[Freesurfer] Freeview Surface Loading View Center

2020-01-19 Thread Mingjian He
Hi, When using Freeview to load a surface file without volume, how does Freeview set the initial view center and cursor position? I’ve checked mid point of xyz ranges, centroid of vertices, and median. None of these gives me the initial SurfaceRAS values when opening the surface with Fr

Re: [Freesurfer] aparcstats2table error

2020-01-19 Thread Hoopes, Andrew
Hi Devika, the python scripts (like aparcstats2table) in 6.0 unfortunately must be run with python2. Your error implies that the python in your PATH points to python3. You should make sure python points to a python2 version before running freesurfer. Sorry for the inconvenience. Andrew From:

Re: [Freesurfer] Freesurfer Digest, Vol 191, Issue 29

2020-01-19 Thread Bruce Fischl
iffb2orig.dat --dti --init-fsl --o /home/samm/registered_b0.nii.gz Thanks! Sam -- next part -- An HTML attachment was scrubbed... URL:http://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/attach

Re: [Freesurfer] Freesurfer Digest, Vol 191, Issue 29

2020-01-19 Thread Devika K
mages in my dataset? > > After eddy correction I extracted the first b0 image (nodif.nii.gz) and run > the bbregister command: > bbregister --s sub001 --mov /home/samm/nodif.nii.gz --reg > /home/samm/nodiffb2orig.dat --dti --init-fsl --o > /home/samm/registered_b0.nii.gz > > T

Re: [Freesurfer] aparcstats2table error

2020-01-19 Thread Bruce Fischl
Hi Devika In the future can you include the text of the command and the output in your email instead of a screenshot? That will make our job easier. Try specifying which subjects you want processed explicitly with --subjects cheers Bruce On Sun, 19 Jan 2020, Devika K wrote: Ex

Re: [Freesurfer] Project hippocampus to inflated 3D model?

2020-01-19 Thread Bruce Fischl
Hi Mohammad you can use mri_tessellate or mri_mc to build a mesh model of the hippocampus from the aseg if you want, then use mris_inflate on it. You will lose internal structure though. cheers Bruce On Sun, 19 Jan 2020, Mohammad Rashid wrote: External Email - Use Caution