Merge branch 'main' into fix/memory_overload

Author: ceriottm

.codecov.yml

@@ -9,4 +9,4 @@ coverage:
       default:
         target: 90%
 
-comment: off
+comment: false

.github/dependabot.yml

@@ -0,0 +1,11 @@
+version: 2
+updates:
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: monthly
+    open-pull-requests-limit: 1
+    groups:
+      action-dependencies:
+        patterns:
+          - "*" # A wildcard to create one PR for all dependencies in the ecosystem

.github/workflows/build.yml

@@ -10,12 +10,15 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
+
     - name: Set up Python
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
-        python-version: "3.10"
-    - run: pip install tox
+        python-version: "3.13"
+
+    - name: install tests dependencies
+      run: python -m pip install tox
 
     - name: Test build integrity
       run: tox -e build

.github/workflows/docs.yml

@@ -11,13 +11,15 @@ jobs:
   build:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v3
+      - uses: actions/checkout@v4
+
       - name: setup Python
-        uses: actions/setup-python@v4
+        uses: actions/setup-python@v5
         with:
-          python-version: "3.10"
-      - name: install dependencies
-        run: |
-          python -m pip install tox
+          python-version: "3.13"
+
+      - name: install tests dependencies
+        run: python -m pip install tox
+
       - name: build documentation
         run: tox -e docs

.github/workflows/lint.yml

@@ -9,12 +9,15 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
+
     - name: Set up Python
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
-        python-version: "3.10"
-    - run: pip install tox
+        python-version: "3.13"
+
+    - name: install tests dependencies
+      run: python -m pip install tox
 
     - name: Lint the code
       run: tox -e lint

.github/workflows/release.yml

@@ -0,0 +1,41 @@
+name: Release
+
+on:
+  push:
+    tags: ["*"]
+
+jobs:
+  build:
+    name: Build distribution
+    runs-on: ubuntu-latest
+    environment:
+      name: pypi
+      url: https://pypi.org/project/skmatter
+    permissions:
+      id-token: write
+      contents: write
+
+    steps:
+    - uses: actions/checkout@v4
+      with:
+        fetch-depth: 0
+    - name: setup Python
+      uses: actions/setup-python@v5
+      with:
+        python-version: "3.13"
+    - run: python -m pip install tox
+    - name: Build package
+      run: tox -e build
+    - name: Publish distribution to PyPI
+      if: startsWith(github.ref, 'refs/tags/v')
+      uses: pypa/gh-action-pypi-publish@release/v1
+    - name: Publish to GitHub release
+      if: startsWith(github.ref, 'refs/tags/v')
+      uses: softprops/action-gh-release@v2
+      with:
+        files: |
+          dist/*.tar.gz
+          dist/*.whl
+        prerelease: ${{ contains(github.ref, '-rc') }}
+      env:
+        GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

.github/workflows/tests-dev.yml

@@ -0,0 +1,27 @@
+name: Tests dev
+
+on:
+  schedule:
+    # check once a week on mondays
+    - cron: '0 10 * * 1'
+
+jobs:
+  tests-dev:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-version: ["3.10", "3.13"]
+
+    steps:
+      - uses: actions/checkout@v4
+
+      - name: Set up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v5
+        with:
+          python-version: ${{ matrix.python-version }}
+
+      - name: Install tests dependencies
+        run: python -m pip install tox
+
+      - name: Run tests against scikit-learn dev version
+        run: tox -e tests-dev

.github/workflows/tests.yml

@@ -11,31 +11,28 @@ jobs:
     runs-on: ${{ matrix.os }}
     strategy:
       matrix:
-        include:
-          - os: ubuntu-22.04
-            python-version: "3.8"
-          - os: ubuntu-22.04
-            python-version: "3.11"
-          - os: macos-11
-            python-version: "3.8"
-          - os: macos-11
-            python-version: "3.11"
-          - os: windows-2019
-            python-version: "3.8"
-          - os: windows-2019
-            python-version: "3.11"
+        os: [ubuntu-latest, macos-latest, windows-latest]
+        python-version: ["3.10", "3.13"]
 
     steps:
-    - uses: actions/checkout@v3
+    - uses: actions/checkout@v4
 
     - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+      uses: actions/setup-python@v5
       with:
         python-version: ${{ matrix.python-version }}
-    - run: pip install tox
 
-    - name: run Python tests
-      run: tox -e tests
-    - uses: codecov/codecov-action@v3
+    - name: Install tests dependencies
+      run: python -m pip install tox coverage[toml]
+
+    - name: Run Python tests
+      run: |
+        tox -e tests
+        coverage xml
+
+    - name: upload to codecov.io
+      uses: codecov/codecov-action@v5
       with:
+        fail_ci_if_error: true
         files: ./tests/coverage.xml
+        token: ${{ secrets.CODECOV_TOKEN }}

.gitignore

@@ -1,12 +1,15 @@
+*.coverage*
 *.pyc
 *.ipynb_checkpoints*
 __pycache__
 *.egg-info
 *.swp
 *.swo
 *DS_Store
+_version.py
 
 .tox/
 build/
 dist/
 docs/src/examples
+sg_execution_times.rst

.readthedocs.yaml

@@ -7,9 +7,9 @@ version: 2
 
 # Set the version of Python and other tools we need
 build:
-  os: ubuntu-22.04
+  os: ubuntu-lts-latest
   tools:
-    python: "3.10"
+    python: "3.13"
 
 # Build documentation in the docs/ directory with Sphinx
 sphinx: