diff --git a/.github/workflows/repo-hygiene.yml b/.github/workflows/repo-hygiene.yml new file mode 100644 index 0000000..88b057b --- /dev/null +++ b/.github/workflows/repo-hygiene.yml @@ -0,0 +1,35 @@ +name: Repo Hygiene + +on: + pull_request: + push: + branches: + - main + +jobs: + hygiene: + runs-on: ubuntu-latest + + steps: + - name: Check out the repository + uses: actions/checkout@v4 + + - name: Install uv + uses: astral-sh/setup-uv@v7 + with: + enable-cache: true + + - name: Install Python 3.12 + run: uv python install 3.12 + + - name: Sync dependencies + run: uv sync --group dev --frozen + + - name: Run pre-commit + run: uv run pre-commit run --all-files + + - name: Validate tracked notebooks + run: uv run python scripts/validate_notebooks.py + + - name: Run validator tests + run: uv run python -m unittest discover -s tests -p "test_*.py" diff --git a/.gitignore b/.gitignore index 09be0ef..2fb0c56 100644 --- a/.gitignore +++ b/.gitignore @@ -143,6 +143,8 @@ venv/ ENV/ env.bak/ venv.bak/ +.ruff_cache/ +.pytest_cache/ # Spyder project settings .spyderproject @@ -164,6 +166,19 @@ dmypy.json # pytype static type analyzer .pytype/ +.tox/ +.nox/ +.hypothesis/ +.cache/ + +# Notebook and interpreter state +.ipynb_checkpoints/ +profile_default/ +ipython_config.py + +# Local editor settings +.idea/ +.vscode/ # Cython debug symbols cython_debug/ @@ -205,3 +220,42 @@ cython_debug/ marimo/_static/ marimo/_lsp/ __marimo__/ + + +# Coverage, logs, and temporary reports +.coverage +.coverage.* +coverage.xml +htmlcov/ +*.log + +# Packaging or build output from local experiments +build/ +dist/ +*.egg-info/ +*.egg + +# uv and Python packaging helpers +.Python +.pdm-python +.pdm-build/ +.pixi/ +__pypackages__/ + +# Generated machine-learning artefacts are ignored by default. +# Curated exceptions can be allowlisted later if a specific project needs them. +**/checkpoints/ +**/saved_model/ +**/saved_model.pb +**/fingerprint.pb +**/*.ckpt +**/*.h5 +**/*.keras +**/*.onnx +**/*.pt +**/*.pth +**/*.safetensors +**/*.tflite + +# Site output if docs are added later. +site/ diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 0bb4053..a43ec43 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,51 +1,47 @@ +# These hooks keep the repository clean without turning the notebook hub into a +# heavyweight software project. The focus is on safe hygiene checks, not on +# executing notebooks or building package-style infrastructure. + repos: - repo: https://github.com/pre-commit/pre-commit-hooks - rev: "v4.4.0" + rev: "v4.6.0" hooks: - id: check-case-conflict - id: check-merge-conflict - id: check-toml - id: check-yaml - id: trailing-whitespace + exclude: "(^|/)(README\\.md|AGENTS\\.md)$" + - id: end-of-file-fixer + exclude: "(^|/)(README\\.md|AGENTS\\.md)$" + - id: detect-private-key + # Ruff gives us one fast linter and formatter for the small amount of Python + # infrastructure code we keep at the repo root. - repo: https://github.com/astral-sh/ruff-pre-commit - rev: "v0.6.3" + rev: "v0.6.9" hooks: - id: ruff - args: [--exit-non-zero-on-fix] + args: [--fix, --exit-non-zero-on-fix] - id: ruff-format - - repo: local + # Standard secret scanning with a reviewed baseline keeps the policy clear + # and avoids maintaining bespoke shell hooks. + - repo: https://github.com/Yelp/detect-secrets + rev: "v1.5.0" hooks: - - id: prevent-credentials-commit - name: Prevent credentials.json commit - entry: | - bash -c ' - if git diff --cached --name-only | grep -q "credentials.json"; then - echo "Error: Attempting to commit credentials.json. Aborting." - exit 1 - fi - ' - language: system - types: [file] + - id: detect-secrets + args: + - "--baseline" + - ".secrets.baseline" + exclude: "(^uv.lock$|^edgeai-mlops/models/.*|.*\\.ipynb$)" + # Notebook validation stays local to this repository because the check is + # specific to how we want notebooks to behave on GitHub. - repo: local hooks: - - id: prevent-private-key-commit - name: Prevent private-key credentials.json commit - entry: | - bash -c ' - for file in $(git diff --cached --name-only); do - # Skip .pre-commit-config.yaml and other excluded files - if [[ "$file" == ".pre-commit-config.yaml" ]]; then - continue - fi - # Check if the file contains "private_key" - if [ -f "$file" ] && grep -q '"private_key"' "$file"; then - echo "Error: Sensitive content detected in $file! Aborting commit." - exit 1 - fi - done - ' + - id: validate-notebooks + name: Validate notebook JSON and GitHub-safe metadata + entry: uv run python scripts/validate_notebooks.py language: system - types: [file] \ No newline at end of file + files: \.ipynb$ diff --git a/.secrets.baseline b/.secrets.baseline new file mode 100644 index 0000000..6ad0c73 --- /dev/null +++ b/.secrets.baseline @@ -0,0 +1,129 @@ +{ + "version": "1.5.0", + "plugins_used": [ + { + "name": "ArtifactoryDetector" + }, + { + "name": "AWSKeyDetector" + }, + { + "name": "AzureStorageKeyDetector" + }, + { + "name": "Base64HighEntropyString", + "limit": 4.5 + }, + { + "name": "BasicAuthDetector" + }, + { + "name": "CloudantDetector" + }, + { + "name": "DiscordBotTokenDetector" + }, + { + "name": "GitHubTokenDetector" + }, + { + "name": "GitLabTokenDetector" + }, + { + "name": "HexHighEntropyString", + "limit": 3.0 + }, + { + "name": "IbmCloudIamDetector" + }, + { + "name": "IbmCosHmacDetector" + }, + { + "name": "IPPublicDetector" + }, + { + "name": "JwtTokenDetector" + }, + { + "name": "MailchimpDetector" + }, + { + "name": "NpmDetector" + }, + { + "name": "OpenAIDetector" + }, + { + "name": "PrivateKeyDetector" + }, + { + "name": "PypiTokenDetector" + }, + { + "name": "SendGridDetector" + }, + { + "name": "SlackDetector" + }, + { + "name": "SoftlayerDetector" + }, + { + "name": "SquareOAuthDetector" + }, + { + "name": "StripeDetector" + }, + { + "name": "TelegramBotTokenDetector" + }, + { + "name": "TwilioKeyDetector" + } + ], + "filters_used": [ + { + "path": "detect_secrets.filters.allowlist.is_line_allowlisted" + }, + { + "path": "detect_secrets.filters.common.is_ignored_due_to_verification_policies", + "min_level": 2 + }, + { + "path": "detect_secrets.filters.heuristic.is_indirect_reference" + }, + { + "path": "detect_secrets.filters.heuristic.is_likely_id_string" + }, + { + "path": "detect_secrets.filters.heuristic.is_lock_file" + }, + { + "path": "detect_secrets.filters.heuristic.is_not_alphanumeric_string" + }, + { + "path": "detect_secrets.filters.heuristic.is_potential_uuid" + }, + { + "path": "detect_secrets.filters.heuristic.is_prefixed_with_dollar_sign" + }, + { + "path": "detect_secrets.filters.heuristic.is_sequential_string" + }, + { + "path": "detect_secrets.filters.heuristic.is_swagger_file" + }, + { + "path": "detect_secrets.filters.heuristic.is_templated_secret" + }, + { + "path": "detect_secrets.filters.regex.should_exclude_file", + "pattern": [ + "(^uv.lock$|^edgeai-mlops/models/.*|.*\\.ipynb$)" + ] + } + ], + "results": {}, + "generated_at": "2026-04-12T00:00:00Z" +} diff --git a/justfile b/justfile index ad5e40c..d8acf2f 100644 --- a/justfile +++ b/justfile @@ -2,23 +2,36 @@ default: @just --list -# Install virtual environment and pre-commit hooks +# Install the shared notebook environment and register the repo hooks. install: - echo "🚀 Creating virtual environment and syncing dependencies with uv" - uv sync - echo "🚀 Installing pre--commit hooks" - uv run pre-commit install + @echo "Syncing dependencies with uv" + uv sync --group dev --frozen + @if git rev-parse --is-inside-work-tree >/dev/null 2>&1; then \ + echo "Installing pre-commit hooks"; \ + uv run pre-commit install; \ + else \ + echo "Skipping pre-commit installation because no Git repository was detected."; \ + fi -# Create a virtual environment with uv -venv: - echo "🚀 Creating virtual environment with uv in folder .venv" - python3 -m venv .venv - echo "🚀 Installing uv in the virtual environment" - .venv/bin/pip install --upgrade uv - -# Upgrading locked package versions +# Upgrade the lockfile and sync the shared notebook environment. upgrade: - echo "🚀 Upgrading locked package versions" + @echo "Updating the lockfile and syncing dependencies" uv lock --upgrade - echo "🚀 Syncing dependencies with uv" - uv sync \ No newline at end of file + uv sync --group dev + +# Format Python helper scripts and tests. +format: + uv run ruff format . + +# Lint Python helper scripts and tests. +lint: + uv run ruff check . + +# Validate tracked notebooks for JSON and GitHub-rendering compatibility. +check-notebooks: + uv run python scripts/validate_notebooks.py + +# Run the repository-wide hygiene checks. +check: + uv run pre-commit run --all-files + uv run python -m unittest discover -s tests -p "test_*.py" diff --git a/pyproject.toml b/pyproject.toml index 5e0b31d..9ef56f8 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,135 +1,79 @@ [project] name = "Learning" version = "0.0.1" -description = "A repository centralizing all my independent learning activities, from past courses to current small projects and workshops." +description = "A notebook-first repository for independent learning projects, experiments, and small technical studies." authors = [{ name = "AndreiRoibu", email = "contact@andreiroibu.com" }] readme = "README.md" -keywords = ['python'] -requires-python = ">=3.12.8, <3.13" # Torchvision/audio fail to install on 3.13 +requires-python = ">=3.12,<3.13" classifiers = [ "Intended Audience :: General", "Programming Language :: Python", "Programming Language :: Python :: 3.12", - "Topic :: Software Development :: Libraries :: Python Modules", ] - -[project.urls] -Homepage = "https://github.com/AndreiRoibu/Learning" -Repository = "https://github.com/AndreiRoibu/Learning" -Documentation = "https://github.com/AndreiRoibu/Learning" - - -[tool.uv] -dev-dependencies = [ - "pytest>=7.2.0", - "pre-commit>=2.20.0", - "tox-uv>=1.11.3", - "pytest-cov>=4.0.0", - "ruff>=0.6.9", - "mkdocs>=1.4.2", - "mkdocs-material>=8.5.10", - "mkdocstrings[python]>=0.26.1", - "numpy>=1.26,<2", +dependencies = [ + "alive-progress", + "datasets", "ipython", "jupyter", "matplotlib", - "seaborn", - "tensorflow", - "scikit-learn", - "scipy", - "pandas", + "netron", + "numpy>=1.26,<2", "onnx", - "tf2onnx @ git+https://github.com/onnx/tensorflow-onnx", "onnxruntime", - "torch", - "netron", + "pandas", + "scikit-learn", + "scipy", + "seaborn", + "tensorflow", "tensorflow_model_optimization", "tf-keras", - "datasets", + "tf2onnx @ git+https://github.com/onnx/tensorflow-onnx", + "torch", "transformers", - "alive-progress", ] -[tool.uv.workspace] -members = [""] - -[build-system] -requires = ["setuptools >= 61.0"] -build-backend = "setuptools.build_meta" - -[tool.setuptools] -py-modules = ["src"] +[project.urls] +Homepage = "https://github.com/AndreiRoibu/Learning" +Repository = "https://github.com/AndreiRoibu/Learning" +Documentation = "https://github.com/AndreiRoibu/Learning" -[tool.pytest.ini_options] -addopts = "--strict-markers" -markers = [ - "benchmark: test is used for performance benchmarking. Selects all tests that support benchmarking.", - "performance_report: test is used for performance report. Selects all tests that are part of the performance report.", - "database: this test requires access to the database - can run in the Synthara intranet only.", - "fast: mark a test as fast. Used for fast testing.", - "serial: mark a test as serial. Used for sequential testing, aka test that must be run sequentially. The tflite tests need to be run sequentially, see issue 230.", - "slow: mark a test as slow. Used for release tests.", - "smoke: real fast tests. They all combined must execute in less than 1 minute. They are used to give a '80% confidence' that the code is working.", +[dependency-groups] +dev = [ + "detect-secrets>=1.5.0", + "nbformat>=5.10.4", + "pre-commit>=3.8.0", + "ruff>=0.6.9", ] -testpaths = ["tests"] -# Temporary directory configuration -tmp_path_retention_policy = "failed" -tmp_path_retention_count = 100 [tool.ruff] -target-version = "py311" +target-version = "py312" line-length = 120 -fix = true +extend-exclude = ["*.ipynb", "edgeai-mlops/models"] [tool.ruff.lint] select = [ - # flake8-2020 "YTT", - # flake8-bandit "S", - # flake8-bugbear "B", - # flake8-builtins "A", - # flake8-comprehensions "C4", - # flake8-debugger "T10", - # flake8-simplify "SIM", - # isort "I", - # mccabe "C90", - # pycodestyle - "E", "W", - # pyflakes + "E", + "W", "F", - # pygrep-hooks "PGH", - # pyupgrade "UP", - # ruff "RUF", - # tryceratops "TRY", ] ignore = [ - # LineTooLong "E501", - # DoNotAssignLambda "E731", ] [tool.ruff.lint.per-file-ignores] -"tests/*" = ["S101"] - -[tool.ruff.format] -preview = true - -[tool.coverage.report] -skip_empty = true - -[tool.coverage.run] -branch = true -source = ["src"] +"scripts/validate_notebooks.py" = ["S603", "S607"] +"tests/test_validate_notebooks.py" = ["S603", "S607"] diff --git a/scripts/validate_notebooks.py b/scripts/validate_notebooks.py new file mode 100644 index 0000000..76d80b0 --- /dev/null +++ b/scripts/validate_notebooks.py @@ -0,0 +1,173 @@ +#!/usr/bin/env python3 +"""Validate tracked notebooks for GitHub-safe rendering. + +This script enforces a deliberately narrow contract for notebooks in this +repository: + +- the notebook JSON must parse and validate with ``nbformat`` +- top-level ``metadata.widgets`` is disallowed +- widget-view outputs are disallowed because GitHub cannot render them + +The goal is to keep notebooks reviewable on GitHub without executing them or +rewriting their ordinary outputs. +""" + +from __future__ import annotations + +import argparse +import subprocess +import sys +from pathlib import Path + +import nbformat +from nbformat.validator import NotebookValidationError + +NOTEBOOK_SUFFIX = ".ipynb" +WIDGET_METADATA_KEY = "widgets" +WIDGET_OUTPUT_MIME = "application/vnd.jupyter.widget-view+json" + + +def parse_args(argv: list[str] | None = None) -> argparse.Namespace: + """Parse command-line arguments. + + Args: + argv: Optional list of command-line arguments. Defaults to sys.argv[1:]. + + Returns: + An argparse.Namespace containing the parsed arguments. + + """ + parser = argparse.ArgumentParser( + description=("Validate notebook JSON and fail on widget metadata that breaks " "GitHub rendering.") + ) + parser.add_argument( + "paths", + nargs="*", + type=Path, + help="Notebook paths to validate. Defaults to all tracked notebooks.", + ) + return parser.parse_args(argv) + + +def repo_root() -> Path: + """Return the repository root based on this script's location.""" + return Path(__file__).resolve().parent.parent + + +def resolve_paths(paths: list[Path]) -> list[Path]: + """Resolve CLI notebook paths from the current working directory. + + Args: + paths: List of notebook paths from the command line. + + Returns: + List of resolved notebook paths. + + """ + cwd = Path.cwd() + return [(path if path.is_absolute() else cwd / path).resolve() for path in paths] + + +def tracked_notebooks(root: Path) -> list[Path]: + """Return all tracked notebooks in the repository.""" + result = subprocess.run( + ["git", "ls-files", "--", f"*{NOTEBOOK_SUFFIX}"], + cwd=root, + capture_output=True, + check=True, + text=True, + ) + return [(root / line).resolve() for line in result.stdout.splitlines() if line] + + +def display_path(path: Path, root: Path) -> str: + """Render a stable, repo-relative path when possible.""" + try: + return str(path.relative_to(root)) + except ValueError: + return str(path) + + +def validate_notebook(path: Path, root: Path) -> list[str]: + """Return human-readable issues for a single notebook. + + Args: + path: Path to the notebook to validate. + root: Repository root for rendering relative paths. + + Returns: + List of human-readable issues found in the notebook. An empty list means + the notebook passed validation. + + """ + issues: list[str] = [] + + if not path.exists(): + issues.append(f"{display_path(path, root)}: file does not exist") + return issues + + try: + with path.open(encoding="utf-8") as handle: + notebook = nbformat.read(handle, as_version=nbformat.NO_CONVERT) + nbformat.validate(notebook) + except (NotebookValidationError, ValueError) as error: + issues.append(f"{display_path(path, root)}: invalid notebook structure ({error})") + return issues + + if WIDGET_METADATA_KEY in notebook.metadata: + issues.append( + f"{display_path(path, root)}: top-level metadata.widgets is not " + "allowed because GitHub cannot render it safely" + ) + + for cell_index, cell in enumerate(notebook.cells): + for output_index, output in enumerate(cell.get("outputs", [])): + data = output.get("data", {}) + if WIDGET_OUTPUT_MIME in data: + issues.append( + f"{display_path(path, root)}: cell {cell_index} output " + f"{output_index} contains {WIDGET_OUTPUT_MIME}" + ) + + return issues + + +def main(argv: list[str] | None = None) -> int: + """Run notebook validation and return a shell-friendly exit code. + + Args: + argv: Optional list of command-line arguments. Defaults to sys.argv[1:]. + + Returns: + An integer exit code: 0 if validation passed, 1 if it failed. + + """ + args = parse_args(argv) + root = repo_root() + + try: + notebook_paths = resolve_paths(args.paths) if args.paths else tracked_notebooks(root) + except subprocess.CalledProcessError as error: + print(f"Failed to discover tracked notebooks: {error}", file=sys.stderr) + return 1 + + if not notebook_paths: + print("No notebooks found.") + return 0 + + issues: list[str] = [] + for notebook_path in notebook_paths: + issues.extend(validate_notebook(notebook_path, root)) + + if issues: + print("Notebook validation failed:") + for issue in issues: + print(f"- {issue}") + return 1 + + print(f"Validated {len(notebook_paths)} notebook(s).") + return 0 + + +if __name__ == "__main__": + raise SystemExit(main()) diff --git a/tests/test_validate_notebooks.py b/tests/test_validate_notebooks.py new file mode 100644 index 0000000..bc9decb --- /dev/null +++ b/tests/test_validate_notebooks.py @@ -0,0 +1,131 @@ +"""Tests for the notebook validation helper script.""" + +from __future__ import annotations + +import json +import subprocess +import sys +import tempfile +import unittest +from pathlib import Path + +REPO_ROOT = Path(__file__).resolve().parents[1] +SCRIPT_PATH = REPO_ROOT / "scripts" / "validate_notebooks.py" + + +def build_notebook(*, metadata: dict | None = None, outputs: list[dict] | None = None) -> dict: + """Create a small notebook payload for validator tests.""" + return { + "cells": [ + { + "cell_type": "code", + "execution_count": 1, + "metadata": {}, + "outputs": outputs or [], + "source": ["print('hello world')"], + } + ], + "metadata": metadata or {}, + "nbformat": 4, + "nbformat_minor": 5, + } + + +class ValidateNotebooksScriptTests(unittest.TestCase): + """Black-box tests for the notebook validator.""" + + def run_validator(self, notebook_path: Path) -> subprocess.CompletedProcess[str]: + """Run the validator against one notebook path.""" + return subprocess.run( + [sys.executable, str(SCRIPT_PATH), str(notebook_path)], + capture_output=True, + check=False, + cwd=REPO_ROOT, + text=True, + ) + + def write_notebook(self, directory: Path, name: str, payload: dict) -> Path: + """Write a notebook payload into the temporary test directory.""" + notebook_path = directory / name + notebook_path.write_text(json.dumps(payload), encoding="utf-8") + return notebook_path + + def test_validator_accepts_a_github_safe_notebook(self) -> None: + """A plain notebook with no widget metadata should pass.""" + with tempfile.TemporaryDirectory() as tmpdir: + notebook_path = self.write_notebook( + Path(tmpdir), + "valid.ipynb", + build_notebook( + metadata={ + "kernelspec": { + "display_name": "Python 3", + "language": "python", + "name": "python3", + }, + "language_info": { + "name": "python", + "version": "3.12.0", + }, + } + ), + ) + + result = self.run_validator(notebook_path) + + self.assertEqual(result.returncode, 0, result.stdout + result.stderr) + self.assertIn("Validated 1 notebook(s).", result.stdout) + + def test_validator_rejects_top_level_widget_metadata(self) -> None: + """GitHub-hostile widget metadata should fail fast.""" + with tempfile.TemporaryDirectory() as tmpdir: + notebook_path = self.write_notebook( + Path(tmpdir), + "widgets.ipynb", + build_notebook(metadata={"widgets": {"application/vnd.jupyter.widget-state+json": {}}}), + ) + + result = self.run_validator(notebook_path) + + self.assertEqual(result.returncode, 1) + self.assertIn("metadata.widgets", result.stdout) + + def test_validator_rejects_widget_view_outputs(self) -> None: + """Widget view outputs should be rejected even if the rest is fine.""" + with tempfile.TemporaryDirectory() as tmpdir: + notebook_path = self.write_notebook( + Path(tmpdir), + "widget-output.ipynb", + build_notebook( + outputs=[ + { + "output_type": "display_data", + "data": { + "application/vnd.jupyter.widget-view+json": { + "model_id": "example-model-id", + "version_major": 2, + "version_minor": 0, + }, + "text/plain": ["Map: 0%| | 0/10 [00:00 None: + """Broken notebook JSON should fail with a clear error.""" + with tempfile.TemporaryDirectory() as tmpdir: + notebook_path = Path(tmpdir) / "broken.ipynb" + notebook_path.write_text("{ not valid json", encoding="utf-8") + + result = self.run_validator(notebook_path) + + self.assertEqual(result.returncode, 1) + self.assertIn("invalid notebook structure", result.stdout) diff --git a/transformers-classification/__init__.py b/transformers-classification/__init__.py deleted file mode 100644 index e69de29..0000000 diff --git a/uv.lock b/uv.lock index 74acdc4..5089ce7 100644 --- a/uv.lock +++ b/uv.lock @@ -1,6 +1,14 @@ version = 1 revision = 3 -requires-python = ">=3.12.8, <3.13" +requires-python = "==3.12.*" +resolution-markers = [ + "platform_machine != 's390x' and sys_platform == 'win32'", + "platform_machine != 's390x' and sys_platform == 'emscripten'", + "platform_machine != 's390x' and 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