mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
John Chilton
b0b26e6901
This will allow importing workflow relative resources in subsequent passes at this.
37 lines
1.1 KiB
Python
37 lines
1.1 KiB
Python
import os
|
|
import yaml
|
|
|
|
from .interface import BioBlendImporterGalaxyInterface
|
|
from .converter import yaml_to_workflow, python_to_workflow
|
|
|
|
|
|
def convert_and_import_workflow(has_workflow, **kwds):
|
|
"""
|
|
"""
|
|
galaxy_interface = kwds.get("galaxy_interface", None)
|
|
if galaxy_interface is None:
|
|
galaxy_interface = BioBlendImporterGalaxyInterface(**kwds)
|
|
|
|
source_type = kwds.get("source_type", None)
|
|
workflow_directory = kwds.get("workflow_directory", None)
|
|
if source_type == "path":
|
|
workflow_path = has_workflow
|
|
if workflow_directory is None:
|
|
workflow_directory = os.path.dirname(has_workflow)
|
|
with open(workflow_path, "r") as f:
|
|
has_workflow = yaml.load(f)
|
|
|
|
if workflow_directory is not None:
|
|
workflow_directory = os.path.abspath(workflow_directory)
|
|
|
|
if isinstance(has_workflow, dict):
|
|
workflow = python_to_workflow(has_workflow, galaxy_interface, workflow_directory)
|
|
else:
|
|
workflow = yaml_to_workflow(has_workflow, galaxy_interface, workflow_directory)
|
|
|
|
return galaxy_interface.import_workflow(workflow)
|
|
|
|
__all__ = [
|
|
'convert_and_import_workflow',
|
|
]
|