New format for Nibabies anat-to-MNI transforms does not work with surface-warping workflow

[tsalo]

Summary

@erikglee came across this bug before the break. It looks like the new anat-to-MNI transforms being generated by Nibabies (as of nipreps/nibabies#424) are not composite transforms that the surface-warping workflow can use.

Additional details

• xcp_d version: 0.10.1
• Docker version:
• Apptainer version:

What were you trying to do?

Process recently-processed Nibabies derivatives using XCP-D with --warp-surfaces-native2std y enabled.

What did you expect to happen?

XCP-D should be able to use the transforms generated by Nibabies to warp meshes to fsLR (aligned to MNI152NLin6Asym).

What actually happened?

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.10/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node
    result["result"] = node.run(updatehash=updatehash)
  File "/usr/local/miniconda/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 527, in run
    result = self._run_interface(execute=True)
  File "/usr/local/miniconda/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 645, in _run_interface
    return self._run_command(execute)
  File "/usr/local/miniconda/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 771, in _run_command
    raise NodeExecutionError(msg)
nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node disassemble_h5.

Cmdline:
	CompositeTransformUtil --disassemble /data/sub-X/ses-Y/anat/sub-X_ses-Y_run-1_from-T2w_to-MNI152NLin6Asym_mode-image_xfm.h5 T1w_to_MNI152NLin6Asym
Stdout:
	Transform File /data/sub-X/ses-Y/anat/sub-X_ses-Y_run-1_from-T2w_to-MNI152NLin6Asym_mode-image_xfm.h5 is not a Composite Transform.
Stderr:

Traceback:
	RuntimeError: subprocess exited with code 1.

Reproducing the bug

Preprocess fMRI data with Nibabies after nipreps/nibabies#424 was merged with --cifti-output and Freesurfer, then run XCP-D with --file-format cifti and --warp-surfaces-native2std y.