Hi Bruce
Thanks. The problem is solved. Pardon my last question:
After creating a study specific template, I try to map every thickness
map into the template using surf2surf and also zero the medial wall
with "--no-cortex". Does it mean that the native surface is firstly
transformed to the standard fsaverage to extract the cortex and medial
wall annotations, and then mapped to the study specific template? Is
it ok, or there exists a better approach?

Cheers,
Sourena

On 8/18/12, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
> Hi Sourena
>
> the inflated.H is the mean curvature of the inflated surface and can be
> used to guide initial large-scale alignment. I think it is generated by the
>
> current recon-all, but Nick can correct me if not. You can create them
> using mris_curvature
>
> cheers
> Bruce
>
> On Sat, 18 Aug 2012, Sourena
> Soheilinezhad wrote:
>
>> Hi experts,
>>
>> I have tried this syntax for making a surface template:
>> mris_make template ?h sphere subj1 subj2 subj3 my_template.tiff
>>
>> Output is an error saying "Could not read curvature file: ?h.infalted.H"
>>
>> But searching in the /surf directory for .H file, I have added
>> "-infname white_avg" to the command and it seems to run smoothly.
>> My question is, what is this .H file? Should I safely ignore the
>> default search for inflated.H and keep on using white_avg.H instead?
>> Also, the make_average_surface command gives the same "missing .H
>> file" error but this time there is no -infname parameter to be
>> manipulated.
>>
>> Thanks in advance,
>> Sourena
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>>
>>
>>
>
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