On 2/16/19 2:54 PM, Matthieu Vanhoutte wrote:
>
> External Email - Use Caution
>
> Dear Douglas,
>
> I wanted just to compute rescaled PET image without any PVC but
> following the same process as if I would have applied PVC. Moreover, I
> didn’t want to reduce FOV with auto mask generated (to still be in the
> gtmseg space). So I ran the following command:
>
> mri_gtmpvc --i PET.lps.nii.gz --reg Pet2T1.register.dof6.lta --psf 0
> --no-tfe --seg gtmseg.mgz --default-seg-merge --auto-mask PSF .01
> --no-reduce-fov --rbv --o nopvc_nGMcerebpons --threads 4 --rescale 8
> 47 174
>
> 1) However, in the output directory rbv.nii.gz file still had a
> reduced fov:
> type: nii
> dimensions: 297 x 381 x 363
> voxel sizes: 0.50, 0.50, 0.50
> type: FLOAT (3)
> fov: 148.500
Try adding --no-mask_rbv_to_brain
>
> Compared to the gtmseg.mgz:
> type: MGH
> dimensions: 334 x 452 x 424
> voxel sizes: 0.50, 0.50, 0.50
> type: INT (1)
> fov: 226.000
>
> I tried also to remove the —auto-mask option without success. Did I
> miss something?
>
> 2) I wonder why the process took so much time while there is just a
> rescaling to apply when using --psf 0 --no-tfe?
It does not know that it is only applying a scaling. It is going through
the entire process
>
> Best,
> Matthieu
>
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