Thanks a lot Bruce,
I will try it for sure! Best Alain ________________________________ De : freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> de la part de Bruce Fischl <fis...@nmr.mgh.harvard.edu> Envoyé : vendredi 9 septembre 2016 17:28:06 À : Freesurfer support list Objet : Re: [Freesurfer] white and pial surface crossin in the lingual gyrus Hi Alain I'm pretty sure that this is a bug in 5.3 that is fixed in dev and will not be an issue in 6.0. You can test this by downloading and trying out dev if you like. cheers Bruce On Fri, 9 Sep 2016, Alain Imaging wrote: > > Hello everybody, > > > I am gladly starting my freesurfer adventure after the awesome last course > in Copenhagen, but I have quickly realized that troubleshooting on your own > is not as easy as with experts going around in a room. > > > I was looking for errors after having run the recon all and I stumbled upon > this crossing between white and pial surface in the lingual gyrus (see > attached Figure1, green arrow). > > > It seems to me that the problem may arise from the fact that in the WM > volume (see attached Figure2) there are areas that have been categorized as > WM hypointensities, and in particular on the right, the problem could be > that the white matter surface, instead of going around these brighter > voxels, just goes straight down (I hope I have explained myself). Is the > fixing to this problem changing the value of those voxels (part of them, of > course) in the WM volume ? If I look at the WM seg I see that indeed they > are left out from the mask. Or should I do something else ? > > > I am working with freesurfer version Linux-centos6_x86_64-stable-pub-v5.3.0, > with Linux version 3.10.0-327.4.5.el7.x86_64 (Red Hat 4.8.3-9). > > > Thanks in advance for any suggestion > > > Alain > > >
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