Hello,

The files didnt work!

Here is the error after trying 2 participants, one with each mri_segstats you attached. same error for both.

Could you please let me know what to do next?

n#----------------------------------------- #@# Curvature Stats rh Tue May 24 08:13:18 JST 2016 /Users/dave/Documents/tot/Studies/ASD_Struct/Kj/Surf_test/PSY1012fs/surf \n mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm PSY1012fs rh curv sulc \n Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ PSY1012fs/rh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vertex faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 260 ] Gb_filter = 0

WARN: S lookup min: -0.175830 WARN: S explicit min: 0.000000 vertex = 422 #-------------------------------------------- #@# ASeg Stats Tue May 24 08:13:23 JST 2016 \nINFO: mri_segstats will not calculate Supratentorial due to missing ribbon.mgz file /Users/dave/Documents/tot/Studies/ASD_Struct/kj/Surf_test/PSY1012fs \n 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 /Applications/freesurfer/ASegStatsLUT.txt --subject PSY1012fs \n

$Id: mri_segstats.c,v 1.110.2.3 2015/07/02 20:12:19 zkaufman 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 /Applications/freesurfer/ASegStatsLUT.txt --subject PSY1012fs sysname Darwin hostname daves-Mac-Pro.local machine x86_64 user dave UseRobust 0 atlas_icv (eTIV) = 1512862 mm^3 (det: 1.287696 ) Computing euler number orig.nofix lheno = -122, rheno = -128 orig.nofix lhholes = 62, rhholes = 65 Loading mri/aseg.mgz Warning: cannot find /Users/dave/Documents/tot/Studies/ASD_Struct/kj/Surf_test/PSY1012fs/mri/ribbon.mgz, not computing whole brain stats Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 50 segmentations Computing statistics for each segmentation

Reporting on 45 segmentations Using PrintSegStat mri_segstats done

#------------------------------------------

Started at Mon May 23 11:43:42 JST 2016 Ended at Tue May 24 08:16:38 JST 2016 #@#%# recon-all-run-time-hours 20.549 recon-all -s PSY1012fs finished without error at Tue May 24 08:16:38 JST 2016 done [daves-Mac-Pro:ASD_Struct/kj/Surf_test] dave%

From: davemania@hotmail.com To: freesurfer@nmr.mgh.harvard.edu Date: Fri, 20 May 2016 01:07:28 +0000 Subject: Re: [Freesurfer] The results of your email commands

Thanks a lot. 😊 Does the snowleaopard version work on El Capitan? So by replacing the version already found in bin/mrisegstats, with the leopard one after Chomd +x, it should work? I thought i would get a link for something like mri_segstats.ElCapitan?

Yas

To: freesurfer@nmr.mgh.harvard.edu From: greve@nmr.mgh.harvard.edu Date: Thu, 19 May 2016 11:07:40 -0400 Subject: Re: [Freesurfer] The results of your email commands

I've refreshed those links

On 05/18/2016 10:44 PM, Dave Yas wrote:

...

Dear Doug,

I'm getting mri_segstats error [mghread(...ribbon.mgz) at the end of -autorecon2. I saw your answer for others about this Q before and i know how to solve this *IF* i was able to access to the links you posted.

ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_segstats.centos6 ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_segstats.snowleopard

I thought that these should give me some kind of a pop up to prompt me to enter as a guest and get the file to put it in bin/mrisegstats But its not doesin anything. Also im running OSX El capitan. Is there any link that i can visit to download the missing mrisegstats file?

Thanks,

Yas

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