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Hello!  freesurfer experts,

I am running dt_recon and mri_vol2vol to obtain FA values of five corpus callosum (CC) sub-regions.  

command 1,  dt_recon --b bvals.dat bvecs.dat --i $TUTORIAL_DIR/$subj/DTI/00001.dcm --s $subj --o $TUTORIAL_DIR/$subj/dtrecon

command 2, mri_vol2vol --mov lowb.nii.gz \

--targ $SUBJECTS_DIR/$subj/mri/wmparc.mgz \

--inv --interp nearest --o $SUBJECTS_DIR/$subj/mri/wmparc2diff.mgz \

--reg register.dat --no-save-reg


Everything is OK after running the dt_recon command and the registration of all diffusion images with the anatomical data is good. However, some of my subjects show an issue with mri_vol2vol registration. When checking the wmparc2diff.mgz I created, it is apparent that surfaces of lh.white and rh.white are not accurately mismatched with the wmparc2diff.mgz, as showed in the following figure. Is there an error with  my command about mri_vol2vol or a problem in other aspects? 

Any advice with troubleshooting would be greatly appreciated.

Best Wishes

Bo Tao
M.D Student, Department of Radiology / Huaxi MR Research Center (HMRRC）West China Hospital of Sichuan University 
Chengdu  City, 610041
P.R. China