Hi again, Douglas and freesurfer experts.

Unfortunately my problem cannot be explained by having made manual edits and then not finishing recon-all. When I load subjects that I did not manually edit, I am either unable to load an annotation file (specifically r/lh.aparc.a2009s.annot) at all, or I can load it but have problems with the output. When I am able to load an image I get a the same tye-died appearing surface for one hemisphere (and it is projected onto the opposite hemisphere that the label is for) or I get a proper surface when I load the label for the other hemisphere (and it appears on the correct hemisphere).

Can you help at all with this?

Thank you,

Laura

On Tue, Dec 10, 2013 at 11:45 AM, Laura Taylor <taylor.cnos.lab@gmail.com> wrote:

Hi, yes thank you both. That is exactly what the problem was.

Laura

On Tue, Dec 10, 2013 at 11:12 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

Yep, looks like your annot is out of sync with the surfaces

On 12/10/2013 01:51 PM, Chris Watson wrote:
> I've seen this happen after making manual edits and then not finishing
> a re-run of recon-all.
> Chris
>
> On 12/10/2013 02:00 PM, Laura Taylor wrote:
>> Hi,
>>
>> I'm trying to load lh.aparc.a2009s.annot onto the lh pial surface of
>> a subject. When I use the freeview gui and select
>> lh.aparc.a2009s.annot under the annotations menu a strange
>> multicolored surface is loaded. It looks like something that has
>> been tie-dyed and not like the examples of parcellation that are
>> shown on some of the freesurfer pages.
>>
>> I have attached a screenshot of the output that I get.
>>
>> Any help would be appreciated.
>>
>> Thank you,
>>
>> Laura
>>
>>
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Douglas N. Greve, Ph.D.
MGH-NMR Center
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