move tool config to pyproject.toml (GSI-544)

.github/workflows/check_pyproject.yaml

@@ -0,0 +1,16 @@
+name: Check if the config schema and the example are up to date.
+
+on: push
+
+jobs:
+  static-code-analysis:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v3
+
+      - id: common
+        uses: ghga-de/gh-action-common@v4
+
+      - name: Check pyproject.toml
+        run: |
+          ./scripts/update_pyproject.py --check

.pyproject_generation/pyproject_custom.toml

@@ -0,0 +1,19 @@
+[project]
+# please adapt to package name
+name = "my_microservice"
+version = "0.1.0"
+description = "My-Microservice - a short description"
+dependencies = [
+    "typer >= 0.9.0",
+    "ghga-service-commons[api] >= 1.2.0",
+    "ghga-event-schemas >= 1.0.0",
+    "hexkit[akafka,s3,mongodb] >= 1.1.0"
+]
+
+[project.urls]
+# please adapt to package name
+Repository = "https://github.com/ghga-de/my-microservice"
+
+[project.scripts]
+# please adapt to package name
+my-microservice = "my_microservice.__main__:run"

.ruff.toml → .pyproject_generation/pyproject_template.toml

@@ -1,11 +1,37 @@
+[build-system]
+requires = ["setuptools>=67.7.2"]
+build-backend = "setuptools.build_meta"
+
+[project]
+readme = "README.md"
+authors = [
+    { name = "German Human Genome Phenome Archive (GHGA)", email = "[email protected]" },
+]
+requires-python = ">=3.9"
+license = { text = "Apache 2.0" }
+classifiers = [
+    "Development Status :: 1 - Planning",
+    "Operating System :: POSIX :: Linux",
+    "Programming Language :: Python :: 3.9",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "License :: OSI Approved :: Apache Software License",
+    "Topic :: Internet :: WWW/HTTP :: HTTP Servers",
+    "Topic :: Software Development :: Libraries",
+    "Intended Audience :: Developers",
+]
+
+[tool.setuptools.packages.find]
+where = ["src"]
+
+[tool.ruff]
 exclude = [
     ".git",
     ".devcontainer",
     "__pycache__",
     "build",
     "dist",
 ]
-
 ignore = [
     "E", # pycodestyle errors
     "W", # pycodestyle warnings - pycodestyle covered by black
@@ -23,9 +49,7 @@ ignore = [
     "D206", # indent-with-spaces (ignored for formatter)
     "D300", # triple-single-quotes (ignored for formatter)
 ]
-
 line-length = 88
-
 select = [
     "C90", # McCabe Complexity
     "F", # pyflakes codes
@@ -39,26 +63,45 @@ select = [
     "SIM", # flake8-simplify
     "D", # pydocstyle
 ]
-
 fixable = [
     "UP", # e.g. List -> list
     "I", # sort imports
     "D", # pydocstyle
 ]
-
 src = ["src", "tests", "examples", "scripts"]
-
 target-version = "py39"
 
-[mccabe]
+[tool.ruff.mccabe]
 max-complexity = 10
 
-[per-file-ignores]
+[tool.ruff.per-file-ignores]
 "scripts/*" = ["PL", "S", "SIM", "D"]
 "tests/*" = ["S", "SIM", "PLR", "B011"]
 ".devcontainer/*" = ["S", "SIM", "D"]
 "examples/*" = ["S", "D"]
 "__init__.py" = ["D"]
 
-[pydocstyle]
+[tool.ruff.pydocstyle]
 convention = "pep257"
+
+[tool.mypy]
+disable_error_code = "import"
+show_error_codes = true
+exclude = [
+    'build/lib/',
+]
+warn_redundant_casts = true
+warn_unused_ignores = true
+check_untyped_defs = true
+no_site_packages = false
+
+[tool.pytest.ini_options]
+minversion = "7.1"
+asyncio_mode = "strict"
+
+[tool.coverage.paths]
+source = [
+  "src",
+  "/workspace/src",
+  "**/lib/python*/site-packages",
+]

.template/mandatory_files.txt

@@ -16,6 +16,8 @@ scripts/script_utils/fastapi_app_location.py
 .readme_generation/description.md
 .readme_generation/design.md
 
+.pyproject_generation/pyproject_custom.toml
+
 lock/requirements-dev.in
 lock/requirements-dev.txt
 lock/requirements.txt

.template/static_files.txt

@@ -26,12 +26,14 @@ scripts/update_openapi_docs.py
 scripts/update_readme.py
 scripts/update_lock.py
 scripts/update_hook_revs.py
+scripts/update_pyproject.py
 scripts/list_outdated_dependencies.py
 scripts/README.md
 
 .github/workflows/check_config_docs.yaml
 .github/workflows/check_openapi_spec.yaml
 .github/workflows/check_readme.yaml
+./github/workflows/check_pyproject.yaml
 .github/workflows/check_template_files.yaml
 .github/workflows/ci_release.yaml
 .github/workflows/ci_workflow_dispatch.yaml
@@ -45,6 +47,9 @@ example_data/README.md
 .readme_generation/.readme_template.md
 .readme_generation/README.md
 
+.pyproject_generation/pyproject_template.toml
+.pyproject_generation/README.md
+
 lock/requirements-dev-template.in
 lock/README.md
 

pyproject.toml

@@ -1,43 +1,133 @@
 [build-system]
-requires = ["setuptools>=67.7.2"]
+requires = [
+    "setuptools>=67.7.2",
+]
 build-backend = "setuptools.build_meta"
 
 [project]
-# please adapt to package name
 name = "my_microservice"
 version = "0.1.0"
 description = "My-Microservice - a short description"
-readme = "README.md"
-authors = [
-    { name = "German Human Genome Phenome Archive (GHGA)", email = "[email protected]" },
-]
-requires-python = ">=3.9"
-license = { text = "Apache 2.0" }
-classifiers = [
-    "Development Status :: 1 - Planning",
-    "Operating System :: POSIX :: Linux",
-    "Programming Language :: Python :: 3.9",
-    "Programming Language :: Python :: 3.10",
-    "Programming Language :: Python :: 3.11",
-    "License :: OSI Approved :: Apache Software License",
-    "Topic :: Internet :: WWW/HTTP :: HTTP Servers",
-    "Topic :: Software Development :: Libraries",
-    "Intended Audience :: Developers",
-]
 dependencies = [
     "typer >= 0.9.0",
     "ghga-service-commons[api] >= 1.2.0",
     "ghga-event-schemas >= 1.0.0",
-    "hexkit[akafka,s3,mongodb] >= 1.1.0"
+    "hexkit[akafka,s3,mongodb] >= 1.1.0",
 ]
 
 [project.urls]
-# please adapt to package name
 Repository = "https://github.com/ghga-de/my-microservice"
 
 [project.scripts]
-# please adapt to package name
 my-microservice = "my_microservice.__main__:run"
 
 [tool.setuptools.packages.find]
-where = ["src"]
+where = [
+    "src",
+]
+
+[tool.ruff]
+exclude = [
+    ".git",
+    ".devcontainer",
+    "__pycache__",
+    "build",
+    "dist",
+]
+ignore = [
+    "E",
+    "W",
+    "PLW",
+    "RUF001",
+    "RUF010",
+    "RUF012",
+    "N818",
+    "B008",
+    "PLR2004",
+    "D205",
+    "D400",
+    "D401",
+    "D107",
+    "D206",
+    "D300",
+]
+line-length = 88
+select = [
+    "C90",
+    "F",
+    "I",
+    "S",
+    "B",
+    "N",
+    "UP",
+    "PL",
+    "RUF",
+    "SIM",
+    "D",
+]
+fixable = [
+    "UP",
+    "I",
+    "D",
+]
+src = [
+    "src",
+    "tests",
+    "examples",
+    "scripts",
+]
+target-version = "py39"
+
+[tool.ruff.mccabe]
+max-complexity = 10
+
+[tool.ruff.per-file-ignores]
+"scripts/*" = [
+    "PL",
+    "S",
+    "SIM",
+    "D",
+]
+"tests/*" = [
+    "S",
+    "SIM",
+    "PLR",
+    "B011",
+]
+".devcontainer/*" = [
+    "S",
+    "SIM",
+    "D",
+]
+"examples/*" = [
+    "S",
+    "D",
+]
+"__init__.py" = [
+    "D",
+]
+
+[tool.ruff.pydocstyle]
+convention = "pep257"
+
+[tool.mypy]
+disable_error_code = "import"
+show_error_codes = true
+exclude = [
+    "build/lib/",
+]
+warn_redundant_casts = true
+warn_unused_ignores = true
+check_untyped_defs = true
+no_site_packages = false
+
+[tool.pytest.ini_options]
+minversion = "7.1"
+asyncio_mode = "strict"
+
+[tool.coverage.paths]
+source = [
+    "src",
+    "/workspace/src",
+    "**/lib/python*/site-packages",
+]