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FIX: invert result of skull-strip check in auto mode #402

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merged 1 commit into from
Nov 29, 2023
Merged

FIX: invert result of skull-strip check in auto mode #402

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2 changes: 1 addition & 1 deletion smriprep/workflows/anatomical.py
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Original file line number Diff line number Diff line change
Expand Up @@ -795,7 +795,7 @@ def init_anat_fit_wf(
if not have_mask:
LOGGER.info("ANAT Stage 2: Preparing brain extraction workflow")
if skull_strip_mode == "auto":
run_skull_strip = all(_is_skull_stripped(img) for img in t1w)
run_skull_strip = not all(_is_skull_stripped(img) for img in t1w)
else:
run_skull_strip = {"force": True, "skip": False}[skull_strip_mode]

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