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Matas/fix/fix actions #40

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4bfd1c6
Matas: Minor overall refactor and fixed bugs
MT-superdev Jan 21, 2026
407e34e
fix: Resolve all pytest failures (imports, api, mocks, async_client)
MT-superdev Jan 21, 2026
6ae016c
fix: add respx to dev dependencies for CI compatibility
MT-superdev Jan 22, 2026
cfaae12
triggering ci cd
MT-superdev Jan 22, 2026
527d626
chore: update uv.lock with respx dependency
MT-superdev Jan 22, 2026
2c92405
chore: triggering docs workflow
MT-superdev Jan 22, 2026
58931d7
fix: add docs dependencies for mkdocs build in CI
MT-superdev Jan 22, 2026
8a647ca
chore: triggering docs workflow
MT-superdev Jan 22, 2026
f088920
fix: restrict docs deployment to upstream repo only
MT-superdev Jan 22, 2026
a28fedb
chore: triggering docs workflow
MT-superdev Jan 22, 2026
e851eb6
feat: Enhance Repository Analysis Agent with AI Immune System features
MT-superdev Jan 23, 2026
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2 changes: 1 addition & 1 deletion .github/workflows/docs.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -68,7 +68,7 @@ jobs:
url: ${{ steps.deployment.outputs.page_url }}
runs-on: ubuntu-latest
needs: build
if: github.ref == 'refs/heads/main'
if: github.ref == 'refs/heads/main' && github.repository == 'warestack/watchflow'
steps:
# Deploy to GitHub Pages
- name: "Deploy to GitHub Pages"
Expand Down
40 changes: 10 additions & 30 deletions .pre-commit-config.yaml
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Expand Up @@ -2,50 +2,30 @@ default_stages:
- pre-commit
- pre-push

# Configuration for pre-commit hooks
repos:
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@gemini-code-assist gemini-code-assist bot Jan 22, 2026

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medium

The comment # Configuration for pre-commit hooks was removed, but the other comments explaining individual hooks were also removed. It would be beneficial to keep concise comments for each hook, especially for check-yaml and check-json, to explain their purpose.

# General hooks from the pre-commit-hooks repository
- repo: https://github.com/pre-commit/pre-commit-hooks
rev: v5.0.0
rev: v6.0.0
hooks:
- id: trailing-whitespace
# Removes any trailing whitespace from lines in text files
- id: end-of-file-fixer
# Ensures files end with a newline
- id: check-yaml
exclude: '^helm-chart/templates.*\.yaml$|^mkdocs\.yml$'
# Checks YAML files for syntax errors
- id: check-json
# Checks JSON files for syntax errors
- id: check-ast
name: "Check Python syntax (AST validation)"
# Validates that Python files have valid syntax
- id: check-added-large-files

# Ruff hooks for Python linting and formatting
# Ruff: The One Tool to Rule Them All
- repo: https://github.com/astral-sh/ruff-pre-commit
rev: v0.9.9
rev: v0.3.0
hooks:
# First, run ruff format - won't change imports but will format them
- id: ruff-format
name: "Format code (without changing imports)"

# Then, use a single ruff pass for both import sorting and linting
# Linter (Fixes imports, modernizes syntax, checks bugs)
- id: ruff
name: "Linting and import sorting"
args: ["--fix"]

# Pyupgrade: Check and fix Python version incompatibilities and outdated syntax
- repo: https://github.com/asottile/pyupgrade
rev: v3.15.2
hooks:
- id: pyupgrade
name: "Upgrade syntax for Python 3.12+"
args: [--py312-plus]
# Auto-fixes outdated syntax to Python 3.12+ compatible code
args: [--fix, --exit-non-zero-on-fix]
# Formatter (Replaces Black)
- id: ruff-format

Comment on lines +16 to 25
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⚠️ Potential issue | 🟠 Major

🧩 Analysis chain

🌐 Web query:

ruff-pre-commit latest version 2024 2025

💡 Result:

The latest ruff-pre-commit release is v0.14.13 (released Jan 15, 2026). [1]

For context, earlier recent releases include v0.14.11 (Jan 8, 2026) and v0.14.10 (Dec 18, 2025). [1][2]

Sources:

  • GitHub releases for astral-sh/ruff-pre-commit. [1]
  • ruff PyPI page (example pre-commit rev references). [2]

🏁 Script executed:

# Search for Ruff configuration files in the repository
fd -e toml -e cfg | grep -E "(pyproject|ruff|setup)" | head -20

Repository: warestack/watchflow

Length of output: 182

🏁 Script executed:

# Look for any ruff configuration in common locations
find . -maxdepth 2 -type f \( -name "pyproject.toml" -o -name "ruff.toml" -o -name "setup.cfg" -o -name ".pre-commit-config.yaml" \)

Repository: warestack/watchflow

Length of output: 105

🏁 Script executed:

cat pyproject.toml

Repository: warestack/watchflow

Length of output: 2990

🏁 Script executed:

cat .pre-commit-config.yaml

Repository: warestack/watchflow

Length of output: 898

🌐 Web query:

ruff-format hook when introduced ruff-pre-commit v0.3.0 release date

💡 Result:

  • ruff-pre-commit v0.3.0 release date: Feb 29, 2024. [1]

  • ruff-format pre-commit hook: documented in the ruff-pre-commit README (the formatter hook "ruff-format" / formatter support is noted as available once Ruff added a formatter — referenced in the ruff-pre-commit repo README). Usage/examples appear in docs and issues from early 2024. [2][3]

Sources:

  1. PyPI release files for ruff 0.3.0 (uploaded Feb 29, 2024). [turn6search5]
  2. ruff-pre-commit README showing the ruff-format hook. [turn8search1]
  3. ruff-pre-commit issue / discussion showing ruff-format in use (Jan–Feb 2024). [turn8search6]

Update ruff-pre-commit from v0.3.0 to a recent version.

v0.3.0 (released Feb 2024) is significantly outdated—the latest version is v0.14.13 (Jan 2026). The repository's pyproject.toml specifies ruff>=0.1.0 and includes modern formatter configuration ([tool.ruff.format] with options like docstring-code-format). Update to a recent release to ensure the formatter configuration is fully supported and to receive bug fixes and improvements from the past 2 years of development.

🤖 Prompt for AI Agents 
In @.pre-commit-config.yaml around lines 16 - 25, The pre-commit hook for Ruff
is pinned to an old rev (rev: v0.3.0); update the ruff-pre-commit hook to a
recent release (e.g., rev: v0.14.13) so the formatter options in pyproject.toml
(like [tool.ruff.format] and docstring-code-format) are supported and you get
recent fixes; locate the block with repo:
https://github.com/astral-sh/ruff-pre-commit and the hooks with id: ruff and id:
ruff-format and replace the rev value accordingly, keeping the existing args
(--fix, --exit-non-zero-on-fix) and hook ids unchanged.

# Conventional pre-commit hooks for commit messages
# Convention Enforcement
- repo: https://github.com/compilerla/conventional-pre-commit
rev: v4.0.0
rev: v4.3.0
hooks:
- id: conventional-pre-commit
stages: [commit-msg]
8 changes: 8 additions & 0 deletions README.md
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Expand Up @@ -235,3 +235,11 @@ This format allows for intelligent, context-aware rule evaluation while maintain
## Contributing & Development

For instructions on running tests, local development, and contributing, see [DEVELOPMENT.md](DEVELOPMENT.md).

## Unauthenticated Analysis & Rate Limiting

- The repository analysis endpoint `/v1/rules/recommend` now supports unauthenticated access for public GitHub repositories.
- Anonymous users are limited to 5 requests per hour per IP. Authenticated users are limited to 100 requests per hour.
- Exceeding the limit returns a 429 error with a `Retry-After` header.
- For private repositories, authentication is required.
- The frontend is now fully connected to the backend and no longer uses mock data.
2 changes: 1 addition & 1 deletion docs/benchmarks.md
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Expand Up @@ -6,7 +6,7 @@ Watchflow's agentic approach to DevOps governance has shown promising results in

### Context Dependency in Enterprise Policies

Our analysis of 70+ enterprise policies from major tech companies revealed a critical insight: **85% of real-world governance policies require context** and cannot be effectively enforced with traditional static rules.
Our analysis of 70 + enterprise policies from major tech companies revealed a critical insight: **85% of real-world governance policies require context** and cannot be effectively enforced with traditional static rules.
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⚠️ Potential issue | 🟡 Minor

Unintentional typo introduces inconsistency.

The change from 70+ to 70 + appears accidental. Line 58 still uses 70+ (without space), creating inconsistency. The space changes the meaning from "more than 70" to a mathematical expression.

Suggested fix 
-Our analysis of 70 + enterprise policies from major tech companies revealed a critical insight: **85% of real-world governance policies require context** and cannot be effectively enforced with traditional static rules.
+Our analysis of 70+ enterprise policies from major tech companies revealed a critical insight: **85% of real-world governance policies require context** and cannot be effectively enforced with traditional static rules.
📝 Committable suggestion

‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.

Suggested change
Our analysis of 70 + enterprise policies from major tech companies revealed a critical insight: **85% of real-world governance policies require context** and cannot be effectively enforced with traditional static rules.
Our analysis of 70+ enterprise policies from major tech companies revealed a critical insight: **85% of real-world governance policies require context** and cannot be effectively enforced with traditional static rules.
🤖 Prompt for AI Agents 
In `@docs/benchmarks.md` at line 9, Replace the accidental "70 +" with the
intended "70+" to restore consistency with other occurrences (e.g., the later
"70+" at line 58) in the sentence "Our analysis of 70 + enterprise policies..."
so it reads "Our analysis of 70+ enterprise policies..." throughout the
document.


**Why this matters:**
- Traditional rules are binary (true/false) and miss nuanced scenarios
Expand Down
9 changes: 9 additions & 0 deletions docs/features.md
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Expand Up @@ -276,3 +276,12 @@ standards so teams can focus on building, increase trust, and move fast.
- Error rate monitoring
- Capacity planning insights
- Predictive maintenance

---

## Unauthenticated Analysis & Rate Limiting

- The repository analysis endpoint allows public repo analysis without authentication (5 requests/hour/IP for anonymous users).
- Authenticated users can analyze up to 100 repos/hour.
- Exceeding limits returns a 429 error with a Retry-After header.
- Private repo analysis requires authentication.
9 changes: 9 additions & 0 deletions linting_commands.txt
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@@ -0,0 +1,9 @@
# Run all pre-commit hooks on all files
pre-commit run --all-files

# Run ruff linter and formatter directly (if needed)
ruff check src/
ruff format src/

# Run mypy for type checking
mypy src/
221 changes: 45 additions & 176 deletions pyproject.toml
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@@ -1,91 +1,3 @@
[tool.ruff]
# Target Python version
target-version = "py312"
# Line length - restored from old config
line-length = 120
# Indent width
indent-width = 4

# Exclude common directories - restored from old config
exclude = [
".bzr",
".direnv",
".eggs",
".git",
".git-rewrite",
".hg",
".ipynb_checkpoints",
".mypy_cache",
".nox",
".pants.d",
".pyenv",
".pytest_cache",
".pytype",
".ruff_cache",
".svn",
".tox",
".venv",
".vscode",
"__pypackages__",
"_build",
"buck-out",
"build",
"dist",
"node_modules",
"site-packages",
"venv",
]

[tool.ruff.lint]
# Select a comprehensive set of rules
# Based on recommended practices from Ruff documentation
select = [
"E", # pycodestyle errors
"F", # pyflakes
"I", # isort
"B", # flake8-bugbear
"C4", # flake8-comprehensions
"UP", # pyupgrade
]

# Common ignores for web development
ignore = [
"E501", # line too long (handled by formatter)
"B008", # do not perform function calls in argument defaults (common in FastAPI)
]

# Allow fixing all enabled rules
fixable = ["ALL"]

# Allow unused variables when underscore-prefixed - restored from old config
dummy-variable-rgx = "^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$"

[tool.ruff.format]
# Modern formatting options
quote-style = "double"
indent-style = "space"
# Format docstring code blocks
docstring-code-format = true
# Restored from old config
skip-magic-trailing-comma = false
line-ending = "auto"

[tool.ruff.lint.isort]
# Enhanced isort configuration
known-first-party = ["src"]
# Make sure we correctly order the import sections
section-order = [
"future",
"standard-library",
"third-party",
"first-party",
"local-folder",
]
# Add a trailing comma to imports split across multiple lines
split-on-trailing-comma = true
# Combine import statements for the same module
combine-as-imports = true

[project]
name = "watchflow"
version = "0.1.0"
Expand All @@ -96,17 +8,6 @@ license = {text = "Apache Software License 2.0"}
authors = [
{name = "Dimitris Kargatzis", email = "[email protected]"},
]
keywords = ["github", "governance", "ai", "protection", "rules", "enforcement", "collaboration"]
classifiers = [
"Development Status :: 4 - Beta",
"Intended Audience :: Developers",
"License :: OSI Approved :: MIT License",
"Programming Language :: Python :: 3",
"Programming Language :: Python :: 3.12",
"Topic :: Software Development :: Libraries :: Python Modules",
"Topic :: Software Development :: Quality Assurance",
]

dependencies = [
"fastapi[standard]>=0.104.0",
"uvicorn[standard]>=0.24.0",
Expand All @@ -124,127 +25,95 @@ dependencies = [
"boto3>=1.40.43",
"anthropic[vertex]>=0.69.0",
"langchain-google-vertexai>=2.1.2",
"giturlparse>=0.1.0",
"structlog>=24.1.0",
]

[project.optional-dependencies]
dev = [
"pytest>=7.4.0",
"pytest-asyncio>=0.21.0",
"pytest-cov>=4.1.0",
"black>=23.0.0",
"isort>=5.12.0",
"flake8>=6.0.0",
"respx>=0.20.0",
"mypy>=1.7.0",
"pre-commit>=3.5.0",
"ruff>=0.1.0", # Replaces black, isort, flake8
Comment on lines +37 to +40
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⚠️ Potential issue | 🟠 Major

🧩 Analysis chain

🏁 Script executed:

# First, let's locate and examine the pyproject.toml file
git ls-files | grep -E "pyproject\.toml$"

Repository: warestack/watchflow

Length of output: 77

🌐 Web query:

Ruff minimum version requirements [tool.ruff.format] indent-width docstring-code-format

💡 Result:

  • indent-width: supported in Ruff configuration (see Settings). [1]
  • docstring-code-format (and docstring-code-line-length): introduced via config PR (#8854); it's an opt-in formatter setting documented in the Ruff formatter docs. Use a Ruff build that includes PR #8854 (see the PR/commit history) or any recent release that contains the formatter updates. [2][3]

Sources:
[1] Ruff Settings — indent-width. [docs.astral.sh/ruff/settings] (docs.astral.sh)
[2] The Ruff formatter docs (docstring-code-format / docstring-code-line-length). [docs.astral.sh/ruff/formatter] (docs.astral.sh)
[3] GitHub: config: add new docstring-code-format knob (PR/commit reference). (git.joshthomas.dev)

If you want I can look up the exact Ruff release/version that first included PR #8854 and give the minimum version number.

Citations:

🌐 Web query:

Ruff changelog version 0.1.0 format configuration support

💡 Result:

Short answer: In Ruff 0.1.0 the old "format" configuration was removed — you must use the new "output-format" option (and RUFF_OUTPUT_FORMAT / --output-format) to configure output format. [1][2]

Sources:

  • Ruff CHANGELOG (0.1.0) — notes that the deprecated format setting was removed and to use output-format / RUFF_OUTPUT_FORMAT / --output-format instead. [1]
  • Ruff 0.1.0 release summary (release notes). [2]

🌐 Web query:

Ruff rule selectors TCH when introduced minimum version

💡 Result:

Short answer: The "TCH" selector comes from Ruff's flake8-type-checking rules (used in 2023) and was remapped to "TC" in Ruff v0.8.0 — Ruff 0.8.0 is the minimum release that documents the remapping (TCH -> TC) and emits a deprecation warning when you use the old TCH codes. [1][2]

Sources:

  • Ruff v0.8.0 release notes (remapped flake8-type-checking: TCH -> TC). [1]
  • GitHub issue showing TCH usage/discussion (Dec 2023). [2]

🏁 Script executed:

cat pyproject.toml

Repository: warestack/watchflow

Length of output: 2990

🌐 Web query:

Ruff [tool.ruff.format] section minimum version when introduced

💡 Result:

The [tool.ruff.format] section was introduced with the Ruff formatter (beta) — added in Ruff v0.1.2 (Oct 24, 2023). [1][2]

Sources:

  • Ruff v0.1.2 release notes (announces the Beta formatter). [1]
  • Ruff configuration / formatter docs showing [tool.ruff.format] settings. [2]

🌐 Web query:

Ruff 0.1.0 vs 0.2.0 vs 0.3.0 format section support release notes

💡 Result:

Summary of format-section support by Ruff releases

  • v0.1.0 — initial Ruff formatter and basic pyproject configuration support (formatter settings live under [tool.ruff.format] / [format]). [1][2]

  • v0.2.x (notably 0.2.1 / 0.2.2) — formatter feature additions:

    • Added range formatting (ruff format --range) to format specific line ranges.
    • Formatting improvements for module-level docstrings and not trimming last empty line in docstrings.
    • Early f-string formatting support in preview builds and other formatter fixes. [2]

  • v0.3.0 — first stable/stabilizing formatter release: introduced the “Ruff formatter 2024.2” style and added a lint rule detecting invalid formatter-suppression comments; continued formatter stabilizations and style changes. [3]

Sources

  1. Ruff formatter docs (configuration / [tool.ruff.format]). [docs.astral.sh]. (docs.astral.sh)
  2. Ruff changelog (0.2.x — range formatting, docstring fixes, f-string preview). (fossies.org)
  3. Ruff v0.3.0 release summary (formatter 2024.2 style, suppression-comment rule). (newreleases.io)

If you want, I can copy the exact pyproject keys available in each version or link the specific GitHub changelog entries.

Citations:

🌐 Web query:

Ruff docstring-code-format PR #8854 which release version minimum

💡 Result:

The feature from PR #8854 (docstring-code-format) first appears in ruff v0.1.8. [1][2]

Sources:

  • ruff changelog (v0.1.8) — lists "Add docstring-code-format knob" (#8854). [1]
  • ruff CHANGELOG in repo — same entry. [2]

🌐 Web query:

Ruff changelog 0.1.2 0.1.3 0.1.4 0.1.5 0.2.0 docstring-code-format when added

💡 Result:

Summary: The docstring-code-format option was introduced in Ruff v0.1.8 (so it was not present in v0.1.2–v0.1.5 and is available in later releases, including 0.2.0). [1][2][3]

Sources:

  • PR adding the config knob (config: add new docstring-code-format (#8854)). [1]
  • Ruff 0.1.x changelog noting "Add docstring-code-format knob" in v0.1.8. [2]
  • PyPI upload metadata for ruff 0.1.8 (upload date Dec 13, 2023). [3]

Bump Ruff minimum version to 0.1.8 to support docstring-code-format.

The configuration uses docstring-code-format = true in [tool.ruff.format], which was introduced in Ruff v0.1.8. Setting ruff>=0.1.0 creates a version mismatch—if an older version is installed, config parsing will fail. Update both occurrences (lines 35–38 and in [tool.uv].dev-dependencies) to ruff>=0.1.8.

🤖 Prompt for AI Agents 
In `@pyproject.toml` around lines 35 - 38, Update the declared Ruff minimum
version to match the configuration: replace the existing "ruff>=0.1.0"
dependency entries with "ruff>=0.1.8" wherever Ruff is listed (the dependency
line in the main dependencies block and the ruff entry under
[tool.uv].dev-dependencies) so the parser supports the docstring-code-format
setting; ensure both occurrences are changed to "ruff>=0.1.8".

]

docs = [
"mkdocs>=1.5.0",
"mkdocs-material>=9.5.0",
"mkdocs-git-revision-date-localized-plugin>=1.2.0",
"mkdocs-minify-plugin>=0.7.0",
"pymdown-extensions>=10.0",
"mkdocs-minify-plugin>=0.8.0",
]

[project.urls]
Homepage = "https://github.com/warestack/watchflow"
Documentation = "https://docs.watchflow.dev"
Repository = "https://github.com/warestack/watchflow"
Issues = "https://github.com/warestack/watchflow/issues"

[project.scripts]
watchflow = "src.main:app"

[tool.black]
line-length = 88
target-version = ['py312']
include = '\.pyi?$'
extend-exclude = '''
/(
# directories
\.eggs
| \.git
| \.hg
| \.mypy_cache
| \.tox
| \.venv
| build
| dist
)/
'''
# --- RUFF CONFIGURATION (The Enforcer) ---
[tool.ruff]
target-version = "py312"
line-length = 120
indent-width = 4
exclude = [
".git", ".mypy_cache", ".pytest_cache", ".ruff_cache", ".venv", "venv", "__pypackages__",
]

[tool.ruff.lint]
# E/F: Core Python errors
# I: Import sorting (isort replacement)
# B: Bugbear (catches common bugs)
# UP: Pyupgrade (modernizes syntax)
# C4: Comprehensions
# SIM: Simplify (suggests pythonic refactors)
# TCH: Type Checking (enforces specific typing blocks)
select = ["E", "F", "I", "B", "UP", "C4", "SIM", "TCH"]
ignore = [
"E501", # Line too long (handled by formatter)
"B008", # Do not perform function calls in argument defaults (FastAPI Dependency Pattern)
]
fixable = ["ALL"]

[tool.ruff.format]
quote-style = "double"
indent-style = "space"
skip-magic-trailing-comma = false
line-ending = "auto"
docstring-code-format = true

[tool.isort]
profile = "black"
multi_line_output = 3
line_length = 88
known_first_party = ["src"]
[tool.ruff.lint.isort]
known-first-party = ["src"]
combine-as-imports = true

# --- MYPY CONFIGURATION (The Type Cop) ---
[tool.mypy]
python_version = "3.12"
warn_return_any = true
warn_unused_configs = true
disallow_untyped_defs = true
disallow_incomplete_defs = true
disallow_untyped_defs = true # No dynamic functions allowed
disallow_incomplete_defs = true # Must type all args
check_untyped_defs = true
disallow_untyped_decorators = true
disallow_untyped_decorators = false # Allow untyped decorators (needed for FastAPI/LangChain)
no_implicit_optional = true
warn_redundant_casts = true
warn_unused_ignores = true
warn_no_return = true
warn_unreachable = true
strict_equality = true

# --- PYTEST CONFIGURATION ---
[tool.pytest.ini_options]
testpaths = ["tests"]
python_files = ["test_*.py", "*_test.py"]
python_classes = ["Test*"]
python_functions = ["test_*"]
addopts = [
"--strict-markers",
"--strict-config",
"--cov=src",
"--cov-report=term-missing",
"--cov-report=html",
"--cov-report=xml",
]
asyncio_mode = "auto"


[tool.coverage.run]
source = ["src"]
omit = [
"*/tests/*",
"*/test_*",
"*/__pycache__/*",
"*/migrations/*",
]

[tool.coverage.report]
exclude_lines = [
"pragma: no cover",
"def __repr__",
"if self.debug:",
"if settings.DEBUG",
"raise AssertionError",
"raise NotImplementedError",
"if 0:",
"if __name__ == .__main__.:",
"class .*\\bProtocol\\):",
"@(abc\\.)?abstractmethod",
]

[tool.uv]
dev-dependencies = [
"pytest>=7.4.0",
"pytest-asyncio>=0.21.0",
"pytest-cov>=4.1.0",
"black>=23.0.0",
"isort>=5.12.0",
"flake8>=6.0.0",
"mypy>=1.7.0",
"pre-commit>=3.5.0",
"mkdocs-material>=9.5.0",
"mkdocs-git-revision-date-localized-plugin>=1.2.0",
"mkdocs-minify-plugin>=0.7.0",
"pymdown-extensions>=10.0",
"ruff>=0.1.0",
"giturlparse>=0.1.0",
]
2 changes: 1 addition & 1 deletion src/__init__.py
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# Watchflow application package
# App package—root for imports, keep minimal.
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