Dear freesurfer users,
I run the command 'recon-all -lgi' for my participants
and for two of them I get the following error message:
... remeasuring lGI value for vertex iV =
39301. It may take a few minutes.
WARNING -- Problem for vertex iV = 39301, lGI
value is aberrantly high (lGI=44.2971)...
...lGI computation will be stopped. This
may be caused by topological defects, check
mris_euler_number on the pial surface.
ERROR: compute_lgi did not create output file
'/data_august/Geo/freesurfer_OCD/subjects_converted/KuTo67/surf/tmp-mris_compute_lgi-lh.pial/lh.pial_lgi.asc'!
On the freesurfer weppage
(http://freesurfer.net/fswiki/LGI), it is supposed to be a known
issue and they suggest to relaunch mris_compute_lgi ,
quote:
In case of
topological defects of the pial surface (run
mris_euler_number), mris_compute_lgi crashes. Usually, simply
relaunching mris_compute_lgi is sufficient to overcome this
issue.
I already tried that several times and i still get the same
error . The script always crashes at the same
vertex. However when I check the mris_euler_number for the
subject's
rh.pial it interestingly does not show me any topological defect.
Has anybody encounter the same problem? or what should be a possible
solution?
Thanks a lot in advance for your answer.
Best
Georgiana
--
Oana Georgiana Rus
PhD Student
Neuroimaging Center TUM-NIC
Klinikum rechts der Isar
Technische Universität München
Einsteinstr.1
81675 München
Raum 5.8
Tel. 089 4140 7971