that's weird. I'm not sure what to do. The log says that it is creating 
T1.mgz and not t1.mgz. Can you try this:

cd  $SUBJECTS_DIR/subject/mri
 mri_normalize -g 1 nu.mgz T1.mgz

this should create T1.mgz and not t1.mgz

doug


tulu wrote:
> Dear FS experts and Prof. Douglas N Greve,
> Here is log file. I work on other machine under CentOS 5 and FS 4.5 version
> but I copy the result from this machine to other machine and find it only
> have t1.mgz rather than T1.mgz.
> I guess is the language system problem ?
> Finally I use a short matlab script to change t1.mgz name as T1.mgz.
>
> Thanks in advance
> Best
> JLH
>
> -----Original Message-----
> From: Douglas N Greve [mailto:gr...@nmr.mgh.harvard.edu] 
> Sent: Monday, June 13, 2011 11:01 PM
> To: t...@ms36.hinet.net
> Cc: freesurfer
> Subject: Re: [Freesurfer] make_average_subject error in T1.mgz and t1.mgz
>
> Do you mean your individual subject after running through FS has a file
> called t1.mgz and not T1.mgz? Something is definitely wrong there. Can
> you send the log file?
> doug
>
> t...@ms36.hinet.net wrote:
>   
>> Dear FS experts,
>> I use FS5.1 and previous data run on other machine. When I try to
>> make_average_subjects program, I get error message that it can not get
>> T1.mgz data from subject folder. When I check my dataset, actually it
>> has t1.mgz rather than T1.mgz. how could I change the setting from
>> T1.mgz to t1.mgz
>> thanks help
>> JLH
>>
>> ------------------------------------------------------------------------
>>
>> _______________________________________________
>> Freesurfer mailing list
>> Freesurfer@nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>>     
>
>   

-- 
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358 
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html

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