diff --git a/fmriprep/workflows/bold/fit.py b/fmriprep/workflows/bold/fit.py index 0b938966b..ac4be4645 100644 --- a/fmriprep/workflows/bold/fit.py +++ b/fmriprep/workflows/bold/fit.py @@ -692,6 +692,7 @@ def init_bold_native_wf( # Do NOT set motion_xfm or fieldmap_id on outputnode # This prevents downstream resamplers from double-dipping workflow.connect([ + (inputnode, bold_t2s_wf, [("bold_mask", "inputnode.bold_mask")]), (boldref_bold, join_echos, [("out_file", "bold_files")]), (join_echos, bold_t2s_wf, [("bold_files", "inputnode.bold_file")]), (join_echos, outputnode, [("bold_files", "bold_echos")]),