view env/lib/python3.7/site-packages/planemo/engine/toil.py @ 2:6af9afd405e9 draft

"planemo upload commit 0a63dd5f4d38a1f6944587f52a8cd79874177fc1"
author shellac
date Thu, 14 May 2020 14:56:58 -0400
parents 26e78fe6e8c4
children
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"""Module contianing the :class:`ToilEngine` implementation of :class:`Engine`."""

from planemo import cwl
from planemo.runnable import RunnableType
from .interface import BaseEngine


class ToilEngine(BaseEngine):
    """An :class:`Engine` implementation backed by Toil.

    More information on toil can be found at https://github.com/BD2KGenomics/toil.
    """

    handled_runnable_types = [RunnableType.cwl_tool, RunnableType.cwl_workflow]

    def _run(self, runnable, job_path):
        """Run CWL job using Toil."""
        path = runnable.path
        return cwl.run_toil(self._ctx, path, job_path, **self._kwds)


__all__ = (
    "ToilEngine",
)