Hello,
I have used mrregister to register a subjects native FOD image to a template FOD image and this works fine. However, when I use the full warp output by mrregister to warp an ROI into the template FOD it fails because it says a no linear transform can be found. mrregister is failing to output the full warp for the registration. Here are my commands and the resulting error.
mrregister sub1_FODs.nii.gz /crash-work/clint/FOD_template/average_FOD_mrtrix.nii.gz -mask1 new_brain_mask.nii.gz -mask2 /crash-work/clint/FOD_template/template_mask.nii.gz -transformed sub1_warped_mrtrix.nii.gz -nl_warp_full sub1_warp.nii.gz
mrtransform sub1_lesion_new.nii.gz -template /crash-work/clint/FOD_template/average_FOD_mrtrix.nii.gz -warp_full sub1_warp.nii.gz sub1_lesion_mrtix_template.nii.gz -interp nearest -force
mrtransform: [100%] uncompressing image “sub1_warp.nii.gz”
mrtransform: [100%] preloading data for “sub1_warp.nii.gz”
mrtransform: [100%] uncompressing image “sub1_lesion_new.nii.gz”
mrtransform: [100%] preloading data for “sub1_lesion_new.nii.gz”
mrtransform: [100%] compressing image “sub1_lesion_mrtix_template.nii.gz”
mrtransform: [ERROR] no linear transform found in initialisation syn warps image header
MRtrix 3.0_RC2-61-g068b1398