MAINT switch CI to use pixi

.coveragerc

@@ -1,21 +1,12 @@
-# Configuration for coverage.py
-
 [run]
 branch = True
-source = imblearn
-include = */imblearn/*
-omit =
-    */setup.py
 
 [report]
 exclude_lines =
-    pragma: no cover
-    def __repr__
     if self.debug:
-    if settings.DEBUG
-    raise AssertionError
+    pragma: no cover
     raise NotImplementedError
-    if 0:
-    if __name__ == .__main__.:
-    if self.verbose:
-show_missing = True
+ignore_errors = True
+omit =
+    */tests/*
+    **/setup.py

.github/ISSUE_TEMPLATE/other--blank-template-.md

@@ -6,5 +6,3 @@ labels: ''
 assignees: ''
 
 ---
-
-

.github/check-changelog.yml

@@ -0,0 +1,68 @@
+name: Check Changelog
+# This check makes sure that the changelog is properly updated
+# when a PR introduces a change in a test file.
+# To bypass this check, label the PR with "No Changelog Needed".
+on:
+  pull_request:
+    types: [opened, edited, labeled, unlabeled, synchronize]
+
+jobs:
+  check:
+    name: A reviewer will let you know if it is required or can be bypassed
+    runs-on: ubuntu-latest
+    if: ${{ contains(github.event.pull_request.labels.*.name, 'No Changelog Needed') == 0 }}
+    steps:
+      - name: Get PR number and milestone
+        run: |
+          echo "PR_NUMBER=${{ github.event.pull_request.number }}" >> $GITHUB_ENV
+          echo "TAGGED_MILESTONE=${{ github.event.pull_request.milestone.title }}" >> $GITHUB_ENV
+      - uses: actions/checkout@v4
+        with:
+          fetch-depth: '0'
+      - name: Check the changelog entry
+        run: |
+          set -xe
+          changed_files=$(git diff --name-only origin/main)
+          # Changelog should be updated only if tests have been modified
+          if [[ ! "$changed_files" =~ tests ]]
+          then
+            exit 0
+          fi
+          all_changelogs=$(cat ./doc/whats_new/v*.rst)
+          if [[ "$all_changelogs" =~ :pr:\`$PR_NUMBER\` ]]
+          then
+            echo "Changelog has been updated."
+            # If the pull request is milestoned check the correspondent changelog
+            if exist -f ./doc/whats_new/v${TAGGED_MILESTONE:0:4}.rst
+            then
+              expected_changelog=$(cat ./doc/whats_new/v${TAGGED_MILESTONE:0:4}.rst)
+              if [[ "$expected_changelog" =~ :pr:\`$PR_NUMBER\` ]]
+              then
+                echo "Changelog and milestone correspond."
+              else
+                echo "Changelog and milestone do not correspond."
+                echo "If you see this error make sure that the tagged milestone for the PR"
+                echo "and the edited changelog filename properly match."
+                exit 1
+              fi
+            fi
+          else
+            echo "A Changelog entry is missing."
+            echo ""
+            echo "Please add an entry to the changelog at 'doc/whats_new/v*.rst'"
+            echo "to document your change assuming that the PR will be merged"
+            echo "in time for the next release of imbalanced-learn."
+            echo ""
+            echo "Look at other entries in that file for inspiration and please"
+            echo "reference this pull request using the ':pr:' directive and"
+            echo "credit yourself (and other contributors if applicable) with"
+            echo "the ':user:' directive."
+            echo ""
+            echo "If you see this error and there is already a changelog entry,"
+            echo "check that the PR number is correct."
+            echo ""
+            echo "If you believe that this PR does not warrant a changelog"
+            echo "entry, say so in a comment so that a maintainer will label"
+            echo "the PR with 'No Changelog Needed' to bypass this check."
+            exit 1
+          fi

.github/dependabot.yml

@@ -0,0 +1,18 @@
+version: 2
+updates:
+  # Maintain dependencies for GitHub Actions as recommended in SPEC8:
+  # https://github.com/scientific-python/specs/pull/325
+  # At the time of writing, release critical workflows such as
+  # pypa/gh-action-pypi-publish should use hash-based versioning for security
+  # reasons. This strategy may be generalized to all other github actions
+  # in the future.
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "weekly"
+    groups:
+      actions:
+        patterns:
+          - "*"
+    reviewers:
+      - "glemaitre"

.github/workflows/circleci-artifacts-redirector.yml

@@ -1,14 +1,25 @@
-name: circleci-artifacts-redirector
+name: CircleCI artifacts redirector
 
 on: [status]
+
+# Restrict the permissions granted to the use of secrets.GITHUB_TOKEN in this
+# github actions workflow:
+# https://docs.github.com/en/actions/security-guides/automatic-token-authentication
+permissions:
+  statuses: write
+
 jobs:
   circleci_artifacts_redirector_job:
     runs-on: ubuntu-latest
+    # For testing this action on a fork, remove the "github.repository =="" condition.
+    if: "github.repository == 'scikit-learn-contrib/imbalanced-learn' && github.event.context == 'ci/circleci: doc'"
     name: Run CircleCI artifacts redirector
     steps:
       - name: GitHub Action step
-        uses: larsoner/circleci-artifacts-redirector-action@master
+        uses: scientific-python/circleci-artifacts-redirector-action@v1
         with:
           repo-token: ${{ secrets.GITHUB_TOKEN }}
-          artifact-path: doc/index.html
-          circleci-jobs: documentation
+          api-token: ${{ secrets.CIRCLE_CI }}
+          artifact-path: 0/doc/index.html
+          circleci-jobs: doc
+          job-title: Check the rendered docs here!

.github/workflows/linters.yml

@@ -0,0 +1,24 @@
+name: Run code format checks
+
+on:
+  push:
+    branches:
+      - "main"
+  pull_request:
+    branches:
+      - '*'
+
+jobs:
+  run-pre-commit-checks:
+    name: Run pre-commit checks
+    runs-on: ubuntu-latest
+
+    steps:
+      - uses: actions/checkout@v4
+      - uses: prefix-dev/setup-pixi@v0.8.1
+        with:
+          pixi-version: v0.31.0
+          frozen: true
+
+      - name: Run tests
+        run: pixi run -e linters linters

.github/workflows/tests.yml

@@ -0,0 +1,55 @@
+name: 'tests'
+
+on:
+  push:
+    branches:
+      - "main"
+  pull_request:
+    branches:
+      - '*'
+
+jobs:
+  test:
+    strategy:
+      matrix:
+        os: [windows-latest, ubuntu-latest, macos-latest]
+        environment: [
+            ci-py310-min-dependencies,
+            ci-py310-min-optional-dependencies,
+            ci-py310-min-keras,
+            ci-py310-min-tensorflow,
+            ci-py311-sklearn-1-3,
+            ci-py311-sklearn-1-4,
+            ci-py311-latest-keras,
+            ci-py311-latest-tensorflow,
+            ci-py312-latest-dependencies,
+            ci-py312-latest-optional-dependencies,
+        ]
+        exclude:
+            - os: windows-latest
+              environment: ci-py310-min-keras
+            - os: windows-latest
+              environment: ci-py310-min-tensorflow
+            - os: windows-latest
+              environment: ci-py311-latest-keras
+            - os: windows-latest
+              environment: ci-py311-latest-tensorflow
+    runs-on: ${{ matrix.os }}
+    steps:
+      - uses: actions/checkout@v4
+      - uses: prefix-dev/setup-pixi@v0.8.1
+        with:
+          pixi-version: v0.31.0
+          environments: ${{ matrix.environment }}
+          # we can freeze the environment and manually bump the dependencies to the
+          # latest version time to time.
+          frozen: true
+
+      - name: Run tests
+        run: pixi run -e ${{ matrix.environment }} tests -n 3
+
+      - name: Upload coverage reports to Codecov
+        uses: codecov/codecov-action@v4.5.0
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}
+          slug: scikit-learn-contrib/imbalanced-learn

.gitignore

@@ -127,3 +127,10 @@ doc/min_dependency_table.rst
 
 # MacOS
 .DS_Store
+
+# Pixi folder
+.pixi/
+
+# Generated files
+doc/min_dependency_substitutions.rst
+doc/sg_execution_times.rst

.pre-commit-config.yaml

@@ -5,19 +5,13 @@ repos:
     -   id: check-yaml
     -   id: end-of-file-fixer
     -   id: trailing-whitespace
--   repo: https://github.com/psf/black
-    rev: 23.3.0
-    hooks:
-    -   id: black
 -   repo: https://github.com/astral-sh/ruff-pre-commit
     # Ruff version.
-    rev: v0.0.272
+    rev: v0.4.8
     hooks:
     -   id: ruff
-        args: ["--fix", "--show-source"]
--   repo: https://github.com/pre-commit/mirrors-mypy
-    rev: v1.3.0
+        args: ["--fix", "--output-format=full"]
+-   repo: https://github.com/psf/black
+    rev: 23.3.0
     hooks:
-     -  id: mypy
-        files: imblearn/
-        additional_dependencies: [pytest==6.2.4]
+    -   id: black

README.rst

@@ -27,16 +27,16 @@
 .. |Black| image:: https://img.shields.io/badge/code%20style-black-000000.svg
 .. _Black: :target: https://github.com/psf/black
 
-.. |PythonMinVersion| replace:: 3.8
-.. |NumPyMinVersion| replace:: 1.17.3
-.. |SciPyMinVersion| replace:: 1.5.0
-.. |ScikitLearnMinVersion| replace:: 1.0.2
-.. |MatplotlibMinVersion| replace:: 3.1.2
-.. |PandasMinVersion| replace:: 1.0.5
-.. |TensorflowMinVersion| replace:: 2.4.3
-.. |KerasMinVersion| replace:: 2.4.3
-.. |SeabornMinVersion| replace:: 0.9.0
-.. |PytestMinVersion| replace:: 5.0.1
+.. |PythonMinVersion| replace:: 3.10
+.. |NumPyMinVersion| replace:: 1.24.3
+.. |SciPyMinVersion| replace:: 1.10.1
+.. |ScikitLearnMinVersion| replace:: 1.2.2
+.. |MatplotlibMinVersion| replace:: 3.7.3
+.. |PandasMinVersion| replace:: 1.5.3
+.. |TensorflowMinVersion| replace:: 2.13.1
+.. |KerasMinVersion| replace:: 3.0.5
+.. |SeabornMinVersion| replace:: 0.12.2
+.. |PytestMinVersion| replace:: 7.2.2
 
 imbalanced-learn
 ================