Thank you for the response.
Then what do you suggest i use?
Because same error is occurred when i typed like this; [recon-all -subject
${subjName} -i T1_bfc.nii -hires -T2 T2_bfc.nii -T2pial -all]
Thanks!
Juhyoung
> On Aug 6, 2017, at 3:04 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote:
>
> Hi Juhyoung
>
> I think it's because you have -cw256. Since it comes after -hires it
> overrides it and tells recon-all to crop to a 256 volume size
>
> cheers
> Bruce
> On Fri, 4 Aug 2017, Juhyoung Ryu wrote:
>
>> 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)
>> 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> 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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