Use uv github actions

.github/workflows/on-push.yml

@@ -28,111 +28,60 @@ jobs:
         python-version: 3.x
     - uses: pre-commit/[email protected]
 
-  combine-environments:
-    runs-on: ubuntu-latest
-
-    steps:
-    - uses: actions/checkout@v5
-    - uses: actions/setup-python@v5
-      with:
-        python-version: 3.x
-    - name: Install conda-merge
-      run: |
-        python -m pip install conda-merge
-    - name: Combine environments
-      run: |
-        for SUFFIX in ci integration; do
-        conda-merge ci/environment-$SUFFIX.yml environment.yml > ci/combined-environment-$SUFFIX.yml || exit
-        done
-    - uses: actions/upload-artifact@v4
-      with:
-        name: combined-environments
-        path: ci/combined-environment-*.yml
-
   unit-tests:
     name: unit-tests
-    needs: combine-environments
     runs-on: ubuntu-latest
-    strategy:
-      matrix:
-        python-version: ['3.13']
 
     steps:
     - uses: actions/checkout@v5
-    - uses: actions/download-artifact@v5
+    - name: Install uv
+      uses: astral-sh/setup-uv@v6
       with:
-        name: combined-environments
-        path: ci
-    - name: Get current date
-      id: date
-      run: echo "date=$(date +%Y-%m-%d)" >> "${GITHUB_OUTPUT}"
-    - uses: mamba-org/setup-micromamba@v2
+        version: "0.7.20"
+        enable-cache: true
+    - name: "Set up Python"
+      uses: actions/setup-python@v5
       with:
-        environment-file: ci/combined-environment-ci.yml
-        environment-name: DEVELOP
-        cache-environment: true
-        cache-environment-key: environment-${{ steps.date.outputs.date }}
-        cache-downloads-key: downloads-${{ steps.date.outputs.date }}
-        create-args: >-
-          python=${{ matrix.python-version }}
-    - name: Install package
-      run: |
-        python -m pip install --no-deps -e .
-    - name: Run tests
-      run: |
-        make unit-tests COV_REPORT=xml
+        python-version-file: ".python-version"
+    - name: Run unit tests
+      run: uv run --frozen -m pytest .
 
   type-check:
-    needs: [combine-environments, unit-tests]
+    needs: [unit-tests]
     runs-on: ubuntu-latest
 
     steps:
     - uses: actions/checkout@v5
 
     - name: Install uv
-      uses: astral-sh/setup-uv@v5
+      uses: astral-sh/setup-uv@v6
       with:
+        version: "0.7.20"
         enable-cache: true
-        cache-dependency-glob: "uv.lock"
-
     - name: "Set up Python"
       uses: actions/setup-python@v5
       with:
         python-version-file: ".python-version"
-    - name: Install the project
-      run: uv sync --locked --all-extras --dev
-    - name: Run tests
-      # For example, using `pytest`
-      run: uv run mypy .
+    - name: Run type checking
+      run: uv run --frozen -m mypy .
 
   docs-build:
-    needs: [combine-environments, unit-tests]
+    needs: [unit-tests]
     runs-on: ubuntu-latest
 
     steps:
     - uses: actions/checkout@v5
-    - uses: actions/download-artifact@v5
+    - name: Install uv
+      uses: astral-sh/setup-uv@v6
       with:
-        name: combined-environments
-        path: ci
-    - name: Get current date
-      id: date
-      run: echo "date=$(date +%Y-%m-%d)" >> "${GITHUB_OUTPUT}"
-    - uses: mamba-org/setup-micromamba@v2
+        version: "0.7.20"
+        enable-cache: true
+    - name: "Set up Python"
+      uses: actions/setup-python@v5
       with:
-        environment-file: ci/combined-environment-ci.yml
-        environment-name: DEVELOP
-        cache-environment: true
-        cache-environment-key: environment-${{ steps.date.outputs.date }}
-        cache-downloads-key: downloads-${{ steps.date.outputs.date }}
-        create-args: >-
-          python=3.11
-    - name: Install package
-      run: |
-        python -m pip install --no-deps -e .
+        python-version-file: ".python-version"
     - name: Build documentation
-      run: |
-        make docs-build
+      run: uv run --frozen make docs-build
 
   integration-tests:
     needs: [unit-tests]
@@ -142,23 +91,21 @@ jobs:
     strategy:
       matrix:
         python-version:
-        - "3.10"
         - "3.11"
         - "3.12"
 
     steps:
     - uses: actions/checkout@v5
 
     - name: Install uv and set the python version
-      uses: astral-sh/setup-uv@v5
+      uses: astral-sh/setup-uv@v6
       with:
+        version: "0.7.20"
+        enable-cache: true
         python-version: ${{ matrix.python-version }}
 
-    - name: Install the project
-      run: uv sync --locked --dev
-
-    - name: Run tests
-      run: uv run pytest -vv
+    - name: Run unit tests
+      run: uv run --frozen -m pytest .
 
   minver-tests:
     needs: [unit-tests]
@@ -171,14 +118,9 @@ jobs:
 
     - name: Install uv and set the python version
       uses: astral-sh/setup-uv@v5
-      with:
-        python-version: "3.10"
-
-    - name: Install the project
-      run: uv sync --dev --resolution lowest-direct
 
     - name: Run tests
-      run: uv run pytest -vv
+      run: uv run --resolution lowest-direct -p python3.11 -m pytest .
 
   distribution:
     runs-on: ubuntu-latest

.pre-commit-config.yaml

@@ -1,6 +1,6 @@
 repos:
 - repo: https://github.com/pre-commit/pre-commit-hooks
-  rev: v5.0.0
+  rev: v6.0.0
   hooks:
   - id: trailing-whitespace
   - id: end-of-file-fixer
@@ -12,28 +12,27 @@ repos:
   - id: debug-statements
   - id: mixed-line-ending
 - repo: https://github.com/keewis/blackdoc
-  rev: v0.3.9
+  rev: v0.4.5
   hooks:
   - id: blackdoc
-    additional_dependencies: [black==23.11.0]
 - repo: https://github.com/astral-sh/ruff-pre-commit
-  rev: v0.11.9
+  rev: v0.14.3
   hooks:
   - id: ruff
     args: [--fix, --show-fixes]
   - id: ruff-format
 - repo: https://github.com/executablebooks/mdformat
-  rev: 0.7.22
+  rev: 1.0.0
   hooks:
   - id: mdformat
 - repo: https://github.com/macisamuele/language-formatters-pre-commit-hooks
-  rev: v2.14.0
+  rev: v2.15.0
   hooks:
   - id: pretty-format-yaml
     args: [--autofix, --preserve-quotes]
   - id: pretty-format-toml
     args: [--autofix]
 - repo: https://github.com/gitleaks/gitleaks
-  rev: v8.25.1
+  rev: v8.29.0
   hooks:
   - id: gitleaks

Makefile

@@ -6,13 +6,13 @@ COV_REPORT := html
 default: qa unit-tests type-check
 
 qa:
-	pre-commit run --all-files
+	uv run --frozen -m pre_commit run --all-files
 
 unit-tests:
-	python -m pytest -vv --cov=. --cov-report=$(COV_REPORT) --doctest-glob="*.md" --doctest-glob="*.rst"
+	uv run --frozen -m pytest -vv --cov=. --cov-report=$(COV_REPORT) --doctest-glob="*.md" --doctest-glob="*.rst"
 
 type-check:
-	python -m mypy .
+	uv run --frozen -m mypy .
 
 conda-env-update:
 	$(CONDA) install -y -c conda-forge conda-merge
@@ -35,4 +35,4 @@ docs-build:
 
 
 doc-test:
-	python -m pytest -vv --doctest-glob='*.md' README.md
+	uv run --frozen -m pytest -vv --doctest-glob='*.md' README.md

README.md

@@ -106,12 +106,12 @@ The following code applies the geometric terrain correction to the VV polarizati
 ```python
 >>> import sarsen
 >>> product = sarsen.Sentinel1SarProduct(
-...   "tests/data/S1B_IW_GRDH_1SDV_20211223T051122_20211223T051147_030148_039993_5371.SAFE",
-...   measurement_group="IW/VV",
+...     "tests/data/S1B_IW_GRDH_1SDV_20211223T051122_20211223T051147_030148_039993_5371.SAFE",
+...     measurement_group="IW/VV",
 ... )
 >>> gtc = sarsen.terrain_correction(
-...   product,
-...   dem_urlpath="tests/data/Rome-30m-DEM.tif",
+...     product,
+...     dem_urlpath="tests/data/Rome-30m-DEM.tif",
 ... )
 
 ```
@@ -120,9 +120,9 @@ The radiometric correction can be activated using the key `correct_radiometry`:
 
 ```python
 >>> rtc = sarsen.terrain_correction(
-...   product,
-...   dem_urlpath="tests/data/Rome-30m-DEM.tif",
-...   correct_radiometry="gamma_nearest"
+...     product,
+...     dem_urlpath="tests/data/Rome-30m-DEM.tif",
+...     correct_radiometry="gamma_nearest",
 ... )
 
 ```

pyproject.toml

@@ -6,12 +6,16 @@ requires = ["setuptools>=64", "setuptools_scm>=8"]
 dev = [
   "cfchecker>=4.1.0",
   "mypy>=1.15.0",
+  "myst-parser>=4.0.1",
   "pandas-stubs>=1.4.0",
+  "pre-commit>=4.3.0",
+  "pydata-sphinx-theme>=0.16.1",
   "pytest>=7.0",
   "pytest-cov>=5.0",
   "setuptools>=64.0",
   "shapely>=2.1",
-  "zarr>=2.18.3"
+  "sphinx-autoapi>=3.6.0",
+  "zarr>=2.18"
 ]
 
 [project]
@@ -22,29 +26,30 @@ classifiers = [
   "Operating System :: OS Independent",
   "Programming Language :: Python",
   "Programming Language :: Python :: 3",
-  "Programming Language :: Python :: 3.10",
   "Programming Language :: Python :: 3.11",
   "Programming Language :: Python :: 3.12",
   "Programming Language :: Python :: 3.13",
   "Topic :: Scientific/Engineering"
 ]
 dependencies = [
   "attrs>=24.0",
-  "dask>=2023.2.0",
-  "flox>=0.9.13",
-  "numpy>=1.23.0",
-  "pandas>=1.4.0",
+  "dask>=2024.6",
+  "flox>=0.9",
+  "numpy>=1.26",
+  "pandas>=2.2",
+  "rasterio>=1.3.5",
   "rioxarray>=0.15.0",
-  "typer>=0.11",
+  "scipy>=1.13",
+  "typer>=0.16",
   "xarray>=2023.12.0",
-  "xarray-sentinel>=0.9.3"
+  "xarray-sentinel>=0.9.6rc1"
 ]
 description = "Algorithms and utilities for Synthetic Aperture Radar (SAR) sensors"
 dynamic = ["version"]
 license = {file = "LICENSE"}
 name = "sarsen"
 readme = "README.md"
-requires-python = ">=3.10"
+requires-python = ">=3.11"
 
 [project.scripts]
 sarsen = "sarsen.__main__:app"

tests/test_60_main.py

@@ -1,12 +1,10 @@
-import pytest
 from typer.testing import CliRunner
 
 from sarsen import __main__
 
 runner = CliRunner()
 
 
-@pytest.mark.xfail()
 def test_main() -> None:
     res = runner.invoke(__main__.app, ["gtc", "--help"])
     assert res.exit_code == 0