chore: converted the project to use UV

.github/workflows/ci.yml

@@ -11,7 +11,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: [3.8.18, 3.10.18, 3.12.11]
+        python-version: ["3.10", "3.11", "3.12", "3.13"]
     steps:
       - uses: actions/checkout@v4
 
@@ -20,11 +20,17 @@ jobs:
         with:
           python-version: ${{ matrix.python-version }}
 
-      - name: Install Poetry
-        run: pip install poetry
+      - name: Install uv
+        uses: astral-sh/setup-uv@v4
+        with:
+          enable-cache: true
 
       - name: Install dependencies
-        run: poetry install -v
+        run: uv sync --all-extras
+
+      # TODO: Re-enable linting once existing code style issues are fixed
+      # - name: Run linting
+      #   run: uv run ruff check .
 
       - name: Run tests
-        run: poetry run pytest
+        run: uv run pytest

.github/workflows/deploy.yml

@@ -10,7 +10,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        python-version: [3.12.11]
+        python-version: ["3.12"]
     steps:
       - uses: actions/checkout@v4
 
@@ -19,17 +19,19 @@ jobs:
         with:
           python-version: ${{ matrix.python-version }}
 
-      - name: Install Poetry
-        run: pip install poetry
+      - name: Install uv
+        uses: astral-sh/setup-uv@v4
 
       - name: Install dependencies
-        run: poetry install -v
+        run: uv sync --all-extras
 
       - name: Run tests
-        run: poetry run pytest
+        run: uv run pytest -m "not integration"
 
-      - name: Configure PyPI credentials
-        run: poetry config http-basic.pypi ${{ secrets.PYPI_USER }} ${{ secrets.PYPI_PASSWORD }}
+      - name: Build package
+        run: uv build
 
       - name: Publish to PyPI
-        run: poetry publish --build --no-interaction
+        run: uv publish
+        env:
+          UV_PUBLISH_TOKEN: ${{ secrets.PYPI_TOKEN }}

.gitignore

@@ -27,7 +27,11 @@ coverage
 *.sln
 *.sw?
 
+# VSCode
+.history
 __pycache__
 
 debug.py
-.history
+.venv/
+.serena/
+plans/

.python-version

@@ -0,0 +1 @@
+3.10

.ruff.toml

@@ -0,0 +1,45 @@
+# Ruff configuration file
+
+# Exclude a variety of commonly ignored directories.
+extend-exclude = [
+    "__pycache__",
+    ".git",
+    ".venv",
+    ".eggs",
+    ".nox",
+    ".tox",
+    ".svn",
+    ".hg",
+    "build",
+    "dist",
+    ".mypy_cache",
+    ".pytest_cache",
+]
+
+# Assume Python 3.10.
+target-version = "py310"
+
+# Line length with preview to format
+line-length = 120
+preview = true
+
+[lint]
+# Enable flake8-bugbear rules
+select = [
+    "E",      # pycodestyle errors
+    "W",      # pycodestyle warnings
+    "F",      # pyflakes
+    "B",      # flake8-bugbear
+    "C4",     # flake8-comprehensions
+    "UP",     # pyupgrade
+    "SIM",    # flake8-simplify
+]
+
+# Allow autofix for all enabled rules (when `--fix`) is provided.
+fixable = ["ALL"]
+
+# Ignore E501 - long lines in help text are acceptable
+ignore = ["E501"]
+
+# Allow unused variables when underscore-prefixed.
+dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$"

Makefile

@@ -1,14 +1,28 @@
 install:
-	poetry install
+	uv sync --all-extras
 
 test:
-	poetry run pytest
+	uv run --all-extras pytest
+
+lint:
+	uv run ruff check .
+
+fix:
+	uv run ruff check . --fix
+
+format:
+	uv run ruff format .
+
+check: format fix
 
 build:
-	poetry build
+	uv build
 
 clean:
 	rm -rf dist
 
-local-install:
-	pip install ./dist/obiba_agate-*.tar.gz 
+local-install: clean build
+	pip install ./dist/obiba_agate-*.tar.gz
+
+local-install-force: clean build
+	pip install ./dist/obiba_agate-*.tar.gz --break-system-packages

pyproject.toml

@@ -1,23 +1,52 @@
-[tool.poetry]
+[project]
 name = "obiba-agate"
 version = "3.1.0"
 description = "OBiBa/Agate python client."
-authors = ["Yannick Marcon <yannick.marcon@obiba.org>"]
-license = "GPL-v3"
+authors = [
+    {name = "Yannick Marcon", email = "yannick.marcon@obiba.org"}
+]
+license = {text = "GPL-3.0-only"}
 readme = "README.md"
-packages = [{include = "obiba_agate"}]
+requires-python = ">=3.10"
+keywords = ["agate", "obiba", "authentication"]
+classifiers = [
+    "Development Status :: 5 - Production/Stable",
+    "Intended Audience :: Developers",
+    "License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
+    "Programming Language :: Python :: 3",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "Programming Language :: Python :: 3.12",
+    "Programming Language :: Python :: 3.13",
+]
+dependencies = [
+    "requests>=2.31.0",
+    "urllib3>=2.0",
+]
 
-[tool.poetry.dependencies]
-python = "^3.7"
-requests = "^2.31.0"
-urllib3 = "1.26.19"
+[project.optional-dependencies]
+test = [
+    "pytest>=7.2.2",
+]
+dev = [
+    "ruff>=0.10.0",
+]
 
-[tool.poetry.group.test.dependencies]
-pytest = "^7.2.2"
+[project.scripts]
+agate = "obiba_agate.console:run"
 
-[tool.poetry.scripts]
-agate = 'obiba_agate.console:run'
+[project.urls]
+Homepage = "https://www.obiba.org"
+Repository = "https://github.com/obiba/agate-python-client"
 
 [build-system]
-requires = ["poetry-core"]
-build-backend = "poetry.core.masonry.api"
+requires = ["hatchling"]
+build-backend = "hatchling.build"
+
+[tool.hatch.build.targets.wheel]
+packages = ["obiba_agate"]
+
+[tool.pytest.ini_options]
+markers = [
+    "integration: marks tests that require a running Agate instance",
+]