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FIX: Ensure mask input is used
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nibabies/workflows/anatomical/registration.py

Lines changed: 4 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -197,11 +197,11 @@ def init_coregistration_wf(
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thr_mask = pe.Node(Binarize(thresh_low=0.80), name="thr_mask")
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# fmt:off
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workflow.connect([
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(inputnode, reg_mask, [("in_mask", "in_file")]),
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(inputnode, refine_mask, [("in_mask", "in_file")]),
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(inputnode, map_mask, [
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("in_t1w", "reference_image"),
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("in_probmap", "input_image")]),
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(inputnode, reg_mask, [("in_mask", "in_file")]),
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(inputnode, refine_mask, [("in_mask", "in_file")]),
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(coreg, map_mask, [
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("reverse_transforms", "transforms"),
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("reverse_invert_flags", "invert_transform_flags")]),
@@ -219,6 +219,8 @@ def init_coregistration_wf(
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)
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# fmt:off
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workflow.connect([
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(inputnode, reg_mask, [("in_mask", "in_file")]),
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(inputnode, refine_mask, [("in_mask", "in_file")]),
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(inputnode, map_precomp_mask, [
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('in_t1w', 'reference_image'),
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('in_mask', 'input_image')]),

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