Braker3
This wrapper runs BRAKER3 using the official Docker image: teambraker/braker3.
It does not require any longer a custom installation of GeneMark on the host system, as these are bundled inside the container.
Running
To run this tool during development, use Planemo with Docker support enabled:
planemo serve --docker
planemo test --docker
There is no longer any need to manually set GENEMARK_PATH or PROTHINT_PATH via the job configuration.
Testing
Tests no longer rely on custom environment variables. Docker ensures a reproducible and portable environment for development and execution.
job_conf_braker3.xml is now obsolete for this wrapper version.