…ate-documentation

Add pyproject and update python install docs

…thon/tools.py

Cache vcfx tool list

…docstrings

Improve type hints and docs for tools API

…check-vcfx

Update Python vcfx wrapper availability check

…ols-to-check-vcfx

Update Python vcfx wrapper availability check

…readme

Add Python API docs & fix wrapper docs path

…ate-__all__

Expose package version

…r-in-python_api.md

Add PATH note for Python API tool wrappers

…search-for-vcfx_-executables

Add PATH fallback for available_tools

Add tests for new samples option

Add citation metadata file

Update Docker docs with entrypoint usage

Improve executable path detection and fix doc lookup test

…on-flag-handling

Add unified flag handler

Organize docs by category

Add repository structure section

Fix doc lookup with new directory layout

Rewrite README

- Add GitHub Actions workflow for automated PyPI publishing

- Create Python package README with installation and usage info

- Update pyproject.toml with improved metadata and SPDX license

- Fix setup.py to handle missing CMakeLists.txt during wheel building

- Add build_and_publish.py script for local publishing

- Create PUBLISHING_PYPI.md documentation

The package can now be published to PyPI via GitHub releases, manual workflow dispatch, or local script execution

…e - Fix line length issues - Remove blank lines with whitespace

- Fix 'Missing download info' error for upload-artifact@v3

- Update both upload-artifact and download-artifact to v4

- Aligns with current GitHub Actions best practices

- Build only source distributions to avoid platform tag issues

- Fix version detection (was showing 0.0.0)

- Extract version from CMakeLists.txt during build

- Add VERSION file support for dynamic versioning

- Update MANIFEST.in to include necessary files

- Add PyPI setup guide documentation

The package should now build with correct version and upload successfully

- Verifies version extraction and packaging

- Tests that VERSION file is included correctly

- Ensures package builds with proper version

- Update version extraction to match CMakeLists.txt format

- Keep version as dynamic in pyproject.toml

- Fix both test script and GitHub Actions workflow

- Successfully tested locally: builds vcfx-1.0.2.tar.gz

…ilt, clean build dirs, remove wheels

…n compatibility

…ide - Expanded Python README with detailed examples, workflows, and structured data types - Moved PyPI installation to top of installation guide - Added Python API section to main docs - Enhanced Python API docs with best practices - Added Python examples to quickstart guide