Hi Alistair
The following step is missing in the documentation, sorry:
convert_xfm -omat struct2freesurfer.mat -inverse freesurfer2struct.mat
Cheers
Saad
On 16 Aug 2012, at 02:38, Alistair Perry wrote:
> Hello,
>
> I am wishing to perform probx tracking from freesurfer cortical surfaces. Here is the link:
>
> http://fsl.fmrib.ox.ac.uk/fsl/fdt/fdt_surface.html
>
> Everything is running smoothly, until I want to concentate the freesurfer <> fa, and struct <> freesurfer transformations.
>
> When I enter this command "convert_xfm -omat fa2freesurfer.mat -concat struct2freesurfer.mat fa2struct.mat " in Linux, it comes up with an error "Could not open matrix file struct2freesurfer.mat".
>
> I can't find the struct2freesurfer.mat file. It has not been created when performing the transformations.
>
> Could anyone help? I do have the file freesurfer2struct.mat, perhaps there is an error on the website?
>
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
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