Migrate from Pixi to UV

Migrate from Pixi to UV

Author: josenimo

.github/workflows/docs.yml

@@ -3,9 +3,7 @@ name: docs
 on:
   push:
     tags:
-      - 'v*'
-    branches:
-      - docs
+      - "v*"
 
 jobs:
   build-docs:
@@ -21,22 +19,25 @@ jobs:
       - name: Set up Python
         uses: actions/setup-python@v5
         with:
-          python-version: "3.12"
+          python-version-file: "pyproject.toml"
 
-      - name: Install Pixi with docs dependencies
-        uses: prefix-dev/setup-pixi@v0.8.0
+      - name: Install the latest version of uv
+        uses: astral-sh/setup-uv@v6
         with:
-            manifest-path: pyproject.toml
-            environments: docs
-            activate-environment: docs
-            log-level: vv
+          enable-cache: true
 
-      - name: Build documentation
-        run: sphinx-build -b html docs docs/_build/html
+      - name: Install dependencies
+        run: "uv sync"
+
+      - name: Build docs
+        run: uv run --group docs sphinx-build -b html docs docs/_build/html
 
       - name: Deploy to GitHub Pages
         uses: peaceiris/actions-gh-pages@v4
         with:
           github_token: ${{ secrets.GITHUB_TOKEN }}
           publish_dir: docs/_build/html
-          publish_branch: gh-pages
+          publish_branch: gh-pages
+
+      - name: Minimize uv cache
+        run: uv cache prune --ci

.github/workflows/publish.yml

@@ -6,26 +6,32 @@ on:
       - "v*" 
 
 jobs:
-  package_and_release:
+  publish:
     runs-on: ubuntu-latest
+
     steps:
-      - uses: actions/checkout@v3
-      - name: Set up Python 3.12
-        uses: actions/setup-python@v4
+      - uses: actions/checkout@v4
+
+      - name: "Set up Python"
+        uses: actions/setup-python@v5
+        with:
+          python-version-file: "pyproject.toml"
+
+      - name: Install the latest version of uv
+        uses: astral-sh/setup-uv@v6
         with:
-            python-version: "3.12"
-            cache: pip
-      - name: Install build dependencies
-        run: python -m pip install --upgrade pip wheel twine build
-      - name: Build package
-        run: python -m build
-      - name: Check package
-        run: twine check --strict dist/*.whl
-      - name: Install hatch
-        run: pip install hatch
-      - name: Build project for distribution
-        run: hatch build
+          enable-cache: true
+
+      - name: Build package (uv)
+        run: uv build
+
+      - name: Check package (twine)
+        run: uv run twine check --strict dist/*
+
       - name: Publish a Python distribution to PyPI
         uses: pypa/gh-action-pypi-publish@release/v1
         with:
-            password: ${{ secrets.PYPI_API_TOKEN }}
+          password: ${{ secrets.PYPI_API_TOKEN }}
+
+      - name: Minimize uv cache
+        run: uv cache prune --ci

.github/workflows/test.yml

@@ -3,48 +3,53 @@ name: Test
 on:
     push:
         branches: [main]
-        tags:
-            - "v*"
     pull_request:
         branches: "*"
 
 jobs:
     test:
         runs-on: ${{ matrix.os }}
+        
         defaults:
             run:
-                shell: bash -e {0} # -e to fail on error
+                shell: bash -e {0}
 
         strategy:
             fail-fast: false
             matrix:
               os: [ubuntu-latest, windows-latest, macos-latest]
               python: ["3.11", "3.12"]
+
         env:
             OS: ${{ matrix.os }}
             PYTHON: ${{ matrix.python }}
 
         steps:
             - uses: actions/checkout@v4
-            - uses: astral-sh/setup-uv@v5
+            - uses: astral-sh/setup-uv@v6
               id: setup-uv
               with:
                   version: "latest"
                   python-version: ${{ matrix.python }}
+                  enable-cache: true
+
             - name: Install dependencies
-              run: "uv sync --extra dev"
+              run: "uv sync"
 
             - name: Test
               env:
                   MPLBACKEND: agg
                   PLATFORM: ${{ matrix.os }}
                   DISPLAY: :42
-              run: |
-                  uv run pytest --cov --color=yes --cov-report=xml
-            - name: Upload coverage to Codecov
-              uses: codecov/codecov-action@v5
-              with:
-                  name: coverage
-                  verbose: true
-              env:
-                  CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
+              run: uv run pytest --cov --color=yes --cov-report=xml
+
+            # - name: Upload coverage to Codecov
+            #   uses: codecov/codecov-action@v5
+            #   with:
+            #       name: coverage
+            #       verbose: true
+            #   env:
+            #       CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
+
+            - name: Minimize uv cache
+              run: uv cache prune --ci

.gitignore

@@ -1,71 +1,35 @@
 # docs
 /docs/data/
 /docs/outputs/
+/docs/_build/
+/docs/build/
 
 # Byte-compiled / optimized / DLL files
 __pycache__/
 *.py[cod]
 *$py.class
 
-# C extensions
-*.so
+# Environment
+.venv
 
 # Distribution / packaging
 .Python
-build/
-develop-eggs/
 dist/
-downloads/
-eggs/
-.eggs/
-lib/
-lib64/
-parts/
-sdist/
-var/
-wheels/
-share/python-wheels/
-*.egg-info/
-.installed.cfg
-*.egg
-MANIFEST
 
 # Unit test / coverage reports
-htmlcov/
-.tox/
-.nox/
 .coverage
 .coverage.*
 .cache
 nosetests.xml
 coverage.xml
 *.cover
 *.py,cover
-.hypothesis/
 .pytest_cache/
-cover/
-uv.lock
-
-# Sphinx documentation
-/docs/_build/
-/docs/build/
-html/
 
 # Jupyter Notebook
 tests/*.ipynb
 notebooks
 .ipynb_checkpoints
 
-# IPython
-profile_default/
-ipython_config.py
-
-# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm
-__pypackages__/
-
-# pixi environments
-.pixi
-*.egg-info
-
 # ruff
 .ruff_cache

docs/api/generated/opendvp.plotting.imputation_qc.rst

@@ -0,0 +1,6 @@
+opendvp.plotting.imputation\_qc
+===============================
+
+.. currentmodule:: opendvp.plotting
+
+.. autofunction:: imputation_qc