My understanding is that the tensor dimensions were messed up when the warp field data was loaded from the HDF5 file, somehow the first and the third dimensions were swapped.
ants_t1_to_mniComposite.h5 was from a working directory of fMRIPrep 21.0.2, and it's identical to sub-*_from-T1w_to-MNI152NLin2009cAsym_mode-image_xfm.h5 in the output directory. The NIFTI file was generated using CompositeTransformUtil --disassemble ants_t1_to_mniComposite.h5 ants_t1_to_mniComposite.
Hello,
It seems that loading composite transforms using
ITKCompositeH5may generate incorrect warp fields data. Here is some minimal code and data to replicate the problem: https://www.dropbox.com/sh/9q7fkiil5acd9wy/AAD9IAK-fPIQZ6HSke67nFPea?dl=0My understanding is that the tensor dimensions were messed up when the warp field data was loaded from the HDF5 file, somehow the first and the third dimensions were swapped.
ants_t1_to_mniComposite.h5was from a working directory of fMRIPrep 21.0.2, and it's identical tosub-*_from-T1w_to-MNI152NLin2009cAsym_mode-image_xfm.h5in the output directory. The NIFTI file was generated usingCompositeTransformUtil --disassemble ants_t1_to_mniComposite.h5 ants_t1_to_mniComposite.Best, Feilong