The Biolink Model is defined as a YAML. Any changes or edits are to be made to this YAML.
We make use of BiolinkML library to generate various artifacts from the YAML.
The generation of Biolink Model artifacts requires Python 3.7+ because it makes extensive use of Python
The standard approach is to install Python 3.7+ on your machine (see: http://python.org/ for details).
All artifact generation is driven by the Makefile:
To generate Python dataclasses,
To generate Shape Expressions,
To generate Biolink Model JSON-LD context,
To build the documentation site,
First ensure that you are on
git checkout gh-pages
master branch to get the latest changes,
git merge master
Note: Ensure there is no merge conflicts and that the merge was successful.
Now regenerate the markdown,
This should regenerate all the Jekyll formatted markdown in /docs folder.
Now add the
/docs folder, commit and push.
git add docs git commit -m "Update docs" git push origin gh-pages
This push operation should trigger GitHub Pages to rebuild the documentation site with the latest changes.