bash-4.2$ mris_fwhm
USAGE: mris_fwhm
Smooths surface data and/or estimates FWHM
   --i input
   --subject subject (--s)
   --hemi hemi (--h), or --lh or --rh
   --surf surf <white>
   --label labelfile
   --cortex : used hemi.cortex.label
   --mask maskfile
   --X x.mat : matlab4 detrending matrix
   --detrend order : polynomial detrending (default 0, turned off with output)
   --smooth-only : only smooth (implies --no-detrend)
   --no-detrend : turn of poly detrending
   --sqr : compute square of input before smoothing
   --sum sumfile
   --dat datfile (only contains fwhm)
   --ar1dat ar1datfile (contains ar1mean ar1std)
   --ar1 ar1vol : save spatial ar1 as an overlay
   --prune - remove any voxel that is zero in any subject (after any inversion)
   --no-prune - do not prune (default)
   --out-mask outmask : save final mask

   --fwhm fwhm : apply before measuring
   --niters-only <niters> : only report on niters for fwhm
   --o output

   --sd SUBJECTS_DIR
   --synth
   --synth-frames nframes : default is 10
   --threads nthreads

   --debug     turn on debugging
   --checkopts don't run anything, just check options and exit
   --help      print out information on how to use this program
   --version   print out version and exit

$Id: mris_fwhm.c,v 1.40.2.4 2016/12/08 22:02:40 zkaufman Exp $

Amrita
---------- Forwarded message ----------
From: Amrita Bedi <amibedi273@gmail.com>
Date: Friday, January 25, 2019
Subject: Functional connectivty walkthrough step 8 error
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>

Ok hopefully, the text is visible now.

On Friday, January 25, 2019, Amrita Bedi <amibedi273@gmail.com> wrote:

Sorry for the confusion. The Va doesn’t let us access our gmails so I’ll send an email with the text from my city mail email address.

On Friday, January 25, 2019, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
Hi Amrita

please don't take an image of the text and send us that. Just copy and paste the text directly into the email. This is *much* more useful for us.

cheers
Bruce

On Fri, 25 Jan 2019, Amrita Bedi wrote:

        External Email - Use Caution

[0a440090-c896-4f22-8bd2-fe98f24c8013]
On Friday, January 25, 2019, Amrita Bedi <amibedi273@gmail.com> wrote:
[IMAGE]
Here you go.
On Friday, January 25, 2019, Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu> wrote:
Hi Amrita, can you just paste the text into the email?
thanks
doug

On 1/25/19 10:51 AM, Amrita Bedi wrote:

        External Email - Use Caution

Hi Dr Greve,
Ran mris_fwhm and got the attached.

On Thursday, January 24, 2019, Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu> wrote:
Based on the output below, it looks like there are problems with running
one of the freesurfer binaries. Can you run mris_fwhm ? Just type the
command and return and see what happens.

/home/apps/freesurfer-6.0/freesurfer/bin/mris_fwhm --mask
/share/VA_Imaging/Projects/salat/2389_TRT/abedi/TRT_0008_recon/Bold1/fc.lpccseed.surf.lh/mask.nii.gz
--i
/share/VA_Imaging/Projects/salat/2389_TRT/abedi/TRT_0008_recon/Bold1/fc.lpccseed.surf.lh/rho1mn.nii.gz
--o
/share/VA_Imaging/Projects/salat/2389_TRT/abedi/TRT_0008_recon/Bold1/fc.lpccseed.surf.lh/rho1mn.sm.nii.gz
--fwhm 20.000000 --smooth-only --s fsaverage --hemi lh --sd
/share/VA_Imaging/Projects/salat/2389_TRT/abedi
/home/apps/freesurfer-6.0/freesurfer/bin/mris_fwhm:
/home/apps/matlab/MATLAB/R2011b/sys/os/glnxa64/libstdc++.so.6: version
`GLIBCXX_3.4.11' not found (required by
/home/apps/freesurfer-6.0/freesurfer/bin/mris_fwhm)

On 1/23/19 10:11 AM, Amrita Bedi wrote:
>
>         External Email - Use Caution
>
> Hi Dr Greve,
>
> Attached is the log file.
>
> On Tuesday, January 22, 2019, Greve, Douglas N.,Ph.D.
> <DGREVE@mgh.harvard.edu <mailto:DGREVE@mgh.harvard.edu>> wrote:
>
> Can you send the full terminal output and/or the log file?
>
> On 1/22/19 2:53 PM, Amrita Bedi wrote:
> >
> >         External Email - Use Caution
> >
> > Hello Freesurfer developers,
> >
> > I was following the functional connectivity walkthrough for resting
> > stage BOLD data and I got the attached error when I ran step 8
> > (selxavg3-sess). Does anyone have any thoughts on how to trouble
> shoot
> > this?
> > Not sure if it’s of any use but I ran this using Freesurfer 6.0 on
> > Centos 7.4
> >
> > Thank You.
> >
> > Best
> > Amrita
> >
> > _______________________________________________
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu
> <mailto:Freesurfer@nmr.mgh.harvard.edu>
> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>
>
>
> _______________________________________________
> Freesurfer mailing list
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> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>
>
>
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> Freesurfer mailing list
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