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Dear FreeSurfer experts,

I'm trying to resample an anatomical monkey atlas D99 to the functional space. I run this command line:

mri_vol2vol --reg registerNMT2toCassis.dat --mov D99_atlas_in_NMT_v2.0_asym_fh.nii.gz --targ /usr/local/freesurfer/fsfast/ Monkeys/MonkeyCassis-FF-event-sm03-AVGmonkey/bold/template.nii.gz --o D99_registered2func.nii.gz

However, the registration was completely lost and I had to register it again manually. Maybe I did something wrong? Thanks.

Francesca