why are you using white.deformed? If you just use white (or don't spec) it should work

On 5/23/2022 8:12 AM, 정범석 wrote:

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Dear Freesurfer experts,

I'm running GenericfMRIVolumeProcessingPipeline of HCP pipeline in longitudinal dataset(T1w and fMRI).

After running longitudinal pipeline in freesurfer, I'd like to run script like below. bbregister --s ses-01 --mov Scout_gdc_undistorted2T1w_init.nii.gz --surf white.deformed --init-reg ./mri/transforms/eye.dat --bold --reg ./rfMRI_REST1_PA_fmap/DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased/EPItoT1w.dat --6 --o ./rfMRI_REST1_PA_fmap/DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased/Scout_gdc_undistorted2T1w.nii.gz

However, "white.deformed" file in surf directory is not found in .long directory but in cross-section one.

When I use "white.deformed" file in cross-section directory, an error message was occurred " ERROR: number of vertices in ./surf/lh.thickness does not match surface (132608,133203)"

How to create white.deformed file, appropriately, in the line of the longitudinal pipeline?

Bumseok

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