Dear. Freesurfer experts.

Hi. How are you?

I'd appreciate it a lot if you can help me with this problem.

I'm trying to check the ROI (.nii) after creating it by using mri_label2vol command.

I used the command:

mri_label2vol --label $SUBJECTS_DIR/$SUBJECT/label/lh.v1vt.label --label $SUBJECTS_DIR/$SUBJECT/label/lh.v1dt.label --temp $DATA_DIR/$SUBJECT/bold_retino/025/fmcpr.nii.gz --reg $DATA_DIR/$SUBJECT/bold_retino/025/register.dof6.dat --o $DATA_DIR/$SUBJECT/roimask/test.nii

tkmedit -f $SUBJECTS_DIR/$SUBJECT/mri/norm.mgz -overlay $DATA_DIR/$SUBJECT/roimask/test.nii -overlay-reg $DATA_DIR/$SUBJECT/bold_retino/025/register.dof6.dat -fthresh 0.01

However, this tkmedit command looks for test.dat file instead of test.nii and does not show ROI.

Could you please tell me what's going wrong?

Thank you!

Best,

Ji Won