Run 'vesselness' got error code

s450315

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Jul 10, 2009, 4:02:05 AM7/10/09

to devide-users

Ask for help! I try to use the 3-D Hessian to calculate a the
”vesselness” metric and hence enhance the bronchial structures in the
lungs of the PANORAMIX dataset.

In graph canvas: vtiRDR (lung.vti) -> CodeRunner -> slice3dVWR

The code in CodeRunner: ========================
# CODERUNNER SETUP

import itk
import module_kits

# first derive 3-D Hessian
obj.h = itk.HessianRecursiveGaussianImageFilter[itk.Image.F3].New()
# use Hessian to calculate Vesselness
obj.h2v = itk.Hessian3DToVesselnessMeasureImageFilter[itk.SS].New()
# connect them up
obj.h2v.SetInput(obj.h.GetOutput())

# get feedback on progress
module_kits.itk_kit.utils.setupITKObjectProgress(
obj, obj.h, '3-D Hessian', 'Calculating')

# get feedback on progress
module_kits.itk_kit.utils.setupITKObjectProgress(
obj, obj.h2v, '3-D Hessian to Vesselness', 'Calculating')

# CODERUNNER EXECUTE

# get input
obj.h.SetInput(obj.inputs[0])

# update last filter in chain (of this module)
obj.h2v.Update()

# pass through vesselness on output 1 and hessian itself on output 2
obj.outputs[0] = obj.h2v.GetOutput()
obj.outputs[1] = obj.h.GetOutput()
============================================

Error log as following:

15:52:10: Traceback (most recent call last):
15:52:10: File "C:\build\jwd\build\devide\installer\builddevide
\out9.pyz/interfaces.wx_interface.graph_editor", line 559, in
_execute_modules
15:52:10: File "C:\build\jwd\build\devide\installer\builddevide
\out9.pyz/network_manager", line 46, in execute_network
15:52:10: File "C:\build\jwd\build\devide\installer\builddevide
\out9.pyz/scheduler", line 698, in execute_modules
15:52:10: File "C:\build\jwd\build\devide\installer\builddevide
\out9.pyz/scheduler", line 569, in execute_modules
15:52:10: File "C:\build\jwd\build\devide\installer\builddevide
\out9.pyz/module_manager", line 848, in execute_module
15:52:10: File "C:\build\jwd\build\devide\installer\builddevide
\out9.pyz/meta_module", line 358, in execute_module
15:52:10: File "D:\Program Files\DeVIDE\modules\viewers
\CodeRunner.py", line 150, in execute_module self._run_source
(self._src_execute, raise_exceptions=True)
15:52:10: File "D:\Program Files\DeVIDE\module_kits\wx_kit
\python_shell_mixin.py", line 185, in _run_source more = runsource
(interp, text, '<input>', 'exec')
15:52:10: File "D:\Program Files\DeVIDE\module_kits\wx_kit
\python_shell_mixin.py", line 83, in runsource runcode(self,
code)
15:52:10: File "D:\Program Files\DeVIDE\module_kits\wx_kit
\python_shell_mixin.py", line 46, in runcode exec code in
self.locals
15:52:10: File "<input>", line 4, in <module>
15:52:10: File "D:\Program Files\DeVIDE\module_kits\itk_kit\wrapitk
\lib\itkHessianRecursiveGaussianImageFilter.py", line 2124, in
SetInput def SetInput(*args): return
_itkHessianRecursiveGaussianImageFilter.itkHessianRecursiveGaussianImageFilterIF3_Pointer_SetInput
(*args)
15:52:10: ModuleManagerException: Unable to execute part 0 of module
dvm1 (CodeRunner): No matching function for overloaded
'itkHessianRecursiveGaussianImageFilterIF3_Pointer_SetInput'
15:52:10: Unable to execute part 0 of module dvm1 (CodeRunner): No
matching function for overloaded
'itkHessianRecursiveGaussianImageFilterIF3_Pointer_SetInput'

Charl Botha

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Jul 10, 2009, 4:15:14 AM7/10/09

to devide...@googlegroups.com

2009/7/10 s450315 <s45...@gmail.com>:

> Ask for help! I try to use the 3-D Hessian to calculate a the
> ”vesselness” metric and hence enhance the bronchial structures in the
> lungs of the PANORAMIX dataset.
>
> In graph canvas: vtiRDR (lung.vti) -> CodeRunner -> slice3dVWR

Please put an VTKtoITK module between your vtiRDR and the CodeRunner,
then deselect its "AutoType" and set its output type to float. That
should do the trick. :)

Good luck,
Charl

s450315

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Jul 10, 2009, 5:07:08 AM7/10/09

to devide-users

Thank you. Yes after i put vtktoItk and deselect "autotype" then it
ok. However, i try another data set, aneurysm PANORAMIX dataset, the
program rise error and quite without message. The data set is 6MB is
size. Is it file size or data set size related?

On 7月10日, 下午4時15分, Charl Botha <c.p.bo...@tudelft.nl> wrote:
> 2009/7/10 s450315 <s450...@gmail.com>:

s450315

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Jul 10, 2009, 5:11:01 AM7/10/09

to devide-users

Sorry, not include error log.
=====================

17:08:00: Traceback (most recent call last):
17:08:00: File "C:\build\jwd\build\devide\installer\builddevide

\out9.pyz/interfaces.wx_interface.graph_editor", line 559, in
_execute_modules