Can you try an experiment for me?
cd $SUBJECTS_DIR/subject/surf
cp lh.sphere.reg lh.sphere.reg.auto # make a backup
mris_register -norot -rotate 0 0 +15 -curv rh.sphere
$FREESURFER_HOME/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
rh.sphere.reg
Then run
recon-all -s subject -autorecon3 -nosphere -nospherereg
And see if that fixes the problem
ps. It looks like you are using a development of FS from Jan 11, 2020.
In general, you should only use released versions
On 6/1/2021 5:10 AM, Helena-Céline Stevelt wrote:
External Email - Use Caution
Dear Freesurfer Community,
I wish to manually reassign/edit cortical parcellation performed by FS.
We use the cortical parcellation done by FS and it has worked very
well for most of our subjects. However, we have two subjects where the
parcellation has not been done correctly. It seems that the central
sulcus has been mis-classified to be one sulcus too far posterior in
the brain - this has resulted in incorrect labeling of surrounding
gyri. Curiously, it is only one hemisphere for both subjects (rh for
one and lh for the other), where the other hemisphere is correctly
parcellated.
In our two mis-parcellated subjects, how might we manually reassign or
guide FS to correctly classify the central sulcus and thus correctly
label the surrounding gyri?
I have attached a picture of an erroneous parcellation.
Freesurfer version: freesurfer-linux-centos6_x86_64-dev-20201011-4d2b06a
Platform: Ubuntu 16.04
Best,
Helena-Céline Stevelt
Danish Research Centre for Magnetic Resonance
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