Feature/mx1480 and mx1498 adapt dev tool config (#10)

- mypy pre-commit hook now always runs on all files instead of only
changed files, which is the python/mypy#13916
- mypy now shows errors in case of missing imports (prior: silently
ignored missing imports)
- move content of .mypy.ini and pytest.ini into pyproject.toml

Author: rababerladuseladim

.mypy.ini

@@ -26,14 +26,17 @@ repos:
         name: poetry
   - repo: https://github.com/pre-commit/mirrors-mypy
     rev: v1.7.0
-    hooks:
+    hooks: # configured according to mypy maintainer: https://github.com/python/mypy/issues/13916
       - id: mypy
         name: mypy
         files: ^mex/
+        pass_filenames: false
+        args: [mex]
         additional_dependencies:
           - "backoff>=2.2.1,<3"
           - "fastapi>=0.104.1,<1"
           - "mex-common@git+https://github.com/robert-koch-institut/[email protected]"
+          - "neo4j>=5.15.0,<6"
           - "pydantic[dotenv,email]>=1.10.13,<2"
           - "pytest>=7.4.3,<8"
           - "types-pytz>=2023.3.1.1,<2024"

.pre-commit-config.yaml

@@ -33,6 +33,26 @@ backend = "mex.backend.main:main"
 [tool.ipdb]
 context = 5
 
+[tool.mypy]
+python_version = "3.11"
+show_error_codes = true
+strict = true
+
+[tool.pydantic-mypy]
+warn_untyped_fields = true
+
+[tool.pytest.ini_options]
+addopts = [
+    "--verbose",
+    "--cov",
+    "--no-cov-on-fail",
+    "--cov-report=term-missing:skip-covered",
+    "--cov-fail-under=99",
+    "--cov-branch",
+    "--pdbcls=IPython.terminal.debugger:TerminalPdb"
+]
+markers = "integration: mark a test as integration test allowing it to load real settings"
+
 [tool.ruff]
 fix = true
 ignore = [