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Delay toil import and use or fail when actually used #1580

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Merged
merged 1 commit into from
Oct 16, 2025
Merged

Delay toil import and use or fail when actually used #1580

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13 changes: 6 additions & 7 deletions planemo/cwl/toil.py
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Original file line number Diff line number Diff line change
@@ -1,11 +1,6 @@
import json
import tempfile

try:
from toil.cwl import cwltoil
except ImportError:
cwltoil = None

from planemo.deps import ensure_dependency_resolvers_conf_configured
from planemo.io import (
error,
Expand All @@ -25,7 +20,7 @@

def run_toil(ctx, runnable: "Runnable", job_path: str, **kwds):
"""Translate planemo kwds to cwltool kwds and run cwltool main function."""
_ensure_toil_available()
cwltoil = _ensure_toil_available()

args = []
if not ctx.verbose:
Expand Down Expand Up @@ -75,5 +70,9 @@ def run_toil(ctx, runnable: "Runnable", job_path: str, **kwds):


def _ensure_toil_available():
if cwltoil is None:
try:
from toil.cwl import cwltoil

return cwltoil
except ImportError:
raise Exception(TOIL_REQUIRED_MESSAGE)