Hi Riccardo,
I don't understand what 4) is. A couple of points:
1. if you give mri_convert .nii.gz as an output extension it will do the gzipping for you.
2. If you give mri_convert the flag -rl <template volume> it will reslice the input volume "like" the template.
not sure if that solves your problem. Can you describe in more detail what you are trying to accomplish?
cheers, Bruce
On Tue, 19 Jul 2011, r.navarra@itab.unich.it wrote:
Hi FS expert. I need to port my T1 and a couple of ROIs from mgz to nii.gz. The same for many subjects. The issue's about dimensions. When I use fslview, it respond me that "All overlays must have same dimensions as the base image!". Indeed T1's 256x256x256 with voxel sizee 1mm3, ROIs are differents dimensions and 0.5mm3 voxel size. To work now I use this pipeline:
( command line :) )
- mri_convert ---> nii
- gzip ---> nii.gz
- fslmaths t1 -sub t1 t1_zero
- mricron t1_zero -l 0 -h 100 -o roi1.nii.gz
( GUI only :( ) 5) (from mricron) save as nifti roi1_ok.nii.gz
Is there a way to do (5) from command line?
Thanx
Riccardo
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