Dear FS experts,
I want to reconstruct white and pial surface using both -hires and -T2pial
options.
My T1 and T2 image resolution is .85mm^3.
But [recon-all -subject ${subjName} -i T1_bfc.nii -hires -T2 T2_bfc.nii -T2pial
-all -cw256] command is not working as I emailed below..
Is there any suggestions to run freesurfer?
Thank you in advance!
Juhyoung
> On Jul 28, 2017, at 8:45 AM, Juhyoung Ryu <jh67753...@gmail.com> wrote:
>
> Hi Bruce,
>
> Yes I’m using v6.0.
> I found that there is -hires flag in version 6
> (https://surfer.nmr.mgh.harvard.edu/fswiki/HiResRecon
> <https://surfer.nmr.mgh.harvard.edu/fswiki/HiResRecon>)
> and i included that; recon-all -subject ${subjName} -i T1_bfc.nii -hires -T2
> T2_bfc.nii -T2pial -all -cw256
>
>
> Thanks,
> Juhyoung
>
>> On Jul 28, 2017, at 2:19 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu
>> <mailto:fis...@nmr.mgh.harvard.edu>> wrote:
>>
>> Hi Juhyoung
>>
>> what FS version are you running with? If 6.0 you want to include the
>> -highres flag
>>
>> cheers
>> Bruce
>>
>>
>>
>> On Thu, 27 Jul 2017, juhyoung Ryu wrote:
>>
>>> Hi experts,
>>> I'm trying to surface reconstruction using high-resolution T1 and T2 data
>>> using freesurfer version 6
>>> So I typed like this:
>>> recon-all -subject ${subjName} -i T1_bfc.nii -hires -T2 T2_bfc.nii -T2pial
>>> -all
>>> and that excited with errors like this;
>>> \n****************************************
>>> ERROR! FOV=272.000 > 256
>>> Include the flag -cw256 with recon-all!
>>> Inspect orig.mgz to ensure the head is fully visible.
>>> ****************************************\n
>>> So I added -cw256 flag and run the command line again (recon-all -subject
>>> ${subjName} -i T1_bfc.nii -hires -T2 T2_bfc.nii -T2pial -all -cw256). But
>>> the result is same.
>>> I'd appreciate any suggestion.
>>> Thank you,
>>> Juhyoung
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