This repository is a sandbox version of the wikipathways database to develop new actions and procedures for pathway curation.
Users should never have to see this repo. If you think you're here by accident, maybe you are looking for the WikiPathways Database.
Please use caution when commit directly to this repository. Various GitHub Action are triggered by new commits. Please review the workflows in the .github/workflows directory and ask other developers on Slack if uncertain before making changes.
The GitHub actions specifiy versions for various tools and resources. Developers are responsible for keeping these up-to-date. GitHub Actions will report pending deprecations on each run. Please take note of these and update the version numbers accordingly. These might include:
- Node.js
- Ubuntu (consider using ubuntu-latest)
- Syntax for things like environment variables and secrets
Marketplace actions also need to be updated. These might include:
- actions/checkout
- actions/setup-java
- actions/setup-node
- actions/setup-python
- actions/cache
- r-lib/actions/setup-r
Finally, our own tools and resources will require updates. These might include:
- meta-data-action jar
- SyncAction jar
- Caches of bridgedb files