External Email - Use Caution Did you run the preceding steps of FreeSurfer? Does that file exist?
Peace, Matt. From: <freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of Aaron Tanenbaum <aaron.b.tanenb...@gmail.com<mailto:aaron.b.tanenb...@gmail.com>> Reply-To: Freesurfer support list <Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu>> Date: Friday, July 13, 2018 at 5:24 PM To: Freesurfer <Freesurfer@nmr.mgh.harvard.edu<mailto: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 ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.
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