Freesurfer devs,

 

I have a baffling problem in mris_sphere.

 

I have generated some surfaces using an external tool that uses VTK. After converting the surfaces into freesurfer format using a basic format converter, then adding volume geometry to the surface file using the image used to create it the surface appears dark in freeview. When I do mris_inflate followed by mris_sphere, mris_sphere says nearly all the triangles have negative area at the end and it never finishes. I verified in MATLAB that the surface normals (computed by mris_convert) of the original white surfaces point outwards. The darkness in freeview is not fixed by changing the order of the indices of the faces (which should invert the normal). I’m at a loss to explain this.

 

Thanks in advance,

 

Chris.

 

Dr Chris Adamson

Senior Research Officer

Developmental Imaging, Clinical Sciences

 

Murdoch Childrens Research Institute

The Royal Children’s Hospital

Flemington Road, Parkville, VIC 3052 Australia

E chris.adamson@mcri.edu.au 

www.mcri.edu.au

 

 

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