Hi Eveline

can you send us an image? What was your commandline for mris_fix_topology? I think you need to specify -mgz

cheers Bruce

On Tue, 22 Feb 2011, Eveline Geiser wrote:

Hi,

I run into the following error when running recon-all.

ERROR: _FindFacePath: could not find path! in the process: Correcting Topology of defect 2 with euler number -9 (5 loops) computing statistics for defect 2: 1934 vertices location: [ (93,119,57) - average intensity = 85.136 ]....

The subject also has a huge anatomical abnormality or possibly an artifact ventral of the cerebellum (between cerebellum and pons). Brainmask.mgz also shows striping. When running the old topology fixer the following error occurs:

mris_fix_topology: could not read brain volume from /mindhive/gablab/rhythm/cacophonix_July10/freesurfer_data/cacix7/mri/brain however, brain.mgz is there and loadable in tkmedit.

Could the artifact be the reason for all this or is there another issue? Thanks for your help

Eveline