Error related to boldmask_to_t1w when running Nibabies 23.0.0

Summary of what happened:

I got a few error messages when running nibabies (23.0.0). The issue may be related to registering images to T1 space. I would appreciate any idea on how to fix this! Thanks!

Command used (and if a helper script was used, a link to the helper script or the command generated):

nibabies-wrapper singularity $bids_dir $out_dir participant --age-months 3 -i $sing_img \
--fs-license-file $license_dir \
--work-dir $out_dir \
--output-spaces anat func \
 MNIInfant:cohort-2:res-native \
--bold2t1w-init register



Environment (Docker, Singularity, custom installation):


Data formatted according to a validatable standard? Please provide the output of the validator:

Output from BIDS Validator v1.11.0:
This is a valid BIDS dataset!

Relevant log outputs (up to 20 lines):

[Node] Error on "nibabies_23_0_wf.single_subject_02_wf.func_preproc_task_encoding_wf.boldmask_to_t1w" (/scratch/nibabies_23_0_wf/single_subject_02_wf/func_preproc_task_encoding_wf/boldmask_to_t1w)
exception calling callback for <Future at 0x7fcb507952e0 state=finished raised FileNotFoundError>
Traceback (most recent call last):
  File "/opt/conda/lib/python3.9/site-packages/nipype/pipeline/plugins/", line 67, in run_node
    result["result"] =
  File "/opt/conda/lib/python3.9/site-packages/nipype/pipeline/engine/", line 527, in run
    result = self._run_interface(execute=True)
  File "/opt/conda/lib/python3.9/site-packages/nipype/pipeline/engine/", line 645, in _run_interface
    return self._run_command(execute)
  File "/opt/conda/lib/python3.9/site-packages/nipype/pipeline/engine/", line 722, in _run_command
    result =, ignore_exception=True)
  File "/opt/conda/lib/python3.9/site-packages/nipype/interfaces/base/", line 388, in run
  File "/opt/conda/lib/python3.9/site-packages/nipype/interfaces/base/", line 275, in _check_mandatory_inputs
    raise ValueError(msg)
ValueError: FixHeaderApplyTransforms requires a value for input 'input_image'. For a list of required inputs, see

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/opt/conda/lib/python3.9/concurrent/futures/", line 246, in _process_worker
    r = call_item.fn(*call_item.args, **call_item.kwargs)
  File "/opt/conda/lib/python3.9/site-packages/nipype/pipeline/plugins/", line 70, in run_node
    result["result"] = node.result
  File "/opt/conda/lib/python3.9/site-packages/nipype/pipeline/engine/", line 223, in result
    return _load_resultfile(
  File "/opt/conda/lib/python3.9/site-packages/nipype/pipeline/engine/", line 291, in load_resultfile
    raise FileNotFoundError(results_file)
FileNotFoundError: /scratch/nibabies_23_0_wf/single_subject_02_wf/func_preproc_task_encoding_wf/boldmask_to_t1w/result_boldmask_to_t1w.pklz

Screenshots / relevant information: