This is a Python library for the post-measurement analysis of real-time deformability cytometry (RT-DC) datasets; an essential part of the DC Cosmos ( DCscope, DCOR, DCOR-Aid, DCTag, DCKit, ).
Documentation
The documentation, including the code reference and examples, is available at dclab.readthedocs.io.
Installation
pip install dclab[all]
For more options, please check out the documentation.
Information for developers
Contributing
The main branch for developing dclab is master. If you want to make small changes like one-liners, documentation, or default values in the configuration, you may work on the master branch. If you want to change more, please (fork dclab and) create a separate branch, e.g. my_new_feature_dev, and create a pull-request once you are done making your changes. Please make sure to edit the Changelog.
Very important: Please always try to use
git pull --rebase
instead of:
git pull
to prevent non-linearities in the commit history.
Tests
dclab is tested using pytest. If you have the time, please write test methods for your code and put them in the tests directory. To run the tests, install pytest and run:
pytest tests
Docs
The docs are built with sphinx. Please make sure they compile when you change them (this also includes function doc strings):
cd docs pip install -r requirements.txt sphinx-build . _build # open "index.html" in the "_build" directory
PEP8
We use flake8 to enforce coding style:
pip install flake8 flake8 --exclude _version.py dclab flake8 docs flake8 examples flake8 tests
Type Hinting
For type hinting and docstring styling, try to keep the Code Reference readable in the documentation website. If in doubt just ask, or look at the examples in the codebase.
Simple type combintions such as float or str | pathlib.Path should be included as type hints, but do not need to be included in the docstring parameter description.
More involved type hints can have extra information in the docstring. For example for numpy arrays, npt.NDArray[np.bool] doesn’t render in a readable way in the Code Reference, and doesn’t include shape. Therefore, you can also keep the docstring parameter description with the shape and dtype information e.g., binary ndarray of shape (M, N).
Incrementing version
Dclab gets its version from the latest git tag. If you think that a new version should be published, create a tag on the master branch (if you have the necessary permissions to do so):
git tag -a "0.1.3" git push --tags origin
Appveyor and GitHub Actions will then automatically build source package and wheels and publish them on PyPI.
2 maintainers
Metadata
2 maintainers
Release files for dclab 0.73.4
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
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|---|---|---|---|---|
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Built distributions (wheels)
Total release size: 66.5 MB
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Release files / dclab-0.73.4-cp311-cp311-macosx_11_0_arm64.whl
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Release files / dclab-0.73.4-cp310-cp310-win_amd64.whl
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Release files / dclab-0.73.4-cp310-cp310-musllinux_1_2_x86_64.whl
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Release files / dclab-0.73.4-cp310-cp310-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl
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Release files / dclab-0.73.4-cp310-cp310-macosx_11_0_arm64.whl
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Release files / dclab-0.73.4-cp310-cp310-macosx_10_9_x86_64.whl
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