2007/8/6, Inês Souta <ines.souta@gmail.com >:

freesurfer v.3.0.5 for Linux-Centos4

2007/8/6, Bruce Fischl <fischl@nmr.mgh.harvard.edu>:
yes, you should be able to open it in tksurfer. What version of
freesurfer do you have?
On Mon, 6 Aug 2007, Inês Souta wrote:

> And after creating the mgh volume, how can I read it? Is it possible to open
> it in tksurfer? Should I load it as an overlay?
> I've used one of my already pre-processed subjects, created a 'vol' with the
> same number of vertices of one of the hemisferes, and saved the output of
> save_mgh file as an rh.thickness.mgh file. However, when I don't seem to be
> able to open it in tksurfer...
>
> Thanks
>
> Ines
>
> 2007/8/6, Bruce Fischl < fischl@nmr.mgh.harvard.edu>:
>>
>> they don't matter. For a real volume they would be the ras2vox transform
>> and the mr parameters. For your purposes they can be any 4x4 and you can
>> leave the mri_parms one out (it will detect and fill it in with zeros).
>>
>> Send these to the list so other people can answer!
>>
>> Bruce
>> On
>> Mon, 6 Aug 2007, Inês Souta wrote:
>>
>>> Hi again,
>>>
>>> I still don't understand what all the input objects of save_mgh function
>>> stand for. 'vol' is the vector of thickness values, 'fname' is the name
>> of
>>> the output .mgh file, and what about M and <mr_parms>? What do they
>> stand
>>> for and how should I define them?
>>>
>>> Thanks again,
>>>
>>> Ines
>>>
>>> 2007/7/31, Bruce Fischl <fischl@nmr.mgh.harvard.edu >:
>>>>
>>>> Hi Ines,
>>>>
>>>> use the mgh route. The "vol" is actually the vector of thickness
>> values,
>>>> with one entry per vertex on the surface.
>>>>
>>>> cheers,
>>>> Bruce
>>>> On Tue, 31 Jul 2007, Inês Souta
>>>> wrote:
>>>>
>>>>> Hello,
>>>>>
>>>>> I was trying to create a cortical thickness map with constant values
>> in
>>>>> order to perform some tests. At first I tried using mris_convert. I
>>>>> converted my thickness file into ascii:
>>>>>
>>>>> mris_convert lh.thickness lh.thickess.asc
>>>>>
>>>>> then I used matlab to change all the values in the last column to 2,0.
>> I
>>>>> tried to convert the ascii file back to surface file by doing
>>>>>
>>>>> mris_convert lh.thicness.asc lh.thickness
>>>>>
>>>>> but I got "Segmentation fault". How can I convert may ascii file into
>> a
>>>>> surface one?
>>>>>
>>>>> After failling to acomplish this, I tried using the save_mgh and
>>>> load_mgh
>>>>> file, nevertheless I'm not quite sure which input values are needed.
>>>> Where
>>>>> can I put my fake values in the save_mgh file? And what is "vol"?
>>>>>
>>>>> Thanks,
>>>>>
>>>>> Ines
>>>>>
>>>
>