T1 bias correction error

Questions about BrainVisa usage and installation

Moderators: denghien, riviere

Post Reply
tizianod
Posts: 21
Joined: Fri Apr 06, 2012 9:52 am

T1 bias correction error

Post by tizianod »

Hello,

The Morphologist pipeline stops with the following error:

Code: Select all

Process Morphologist 2012 started on 2012/09/05 12:29
Skip unselected node: Check SPAM models installation
OK, the image seems to be in the correct orientation.
------------------------------ ! VIP Warning: empty volume in VipComputeRobustStatInMaskVolume ------------------------------ 
------------------------------ ! VIP Warning: Empty volume in VipGet3DConnex ------------------------------ ------------------------------ ! VIP Warning: Empty bucket list in VipGetNthBiggest3DBucket_S16BIT ------------------------------ ------------------------------ ! VIP Warning: Nothing is left in VipConnexVolumeFilter ------------------------------ 
------------------------------ ! VIP Warning: empty volume in VipComputeRobustStatInMaskVolume ------------------------------ 
------------------------------ ! VIP Warning: Empty volume in VipGet3DConnex ------------------------------ ------------------------------ ! VIP Warning: Empty bucket list in VipGetNthBiggest3DBucket_S16BIT ------------------------------ ------------------------------ ! VIP Warning: Nothing is left in VipConnexVolumeFilter ------------------------------ 
------------------------------ ! VIP Warning: Empty volume in VipGet3DConnex ------------------------------ ------------------------------ ! VIP Warning: Empty bucket list in VipGetNthBiggest3DBucket_S16BIT ------------------------------ ------------------------------ ! VIP Warning: Nothing is left in VipConnexVolumeFilter ------------------------------ 
------------------------------ ! VIP Warning: Empty volume in VipGet3DConnex ------------------------------ ------------------------------ ! VIP Warning: Empty bucket list in VipGetNthBiggest3DBucket_S16BIT ------------------------------ 
------------------------------ ! VIP Warning: Empty histogram! ------------------------------ ------------------------------ !! VIP Error: Execution aborted in function 'VipGetHistoEntropy'. ------------------------------ 
------------------------------ !! VIP Error: Empty image ------------------------------ ------------------------------ !! VIP Error: Execution aborted in function 'VipComputeBiasFieldMultiGrid'. ------------------------------ 



in 1 - T1 Bias Correction 3 System command exited with non null value : 111 


RuntimeError
neuroProcesses.py (2400) in _processExecution: 
result = process.execution( self )
T1BiasCorrection.py (127) in execution: 
?
neuroProcessesGUI.py (2380) in system: 
?
neuroProcesses.py (2522) in system: 
raise RuntimeError( _t_( 'System command exited with non null value : %s' ) % str( ret ) )




in Morphologist 2012 3 System command exited with non null value : 111 


RuntimeError
neuroProcesses.py (2400) in _processExecution: 
result = process.execution( self )
neuroProcesses.py (1064) in execution: 
return self._executionNode.run( context )
neuroProcesses.py (1723) in run: 
return self._run( context )
neuroProcesses.py (1952) in _run: 
result.append( node.run( context ) )
neuroProcesses.py (1723) in run: 
return self._run( context )
neuroProcesses.py (1868) in _run: 
return context.runProcess( self._process )
neuroProcesses.py (2173) in runProcess: 
result = self._processExecution( _process, None )
neuroProcesses.py (2400) in _processExecution: 
result = process.execution( self )
T1BiasCorrection.py (127) in execution: 
?
neuroProcessesGUI.py (2380) in system: 
?
neuroProcesses.py (2522) in system: 
raise RuntimeError( _t_( 'System command exited with non null value : %s' ) % str( ret ) )

The image looks fine and has a very good resolution, any hint?
I can eventually send you the image if you like..

Thanks
Tiziano
User avatar
Jean-Francois Mangin
Posts: 337
Joined: Mon Mar 01, 2004 10:24 am
Location: Neurospin, CEA, France
Contact:

Re: T1 bias correction error

Post by Jean-Francois Mangin »

Could we get it?
tizianod
Posts: 21
Joined: Fri Apr 06, 2012 9:52 am

Re: T1 bias correction error

Post by tizianod »

I think it was because the image was already reformatted to another space (CA-CP). Would this create a problem? what is the best way to send you an image safely?

Thanks
Tiziano
Post Reply