Hi, Just wanted to follow up on the issue below regarding the dimension of the mri_label2vol output.

Hi,

I'm using mri_label2vol with the parameters below but the output .nii volume has the shape 163842x1x1 while the input volume is 27307x1x6. This dimension mismatch is causing issues in our gPPI pipeline.

How can I generate a .nii output file with the 27307x1x6 dimension?

mri_label2vol
    --temp fmcpr.sm4.fsaverage.lh.b0dc.nii (output file generated from preproc step)
    --label label_name.label
    --o label_name.nii
    --identity

Thanks,

Afsana

______________________________

Afsana Afzal
Clinical Research Coordinator
Massachusetts General Hospital
Division of Neurotherapeutics
Department of Psychiatry: Neurosciences
149 13th St, Room 2612
Charlestown, MA 02129
Phone: 617-643-5129
Fax: 617-726-4078

From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Afzal, Afsana [AAFZAL@mgh.harvard.edu]
Sent: Wednesday, March 23, 2016 2:44 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Mismatch in dimensions using mri_label2vol

Thanks,

Afsana

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