molgenis-py-eucan-connect 1.0.0

MOLGENIS Python tooling for the EUCAN-Connect Catalogue

molgenis-py-eucan-connect

MOLGENIS Python tooling for the EUCAN-Connect Catalogue.

Description

This library contains tools for the MOLGENIS EUCAN-Connect Catalogue that help with integrating data from external catalogues. For example BirthCohorts and Maelstrom.

Usage

These tools can be used as a library in a script. Start by installing the library with pip install molgenis-py-eucan-connect.

For an example of how to use this library to stage and publish nodes, see example.py.

For developers

This project uses pre-commit and pipenv for the development workflow.

Install pre-commit and pipenv if you haven't already:

pip install pre-commit
pip install pipenv

Clone or check out this repository with git and install the git commit hooks:

pre-commit install

Create an environment and install the package including all (dev) dependencies:

pipenv install --dev

Activate the virtual environment:

pipenv shell

Build and run the tests:

tox

Note: If you want automatic code formatting in your IDE, you need to configure file watchers for black (the code formatter) and isort (the formatter for import statements). Here are some examples of how to configure them in PyCharm: