I'll leave this for Doug. As for the label file, each annotation would be in a different one, but I don't think it will match since there are unknowns in the annotation and I don't think they go to a label file (do they Doug?) On Thu, 7 Dec 2006, T. Song wrote:

Thanks a lot, Bruce. Another question is: after running mri_annotation2label, some anatomical structure in surface_labels.txt were skipped during the mri_annotation2label. There are 78 catogories in the a2005s.annot file, but mri_annotation2label only create 56 .label files. I think the missing parts are in annotation file, as they can be seen in tksurfer. Does mri_annotation2label do a fine matching, or just roughly? And, does the summation of all the vertex in .label file matchs the total vertex number in annotation file?

Tao

Bruce Fischl wrote:

...

you can save individual labels by selecting the annotation unit you want and saving it, or you can do them all using mri_annotation2label.

The vertices should be identical across the various surfaces as they all have the same topology (except the *.nofix ones)

On Thu, 7 Dec 2006, Tao Song wrote:

...

Hi Bruce:

I have a question regarding the label file. How do I generate individual label files corresponding to differenct anatomical structure specified by .annot file? Currently, I can save them one by one in Tksurfer, after I load annotation, is there a convenient way to do that? Another question is: is the vertex index order in pial, smoothwm, and inflated surface identical? Thanks!

Tao