def cli(ctx, path, job_path, **kwds):
"""Planemo command for running CWL tools and jobs.
::
% planemo cwl_run cat1-tool.cwl cat-job.json
"""
engine = kwds.get("cwl_engine", "galaxy")
if engine == "galaxy":
return cwl.run_galaxy(ctx, path, job_path, **kwds)
else:
return cwl.run_cwltool(ctx, path, job_path, **kwds)
def cli(ctx, path, job_path, **kwds):
"""Planemo command for running CWL tools and jobs.
::
% planemo cwl_run cat1-tool.cwl cat-job.json
"""
engine = kwds.get("cwl_engine", "galaxy")
if engine == "galaxy":
return cwl.run_galaxy(ctx, path, job_path, **kwds)
else:
return cwl.run_cwltool(ctx, path, job_path, **kwds)
def _run(self, runnable, job_path):
"""Run CWL job using cwltool."""
return cwl.run_cwltool(self._ctx, runnable, job_path, **self._kwds)
def _run(self, runnable, job_path):
"""Run CWL job using cwltool."""
path = runnable.path
return cwl.run_cwltool(self._ctx, path, job_path, **self._kwds)