|dclab|
=======
|PyPI Version| |Build Status| |Coverage Status| |Docs Status|
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 <https://github.com/DC-analysis/DCscope>`__,
`DCOR <https://github.com/DCOR-dev/dcor_control>`__,
`DCOR-Aid <https://github.com/DCOR-dev/DCOR-Aid>`__,
`DCTag <https://github.com/DC-analysis/DCTag>`__,
`DCKit <https://github.com/DC-analysis/DCKit>`__,
).
Documentation
-------------
The documentation, including the code reference and examples, is available at
`dclab.readthedocs.io <https://dclab.readthedocs.io/en/stable/>`__.
Installation
------------
::
pip install dclab[all]
For more options, please check out the `documentation
<https://dclab.readthedocs.io/en/latest/sec_getting_started.html#installation>`__.
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 <https://github.com/DC-analysis/dclab/blob/master/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 <https://www.sphinx-doc.org>`_. 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
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.
.. |dclab| image:: https://raw.github.com/DC-analysis/dclab/master/docs/logo/dclab.png
.. |PyPI Version| image:: https://img.shields.io/pypi/v/dclab.svg
:target: https://pypi.python.org/pypi/dclab
.. |Build Status| image:: https://img.shields.io/github/actions/workflow/status/DC-analysis/dclab/check.yml
:target: https://github.com/DC-analysis/dclab/actions?query=workflow%3AChecks
.. |Coverage Status| image:: https://img.shields.io/codecov/c/github/DC-analysis/dclab/master.svg
:target: https://codecov.io/gh/DC-analysis/dclab
.. |Docs Status| image:: https://readthedocs.org/projects/dclab/badge/?version=latest
:target: https://readthedocs.org/projects/dclab/builds/
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