oh, this must be Doug's code, not mine. Try using --regheader instead
And also please send us the full command and all screen output from it in the future. cheers Bruce On Wed, 25 Apr 2018, Srinivasan, Dhivya wrote:
External Email - Use CautionSorry for bothering with more questions!
I am getting an error saying ,
mri_compute_volume_fractions: could not load registration file from identity.nofile
And my command is,
mri_compute_volume_fractions identity.nofile mri/aseg.mgz test
and if I try to give in this format which the documentation says,
mri_compute_volume_fractions [options] --o <outstem> --reg <regfile>
Am I going wrong somewhere?
Thanks, Dhivya ________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Bruce Fischl [fischl@nmr.mgh.harvard.edu] Sent: Wednesday, April 25, 2018 4:22 PM To: Freesurfer support list Subject: Re: [Freesurfer] mri_compute_volume_fractions
Hi Dhivya
if you are doing it in the space of the anatomicals, then use identity.nofile as the reg file (which is a special file name that will internally create an identity matrix). The output stem is whatever you pick - it will be prepended to the files that are written with the volume fractions.
cheers Bruce On Wed, 25 Apr 2018, Srinivasan, Dhivya wrote:
External Email - Use CautionHi,
I would like to get CSF/GM/WM segmentations from aseg.mgz or in other words from labeled brain. Can I do that with mri_compute_volume_fractions ? Also, I am not sure about the parameters to supply, <reg file> and <output stem>?
Could Someone point me to some documentation on how should use this function to get the segmentations ?
Thanks, Dhivya
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