Hi Doug, 

Thanks. I was wondering if you think this would do the job: 1) use fmcpr.nii.gz   2) split it to 3d volumes  3) do mri_vol2vol for all the volumes separely  4) concatenate the resampled volumes together to get a 4d volume. If you don't think this is a good approach, I appreciate it if you could walk me through the steps. 

Thanks in advance for your help
Best regards,
Ehsan



On Tue, Mar 22, 2016 at 3:53 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:
The problem is not the command, it is the size of the data it generates.
You can try reducing the size of the anatomical to a bounding box around
the brain. This is a bit tricky as you also have to compute a new
registration. I can help step you through the process if you want to go
in that direction.

On 03/22/2016 11:50 AM, Ehsan Tadayon wrote:
> Hi Doug,
>
> Thanks for your response. What I'm trying to do is to get each voxel's
> times course in structural space and I was under the impression that
> mri_vol2vol --mov func.nii would be the right way to go. Would you
> please let me know what the best way would be to do this?
>
> best,
> Ehsan,.
>
>
> On Wed, Mar 16, 2016 at 11:27 PM, Douglas Greve
> <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:
>
>     that's going to create a pretty big volume as it will map your
>     functional time course to a 256^3 float volume. If you have 100
>     time points, then that will be about 7G.
>
>     On 3/16/16 3:27 PM, Ehsan Tadayon wrote:
>>     Hi Bruce,
>>
>>     Thanks for your response. I'm using :
>>
>>     freesurfer version:
>>     freesurfer-Darwin-leopard-i686-stable-pub-v5.1.0 on OS X Yosemite
>>     10.10.5 with 16 GB 1333 MHz DDR3 memory. The command that I'm using:
>>
>>     mri_vol2vol --mov func.nii.gz --fstarg --reg register.dat --o
>>     func.anat.nii.gz
>>
>>     Thanks in advance for your help.
>>
>>     best regards,
>>     Ehsan.
>>
>>
>>
>>
>>     On Tue, Mar 15, 2016 at 11:49 PM, Bruce Fischl
>>     <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>>
>>     wrote:
>>
>>         Hi Ehsan
>>
>>         We need the full command line and screen output and also what
>>         your hardware and software environments are to help you.
>>         Certainly sounds like you ran out of memory though
>>
>>         Cheers
>>         Bruce
>>
>>         > On Mar 15, 2016, at 11:41 PM, Ehsan Tadayon
>>         <ehsan.tadayon84@gmail.com
>>         <mailto:ehsan.tadayon84@gmail.com>> wrote:
>>         >
>>         > Ehsan
>>
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Douglas N. Greve, Ph.D.
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