bamread

Read bam files quickly into dataframes in Python

Development

Install

pip install -e .  # -e flag means editing affects the installed package

Create sdist and wheel (requires build)

python -m build

Check whether the package archives look fine:

twine check dist/*

Upload to PyPI test server

twine upload -r testpypi dist/*

Chek that the package can be installed from the test server

python -m pip install -i https://test.pypi.org/simple bamread
python -c "import bamread; print(bamread.read_bam('Some.bam'))"

Upload to pypi

twine upload -r testpypi dist/*

See act

act -l # list available jobs
act -j <job> # run a job
act pull_request # run jobs triggered upon pull_request