Hi Ian
It worked perfectly! Thanks for all your help!
Anna
________________________________
From: Ian Campbell [iancampb...@gatech.edu]
Sent: Tuesday, December 13, 2011 2:50 PM
To: vmtk-users@lists.sourceforge.net
Subject: Re: [vmtk-users] overlaying model and centerlines in vmtk?
Hi Anna,
Sorry, I should have been more specific, that command won't work if you start
your pipe with vmtkcenterlines--you will get the error you had below. You need
to start with vmtksurfacereader and pipe that in to vmtkcenterlines. Try this
instead:
vmtksurfacereader -ifile YourFileName.vtp --pipe vmtkcenterlines --pipe
vmtkrenderer --pipe vmtksurfaceviewer -opacity 0.25 --pipe vmtksurfaceviewer -i
@vmtkcenterlines.o -array MaximumInscribedSphereRadius
That should work. Note that when it executes the first vmtksurfaceviewer, you
will just see your semi-opaque surface with no centerlines, and then you have
to press the 'E' key to go to the next command and add in the centerlines.
Press 'E' a second time when you are done to exit.
I hope this works. If it doesn't, can you paste in your full pipe command?
Ian
On 12/13/2011 2:16 PM, Hoppe, Anna L wrote:
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<mailto:iancampb...@gatech.edu>]
Sent: Tuesday, December 13, 2011 11:39 AM
To: vmtk-users@lists.sourceforge.net<mailto: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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