions/upload-artifact@v3
-        with:
-          name: coverage-results
-          path: coverage.xml
-        if: ${{ always() }}
+          uv run pytest --junitxml pytest.xml --cov=. --cov-report=term-missing --cov-report=xml:coverage.xml --cov-branch | tee pytest-coverage.txt
 
       - name: Upload Unit Test Results
         if: always()
-        uses: actions/upload-artifact@v3
+        uses: actions/upload-artifact@v4
         with:
-          name: unit-test-py39
-          path: pytest.xml
+          name: unit-test-py312
+          path: |
+            pytest.xml
+            coverage.xml
+            pytest-coverage.txt
 
-      - name: Upload Unit Test Results
-        if: always()
-        uses: actions/upload-artifact@v3
-        with:
-          name: unit-test-py39
-          path: pytest-coverage.txt
-
   publish-test-results:
-      name: "Publish Unit Tests Results"
-      needs: pre-commit-and-test
-      runs-on: ubuntu-latest
-      if: always()
-      timeout-minutes: 20
-
-      steps:
-        - name: Download Artifacts
-          uses: actions/download-artifact@v3
-          with:
-            name: unit-test-py39
-            path: unit-test-py39
-
-        - name: Download coverage report
-          uses: actions/download-artifact@v3
-          with:
-            name: coverage-results
-
-        - name: Pytest coverage comment in pull-request
-          uses: MishaKav/pytest-coverage-comment@main
-          with:
-            default-branch: main
-            pytest-coverage-path: unit-test-py39/pytest-coverage.txt
-            junitxml-path: unit-test-py39/pytest.xml
-            hide-badge: true
-            hide-report: false
-            create-new-comment: false
-            hide-comment: false
-            report-only-changed-files: true
-
-        - name: Get the Coverage
-          shell: bash
-          run: |
-            regex='<coverage.+line-rate="([0-9).[0-9]+)".+>'
-            line=$(grep -oP $regex coverage.xml)
-            [[ $line =~ $regex ]]
-            coverage=$( bc <<< ${BASH_REMATCH[1]}*100 )
-            if (( $(echo "$coverage > 90" |bc -l) )); then
-              COLOR=green
-            else
-              COLOR=red
-            fi
-            echo "COVERAGE=${coverage%.*}%" >> $GITHUB_ENV
-            echo "COLOR=$COLOR" >> $GITHUB_ENV
-
-        - name: Create Coverage Badge
-          uses: schneegans/[email protected]
-          with:
-            auth: ${{ secrets.GIST_SECRET }}
-            gistID: ${{ secrets.GIST_ID }}
-            filename: coverage.${{ env.REPO_NAME }}.${{ github.event.number }}.json
-            label: coverage
-            message: ${{ env.COVERAGE }}
-            color: ${{ env.COLOR }}
-
-        - name: Find Comment
-          uses: peter-evans/find-comment@v2
-          id: fc
-          with:
-            issue-number: ${{ github.event.pull_request.number }}
-            comment-author: "github-actions[bot]"
-            body-includes: Current Branch | Main Branch
-
-        - name: Create coverage comment
-          uses: peter-evans/create-or-update-comment@v2
-          with:
-            comment-id: ${{ steps.fc.outputs.comment-id }}
-            issue-number: ${{  github.event.pull_request.number }}
-            reactions: eyes
-            body: |
-              Current Branch | Main Branch |
-              | ------ | ------ |
-              ![Coverage Badge](https://img.shields.io/endpoint?url=https://gist.githubusercontent.com/${{ env.GIST_OWNER }}/${{ secrets.GIST_ID }}/raw/coverage.${{ env.REPO_NAME }}.${{ github.event.number }}.json) | ![Coverage Badge](https://img.shields.io/endpoint?url=https://gist.githubusercontent.com/${{ github.repository_owner }}/${{ secrets.GIST_ID }}/raw/coverage.${{ env.REPO_NAME }}.main.json) |
-            edit-mode: replace
+    name: Publish Unit Tests Results
+    needs: pre-commit-and-test
+    runs-on: ubuntu-latest
+    if: always()
+    timeout-minutes: 20
+
+    steps:
+      - name: Download Artifacts
+        uses: actions/download-artifact@v4
+        with:
+          name: unit-test-py312
+          path: unit-test-py312
+
+      - name: Pytest coverage comment in pull-request
+        uses: MishaKav/pytest-coverage-comment@main
+        with:
+          default-branch: main
+          pytest-coverage-path: unit-test-py312/pytest-coverage.txt
+          pytest-xml-coverage-path: unit-test-py312/coverage.xml
+          junitxml-path: unit-test-py312/pytest.xml
+          hide-badge: true
+          hide-report: false
+          create-new-comment: false
+          hide-comment: false
+          report-only-changed-files: true
+
+      - name: Get the Coverage
+        shell: bash
+        run: |
+          regex='<coverage.+line-rate="([0-9).[0-9]+)".+>'
+          line=$(grep -oP $regex unit-test-py312/coverage.xml)
+          [[ $line =~ $regex ]]
+          coverage=$( bc <<< ${BASH_REMATCH[1]}*100 )
+          if (( $(echo "$coverage > 90" |bc -l) )); then
+            COLOR=green
+          else
+            COLOR=red
+          fi
+          echo "COVERAGE=${coverage%.*}%" >> $GITHUB_ENV
+          echo "COLOR=$COLOR" >> $GITHUB_ENV
+
+      - name: Create Coverage Badge
+        uses: schneegans/[email protected]
+        with:
+          auth: ${{ secrets.GIST_SECRET }}
+          gistID: ${{ secrets.GIST_ID }}
+          filename: coverage.${{ env.REPO_NAME }}.${{ github.event.number }}.json
+          label: coverage
+          message: ${{ env.COVERAGE }}
+          color: ${{ env.COLOR }}
+
+      - name: Find Comment
+        uses: peter-evans/find-comment@v2
+        id: fc
+        with:
+          issue-number: ${{ github.event.pull_request.number }}
+          comment-author: "github-actions[bot]"
+          body-includes: Current Branch | Main Branch
 
+      - name: Create coverage comment
+        uses: peter-evans/create-or-update-comment@v2
+        with:
+          comment-id: ${{ steps.fc.outputs.comment-id }}
+          issue-number: ${{  github.event.pull_request.number }}
+          reactions: eyes
+          body: |
+            Current Branch | Main Branch |
+            | ------ | ------ |
+            ![Coverage Badge](https://img.shields.io/endpoint?url=https://gist.githubusercontent.com/${{ env.GIST_OWNER }}/${{ secrets.GIST_ID }}/raw/coverage.${{ env.REPO_NAME }}.${{ github.event.number }}.json) | ![Coverage Badge](https://img.shields.io/endpoint?url=https://gist.githubusercontent.com/${{ github.repository_owner }}/${{ secrets.GIST_ID }}/raw/coverage.${{ env.REPO_NAME }}.main.json) |
+          edit-mode: replace

.github/workflows/merge.yaml

@@ -6,32 +6,36 @@ on:
 
 jobs:
   pre-commit-and-test:
-    name: "Pre-commit and Test Python 3.9"
+    name: Pre-commit and Test Python 3.12
     runs-on: ubuntu-latest
     if: always()
     timeout-minutes: 20
 
     steps:
-      - uses: actions/checkout@v3
-      - name: Setup python
-        uses: actions/setup-python@v4
+      - uses: actions/checkout@v5
+
+      - name: Setup Python
+        uses: actions/setup-python@v6
+        with:
+          python-version-file: ".python-version"
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v6
         with:
-          python-version: "3.9"
-          cache: "pip"
+          enable-cache: true
 
       - name: Install Dependencies
         run: |
-          pip install --upgrade pip
-          pip install -r requirements.txt
-          pip install pytest-github-actions-annotate-failures
-
+          uv sync --locked --all-extras --dev
+          uv pip install pytest-github-actions-annotate-failures
+
       - name: Install Graphviz
         uses: tlylt/install-graphviz@v1
 
       - name: PyTest with code coverage
         continue-on-error: true
         run: |
-          pytest --cov=. --cov-report=term-missing --cov-report=xml --cov-branch
+          uv run pytest --junitxml pytest.xml --cov=. --cov-report=term-missing --cov-report=xml:coverage.xml --cov-branch | tee pytest-coverage.txt
 
       - name: Get the Coverage
         shell: bash
@@ -47,7 +51,7 @@ jobs:
           fi
           echo "COVERAGE=${coverage%.*}%" >> $GITHUB_ENV
           echo "COLOR=$COLOR" >> $GITHUB_ENV
-      
+
       - name: Create Coverage Badge
         uses: schneegans/[email protected]
         with:

.github/workflows/python-package-conda.yaml

@@ -21,38 +21,32 @@ jobs:
           ref: ${{ github.event.pull_request.head.sha }}
 
       - name: Setup python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v6
         with:
           architecture: x64
-          python-version: 3.9
-          cache: "pip"
-          cache-dependency-path: requirements.txt
+          python-version-file: ".python-version"
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v6
+        with:
+          enable-cache: true
 
       - name: Install Dependencies
         run: |
-          pip install --upgrade pip
-          pip install -r requirements.txt
-
-      - name: Run black
-        shell: bash
-        run: pre-commit run black --all-files
+          uv sync --locked --all-extras --dev
 
-      - name: Run flake8
+      - name: Run ruff linter
         shell: bash
-        run: pre-commit run flake8 --all-files
+        run: uv run pre-commit run ruff-check --all-files
 
-      - name: Run docformatter
+      - name: Run ruff formatter
         shell: bash
-        run: pre-commit run docformatter --all-files
-
-      - name: Run pydocstyle
-        shell: bash
-        run: pre-commit run pydocstyle --all-files
+        run: uv run pre-commit run ruff-format --all-files
 
       - name: Run mypy
         shell: bash
-        run: pre-commit run mypy --all-files
-   
+        run: uv run pre-commit run mypy --all-files
+
       - name: Run pytest with code coverage
         run: |
-          pytest --junitxml pytest.xml --cov=. --cov-report=term-missing --cov-report=xml:coverage.xml --cov-branch | tee pytest-coverage.txt
+          uv run pytest --junitxml pytest.xml --cov=. --cov-report=term-missing --cov-report=xml:coverage.xml --cov-branch | tee pytest-coverage.txt

.gitignore

@@ -81,9 +81,6 @@ target/
 profile_default/
 ipython_config.py
 
-# pyenv
-.python-version
-
 # pipenv
 #   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
 #   However, in case of collaboration, if having platform-specific dependencies or dependencies
@@ -127,3 +124,6 @@ dmypy.json
 
 # Pyre type checker
 .pyre/
+
+# Ruff
+.ruff_cache/