External Email - Use Caution        

Did you run the preceding steps of FreeSurfer?  Does that file exist?

Peace,

Matt.

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Aaron Tanenbaum <aaron.b.tanenbaum@gmail.com>
Reply-To: Freesurfer support list <Freesurfer@nmr.mgh.harvard.edu>
Date: Friday, July 13, 2018 at 5:24 PM
To: Freesurfer <Freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] missing ribbon.mgz

        External Email - Use Caution        

I am a bit puzzled. I am running freesurfer 5.3 HCP on ubuntu 14.04.  I am getting an error, see below

I am using the command

recon-all -s BOLD-52_v1 -mprage -autorecon2

This has happened before. What did I do wrong.

#@# ASeg Stats Fri Jul 13 12:55:02 CDT 2018

INFO: mri_segstats will not calculate Supratentorial
      due to missing ribbon.mgz file
/data/nil-bluearc/ances/Aaron/FreeSurfers/BOLD-52_v1

 mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /data/ances/FreeSurfer/freesurfer_5_3_HCP//ASegStatsLUT.txt --subject BOLD-52_v1


$Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $
cwd
cmdline mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /data/ances/FreeSurfer/freesurfer_5_3_HCP//ASegStatsLUT.txt --subject BOLD-52_v1
sysname  Linux
hostname brahms
machine  x86_64
user     tanenbauma
UseRobust  0
atlas_icv (eTIV) = 1714974 mm^3    (det: 1.135939 )
mghRead(/data/nil-bluearc/ances/Aaron/FreeSurfers/BOLD-52_v1/mri/ribbon.mgz, -1): could not open file
Computing euler number
orig.nofix lheno =  -70, rheno = -38
orig.nofix lhholes =   36, rhholes = 20
Loading mri/aseg.mgz
Getting Brain Volume Statistics
Linux brahms 3.19.0-80-generic #88~14.04.1-Ubuntu SMP Fri Jan 13 14:54:07 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s BOLD-52_v1 exited with ERRORS at Fri Jul 13 12:55:11 CDT 2018

To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

 

 

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