im-data-manager-workflow-engine 2.0.0

The Data Manager workflow engine, schema and decoder.

Informatics Matters Data Manager Workflow Engine

A package that simplifies the validation and decoding of Data Manager Workflow definitions.

Installation (Python)

The Job decoder is published on PyPI and can be installed from there:

pip install im-data-manager-workflow-engine

Once installed you can validate the workflow definition (expected to be a dictionary formed from the definition YAML file) with:

>>> from workflow import decoder
>>> error: Optional[str] = decoder.validate_schema(workflow)

Contributing

The project’s written in Python and uses Poetry for dependency and package management. We also use pre-commit to manage our pre-commit hooks, which rely on black, mypy, pylint, amongst others.

From within a VS Code devcontainer environment (recommended):

poetry install --with dev --sync
pre-commit install -t commit-msg -t pre-commit

And then start by running the pre-commit hooks to ensure you’re stating with a _clean_ project:

pre-commit run --all-files

And then run the tests:

poetry run coverage run -m pytest
poetry run coverage report

Get in touch

• Report bugs, suggest features or view the source code on GitHub.