Dear FreeSurfers,
The -noconform flag of mri_normalize doesn't seem to work properly in the centos4_x86_64_stable-pub-v5.0.0 build. I have been trying to process a volume with a native isotropic resolution of 0.7mm using recon-ll including the -cm flag to conform the input to minimum. But during the normalization of mri_normalize the volume is conformed to an isotropic resolution of 1mm.
The flag is correctly used during mri_normalize, but it doesn't seem to do anything. The recon-all log says:
"not interpolating and embedding volume to be 256^3..."
But the output volume T1.mgz is conformed to 256^3 and therefore to an isotropic resolution of 1mm. This also happens if mri_normalize is used by hand using the -noconform flag.
A fix is highly appreciated.
Thanks in advance, Falk Lüsebrink