Hi All,
I'm experiencing a weird problem when using vmtk - development version. I
started using it last week and I've never had the same problem before (while
using the binary package 0.9 for mac), but I am not sure where the problem
comes from.
Basically vmtk scripts work fine generally, but sometimes when I run a command,
nothing happens - no errors, no usual output. It just seems that the command
has been disregarded. And if I run the exact same command again immediately
after, it generally works fine. I paste here below an example, where the 2
commands have been run few seconds apart without changing anything else in
between.
Has any of you had a similar program or an idea on how to solve it? It happens
also if I run a script containing several chained commands and when one fails,
the whole script does...
FYI, I'm using vmtk on Mac OS X 10.6.8.
Thanks!
Lucia
ibb-yogi-lucia-mac2:time0 lucia$ vmtklevelsetsegmentation -ifile
image_volume.vti -ofile levelsets_21j.vti
ibb-yogi-lucia-mac2:time0 lucia$ vmtklevelsetsegmentation -ifile
image_volume.vti -ofile levelsets_21j.vti
Creating vmtkLevelSetSegmentation instance.
Automatic piping vmtklevelsetsegmentation
Parsing options vmtklevelsetsegmentation
ImageInputFileName = image_volume.vti
LevelSetsOutputFileName = levelsets_21j.vti
Explicit piping vmtklevelsetsegmentation
Input vmtklevelsetsegmentation members:
Id = 0
Disabled = 0
Image = None
ImageInputFileName = image_volume.vti
FeatureImage = None
FeatureImageInputFileName =
InitializationImage = None
InitializationImageInputFileName =
InitialLevelSets = None
InitialLevelSetsInputFileName =
LevelSets = None
LevelSetsInputFileName =
LevelSetsType = geodesic
FeatureImageType = gradient
NegateForInitialization = 0
SigmoidRemapping = 0
IsoSurfaceValue = 0.0
DerivativeSigma = 0.0
FeatureDerivativeSigma = 0.0
UpwindFactor = 1.0
FWHMRadius = [1.0, 1.0, 1.0]
FWHMBackgroundValue = 0.0
NumberOfIterations = 0
PropagationScaling = 0.0
CurvatureScaling = 0.0
AdvectionScaling = 1.0
EdgeWeight = 0.0
SmoothingIterations = 5
SmoothingTimeStep = 0.1
SmoothingConductance = 0.8
vmtkRenderer = None
LevelSetsOutputFileName = levelsets_21j.vti
FeatureImageOutputFileName =
Reading VTK XML image file.
Spacing 1.770833 1.770833 2.299997
Origin 0.000000 0.000000 0.000000
Dimensions 144 192 32
Executing vmtklevelsetsegmentation ...
Please choose initialization type:
0: colliding fronts;
1: fast marching;
2: threshold;
3: isosurface;
4: seed
Colliding fronts initialization.
Please input lower threshold ('n' for none): Please input upper threshold ('n'
for none): Please place two seeds (click on the image while pressing Ctrl).
Quit renderer
Displaying.
Accept initialization? (y/n): Displaying.
Initialize another branch? (y/n): Please input parameters (type return to
accept current values, 'e' to end, 'q' to quit):
Progress: 100%Progress: 100%gationScaling(0.0) CurvatureScaling(0.0)
AdvectionScaling(1.0)]:
Displaying.
Accept result? (y/n): Please input parameters (type return to accept current
values, 'e' to end, 'q' to quit):
NumberOfIterations(300) [PropagationScaling(0.0) CurvatureScaling(0.0)
AdvectionScaling(1.0)]:
Displaying.
Accept result? (y/n): Merge branch? (y/n): Displaying.
Segment another branch? (y/n): Done executing vmtklevelsetsegmentation.
Writing VTK XML image file.
Output vmtklevelsetsegmentation members:
Id = 0
LevelSets = vtkImageData
FeatureImage = vtkImageData
__________________________________________________
Postdoctoral Fellow, Cardiovascular Fluid Mechanics Laboratory
Wallace H. Coulter Department of Biomedical Engineering
Georgia Institute of Technology
315 Ferst Drive NW, Parker H. Petit Biotechnology Building
Atlanta, GA 30332-0363
E-mail: [email protected]
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