BrainVISA

Dear BrainVisa users, I somehow solved my problem, although I still don't know what's causing it. I re-ran everything using FS 5.3, separately from BV. I then imported the FS results to BV, and commented the line 323 from Import_FROM_FreeSurfer_TO_Morpho.py: # enode.Renorm.setSelected( False ) This ...

Dear all, I still can't solve the issue. I decided to start from scratch running the FS pipeline in Brainvisa. I created a new database and selected the raw T1 from there. I removed FS 6.0 and installed FS 5.3, and changed the bashrc file accordingly. As a test, I ran the freeview with a sample imag...

That was then another rookie mistake. Now it is identified and all the functions are activated. Thank you for your help!

Best regards,

Laura

Dear Denis, Thank you for taking the time to look into this. To answer your questions, I usually run BrainVISA as sudo. After saving the last script you provided, I obtain the following message in the terminal when running BrainVISA: launchFreesurferCommand freesurfer_home_path: None FreeSurferEnv.s...

Dear Denis, Thank you for your quick reply. However I'm still not able to solve this issue. To answer your questions: - There is a FreeSurferEnv.csh and FreeSurferEnv.sh file in the freesurfer directory. I defined the Freesurfer home path in the .bashrc and the respective message shows up every time...

Dear BrainVisa users, I would like to use the MarsAtlas to parcellate an individual MRI. I ran the command recon-all in Freesurfer and I've encountered problems with the Freesurfer/Brainvisa interface and I hope that you can help me with it. Some functions in the Freesurfer toolbox within BrainVisa ...