GA4GH Testbed Lib

Python library for creating GA4GH testbed reports according to a harmonized, cross-workstream schema

Installation

As a prerequisite, please ensure you have Python 3 installed on your machine. ga4gh-testbed-lib is tested on the following Python versions:

• v3.7
• v3.8
• v3.9
• v3.10

ga4gh-testbed-lib is a library that can be imported into your Python project. To do so, first install it via pip:

pip install ga4gh-testbed-lib

Note: We recommend using a Python virtual environment when building any Python project to avoid dependency conflicts with other projects on your system.

Usage

Once installed, you may import the ga4gh-testbed-lib in your Python modules. We recommend only importing the Report class directly:

from ga4gh.testbed.report.report import Report
...
report = Report()

More documentation to come on how to use the report library

Test

To contribute to the testbed library, you will need to clone the repository:

git clone https://github.com/ga4gh/ga4gh-testbed-lib.git

To run tests, you will need to install test dependencies (i.e. pytest):

pip install -r requirements.txt

Tests can be run via pytest:

python -m pytest --cov

Changelog

v0.2.2

• Optional private flag for submissions

v0.2.1

• Accept json report from report object

v0.2.0

• Able to submit reports to Testbed API via standard POST request

v0.1.2

• Test level entity now has a message attribute for capturing test result summary in a single message

Maintainers

• GA4GH Tech Team ga4gh-tech-team@ga4gh.org