Snakebids

Changes

- revert bump version akhanf (95)

🐛 Bug Fixes

- Use set() to remove duplicate arg labels pvandyken (106)

🧰 Maintenance

- Refactor app.py pvandyken (93)

Changes

🚀 Features

- Add --dash-syntax as alias to all CLI args pvandyken (73)
- Integrate pre-commit hooks and gh-actions linting pvandyken (68)
- Implement workflow and bidsapp mode pvandyken (61)
- Use poetry for dependency management pvandyken (60)

🐛 Bug Fixes

- Fixes for pybids dataset\_description.json compatibility akhanf (58)
- Match path of config in bidsapp mode to parent pvandyken (69)
- pin docutils\<0.18 for docs akhanf (64)

🧰 Maintenance

- Reorganize snakebids directory pvandyken (87)
- Update prerelease version to use `pre` kaitj (88)
- Setup release drafter kaitj (75)
- upgrade to pybids-0.14.0 akhanf (84)
- Fix README formatting pvandyken (76)
- Project template updates akhanf (65)
- Add test support for python 3.10. pvandyken (71)

📝 Documentation

- Update documentation for output modes pvandyken (67)
- Expanded docs for generate\_inputs tkkuehn (59)

- arg parsing now supports annotating an input argument with `Path` or `pathlib.Path` to convert to `Path` objects (52)
- `pathlib.Path` support added for `bids()` now as well (55)

- uses snakemakes configfile loader for json + yaml support
- wider range of configfile names supported, input path used for output, instead of hard-coded as config/snakebids.yml
- better yaml writing (no resorted keys, and no extra python ordereddict object strings cluttering the output)..
- adds tutorial to documentation