On Thu, Mar 21, 2013 at 1:12 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

which version of CentOS? Also, can you send me the result of
cat $FREESURFER_HOME/build-stamp.txt

On 03/21/2013 02:09 PM, Y.V. Jiang wrote:

Hi Doug,

I am using Linux: x86_64 GNU/Linux. Thanks.

-Yuhong

On Thu, Mar 21, 2013 at 12:57 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:

what platform are you using?

On 03/21/2013 01:24 PM, Y.V. Jiang wrote:

Hi Doug,

Thanks for the reply. From the command line the command
3dvolreg.afni returned the following error:

3dvolreg.afni: symbol lookup error: 3dvolreg.afni: undefined
symbol: afni_ncerr

-Yuhong

On Thu, Mar 21, 2013 at 12:08 PM, Douglas N Greve
<greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
<mailto:greve@nmr.mgh.harvard.edu

<mailto:greve@nmr.mgh.harvard.edu>>> wrote:

Hi Yuhong,
What happens when you run 3dvolreg.afni from the command
line without
any args?
doug

On 03/21/2013 12:38 PM, Y.V. Jiang wrote:
> Hi Doug,
>
> I was running preproc-sess in the newly released
freesurfer-5.2.0. The
> command I used was:
>
> preproc-sess -sf sessid -df sessdir -fsd bold -surface
fsaverage lhr
> -mni305 -fwhm 6 -per-run
>
> The program failed with the following errors:
>
> 3dvolreg.afni -verbose -dfile 004/fmcpr.mcdat -1Dmatrix_save
> 004/fmcpr.mat -base
004/tmp.mc-afni2.29239/tempvol.nii.gz -prefix
> 004/tmp.mc-afni2.29239/outvol.nii.gz
004/tmp.mc-afni2.29239/invol.nii.gz
> 3dvolreg.afni: symbol lookup error: 3dvolreg.afni:
undefined symbol:
> afni_ncerr
> ERROR: 3dvolreg.afni
> Invalid null command.
>
> I have the file 3dvolreg.afni in $FREESURFER_HOME/bin.
There is
> another file of the same name under afni/bin.
Preproc-sess is
relying
> on the version in $FREESURFER_HOME/bin.
>
> Do you know what the problem is? Should I replace
freesurfer's
copy of
> 3dvolreg.afni with AFNI's copy of 3dvolreg.afni?
>
> Thanks.
>
> -Yuhong
>
>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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