Source code for planemo.runnable_resolve

import os

from planemo.galaxy.profiles import translate_alias
from planemo.galaxy.workflows import GALAXY_WORKFLOWS_PREFIX
from planemo.tools import uri_to_path
from .runnable import (
    for_path,
    for_uri,
)


[docs]def for_runnable_identifier(ctx, runnable_identifier, kwds, temp_path=None, return_all=False): """Convert URI, path, or alias into Runnable.""" # could be a URI, path, or alias current_profile = kwds.get("profile") runnable_identifier = translate_alias(ctx, runnable_identifier, current_profile) if not runnable_identifier.startswith(GALAXY_WORKFLOWS_PREFIX): runnable_identifier = uri_to_path(ctx, runnable_identifier) if os.path.exists(runnable_identifier): runnable = for_path(runnable_identifier, temp_path=temp_path, return_all=return_all) else: # assume galaxy workflow id if not runnable_identifier.startswith(GALAXY_WORKFLOWS_PREFIX): runnable_identifier = f"{GALAXY_WORKFLOWS_PREFIX}{runnable_identifier}" runnable = for_uri(runnable_identifier) return runnable
[docs]def for_runnable_identifiers(ctx, runnable_identifiers, kwds, temp_path=None): """Convert lists of URIs, paths, and/or aliases into Runnables.""" runnables = [] for r in runnable_identifiers: runnable = for_runnable_identifier(ctx, r, kwds, temp_path=temp_path, return_all=True) if isinstance(runnable, list): runnables.extend(runnable) else: runnables.append(runnable) return runnables