biogrid-ingest

| Documentation |

BioGRID ingest.

Requirements

• Python >= 3.10
• Poetry

Installation

cd biogrid-ingest
make install
# or
poetry install

Note that the make install command is just a convenience wrapper around poetry install.

Once installed, you can check that everything is working as expected:

# Run the pytest suite
make test
# Download the data and run the Koza transform
make download
make run

Usage

This project is set up with a Makefile for common tasks.
To see available options:

make help

Download and Transform

Download the data for the biogrid_ingest transform:

poetry run biogrid_ingest download

To run the Koza transform for biogrid-ingest:

poetry run biogrid_ingest transform

To see available options:

poetry run biogrid_ingest download --help
# or
poetry run biogrid_ingest transform --help

Testing

To run the test suite:

make test

---

This project was generated using monarch-initiative/cookiecutter-monarch-ingest.
Keep this project up to date using cruft by occasionally running in the project directory:

cruft update

For more information, see the cruft documentation