reconstrucion main steps

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Nomad
Posts: 17
Joined: Tue Apr 01, 2008 3:56 am

reconstrucion main steps

Post by Nomad »

hi, everyone,
I wanna 3D reconstruct cortex with dicom files, but i dont know how to do it using BrainVISA. I would like someone kind to help me explain the main steps to reconstruct.I wonder someone would have a video about reconstruction.
Thank you & Best Wishes.
Nomad
Nomad
Posts: 17
Joined: Tue Apr 01, 2008 3:56 am

Re: reconstrucion main steps

Post by Nomad »

I have more to say.
I have done 3 steps including "import T1 MRI" "Prepare subject for anatomical pipeline" and "Ana do a lot of things from T1 MRI".However,something wrong occures during the third step as follows:

Code: Select all

! VIP Warning: 
Impossible to distinguish gray and white matter: insufficient grey white contrast, you have to increase field regularization in VipBiasCorrection) 
------------------------------ 

------------------------------ 
! VIP Warning: 
Something was wrong with the iterative erosion! 
------------------------------ 


in Vip Split Brain 1 RuntimeError: System command exited with non null value : 111

neuroProcesses.py (1641) in _processExecution: result = process.execution( self )
VipSplitBrain.py (107) in execution: 
apply( context.system, call_list+option_list )
neuroProcessesGUI.py (932) in system: 
ret = apply( ExecutionContextGUI.system, (self,) + args, kwargs )
neuroProcesses.py (1721) in system: 
raise RuntimeError( _t_( 'System command exited with non null value : %s' ) % str( ret ) )
How to solve the problem and what should i do next?
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Jean-Francois Mangin
Posts: 337
Joined: Mon Mar 01, 2004 10:24 am
Location: Neurospin, CEA, France
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Re: reconstrucion main steps

Post by Jean-Francois Mangin »

Check first the importation works, clisk on the eye in fron of your raw MRI to visualize it
with Anatomist.
Nomad
Posts: 17
Joined: Tue Apr 01, 2008 3:56 am

Re: reconstrucion main steps

Post by Nomad »

Jean-Francois Mangin wrote:Check first the importation works, clisk on the eye in fron of your raw MRI to visualize it
with Anatomist.
I think i have imported the data
2.jpg
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Jean-Francois Mangin
Posts: 337
Joined: Mon Mar 01, 2004 10:24 am
Location: Neurospin, CEA, France
Contact:

Re: reconstrucion main steps

Post by Jean-Francois Mangin »

SO did you check the bias correction step (click on the eye in front of nobias).
By the way, I was a bit surprise by your snapshot, does your image name includes
a space?

If you do not understand anything, put your data somewhere on the web and send me
an e-mail, I will try to have a look when and I will be back in France.
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