Re: [vmtk-users] overlaying model and centerlines in vmtk?

Hoppe, Anna L Tue, 13 Dec 2011 11:16:43 -0800

Hi Ian,

When I pipe the command you provided after  my vmtkcenterlines command I get 
the following VMTK output/error:
.
.
.
Computing centerlines.
Done executing vmtkcenterlines.
Writing VTK surface file.
Output vmtkcenterlines members:
    Id = 0
    Centerlines = vtkPolyData
    RadiusArrayName = MaximumInscribedSphereRadius
    EikonalSolutionArrayName = EikonalSolutionArray
    EdgeArrayName = EdgeArray
    EdgePCoordArrayName = EdgePCoordArray
    CostFunctionArrayName = CostFunctionArray
    DelaunayTessellation = vtkUnstructuredGrid
    VoronoiDiagram = vtkPolyData
    PoleIds = vtkIdList


Creating vmtkRenderer instance.
Automatic piping vmtkrenderer
Parsing options vmtkrenderer
Explicit piping vmtkrenderer
Input vmtkrenderer members:
    Id = 0
    Disabled = 0
    WindowSize = [800, 600]
    PointSmoothing = 1
    LineSmoothing = 1
    PolygonSmoothing = 0
    Background = [0.10000000000000001, 0.10000000000000001, 0.20000000000000001]
Executing vmtkrenderer ...
Done executing vmtkrenderer.
Output vmtkrenderer members:
    Id = 0
    vmtkRenderer = vmtkRenderer

Creating vmtkSurfaceViewer instance.
Automatic piping vmtksurfaceviewer
    vmtkRenderer = vmtkrenderer-0.vmtkRenderer
Parsing options vmtksurfaceviewer
    Opacity = 0.25
Explicit piping vmtksurfaceviewer
Input vmtksurfaceviewer members:
    Id = 0
    Disabled = 0
    Surface = None
    SurfaceInputFileName =
    vmtkRenderer = vmtkRenderer
    Display = 1
    Opacity = 0.25
    ArrayName =
    ScalarRange = [0.0, 0.0]
    Legend = 0
    Grayscale = 0
    FlatInterpolation = 0
    DisplayCellData = 0
    Color = [-1.0, -1.0, -1.0]
    LineWidth = 1
    LegendTitle =
    SurfaceOutputFileName =
Executing vmtksurfaceviewer ...
Error: no Surface.

Am I supposed to be including an -ifile vesselnetwork.vtk after the first 
vmtksurfaceviewer command?

Thanks,
Anna

________________________________
From: Ian Campbell [iancampb...@gatech.edu]
Sent: Tuesday, December 13, 2011 11:39 AM
To: vmtk-users@lists.sourceforge.net
Subject: Re: [vmtk-users] overlaying model and centerlines in vmtk?

Hi Anna,

Funny you should ask--I was just doing this yesterday. If you would like to 
view a semi-transparent vessel surface with centerlines inside, add this 
command to your pipe after the vmtkcenterlines command and its arguments:


--pipe vmtkrenderer --pipe vmtksurfaceviewer -opacity 0.25 --pipe 
vmtksurfaceviewer -i @vmtkcenterlines.o -array MaximumInscribedSphereRadius



The vmtkrenderer command creates a persistent viewer instance, and the two 
following vmtksurfaceviewer plotting commands will be overlaid together in the 
window. You can play around with the opacity and array options to your liking. 
There is a very nice tutorial on centerlines on the VMTK website that does a 
much better job of explaining all this than I can: 
http://www.vmtk.org/Tutorials/Centerlines

Alternatively, if you would like to export your centerlines for external 
viewing in a program like Paraview, you can add -ofile filename.vtp to the 
vmtkcenterlines arguments to create a .vtp geometry file of just the 
centerlines. So your command would look something like


vmtksurfacereader -ifile input.vtp --pipe vmtkcenterlines -ofile centerlines.vtp

Then you can load your input.vtp file (or whatever file format your surface 
data might be...if not something Paraview can load, try exporting it to .vtp 
from VMTK using vmtksurfacewriter) and then load your centerlines.vtp files 
together in Paraview, set the surface opacity to some low value like 0.3, and 
you will be able to view your centerlines inside your surface.

I hope this helps,
Ian

On 12/13/2011 12:18 PM, Hoppe, Anna L wrote:
Hi VMTK users,

I am new to VMTK and I was wondering if there was a way in VMTK to view a 
vessel network overlayed on the corresponding centerlines?  Right now I have 
successfully computed the centerlines for my vessel network using the 
vmtkcenterlines command, I have also viewed the computed centerlines using 
vmtkcenterlineviewer, I just wanted to overlay the vessel surface and the 
computed centerlines to check to see if they are correct...

Thanks for your help,
Anna



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Re: [vmtk-users] overlaying model and centerlines in vmtk?

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