Hi - please see the examples usage at the end of the FNIRT webpage -
you should include at least also a configuration file and a FLIRT
initial affine matrix.
Cheers.
On 7 Dec 2008, at 19:47, siamak wrote:
> Hi Mark,
>
> Thank you for your time. It is a Linux Redhat based OS machine with
> 3.2G
> Ram. But, I am not the only person that runs commands on it. I am
> using two
> structural T1 images with 1mm resolution. I run the fnirt command
> with the
> following options:
> fnirt --in=image1.nii.gz --ref=image2.nii.gz --iout=image3.nii.gz --
> refmask=ref.nii.gz
>
> Siamak
>
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
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