Hi Luca,
So far I can only get bpm files, that depends on other guys. But
that's fine, this part works.
I got the centerline successfully using vmtknetworkextraction. But
when I used this centerline as the input of vmtkbranchextractor, I didn't
get good result.
vmtkbranchextractor -ifile xx.vtp -ofile xx.vtp -radiusarray Radius
I can understand vmtknetworkextraction doesn't know the start point,
and it is not very accuracy.
What I want to do is: I have a vessel tree with lot of branches, I
want to get every branch's radius, and their group. Just like
'vmtkcenterlineviewer -ifile xxx.vtp -cellarray TractIds'. If I use
vmtkcenterlines to create centerline, I can get good result.
Any suggestion on this?
Really appreciate your help.
Thanks,
-cq
_____
From: Luca Antiga [mailto:luca.ant...@gmail.com]
Sent: Wednesday, November 17, 2010 4:49 AM
To: ququ chen
Cc: vmtk-users@lists.sourceforge.net
Subject: Re: is it possible to create centerlines without choosing start and
end point?
Hi cq,
ok. I find it "unusual" that you are working with bmp files. Usually they
are 8bit, and you get to lose a lot of information compared to the images on
the scanner. Don't you have the possibility of exporting images from the
scanner directly in DICOM format? Just a suggestion, but I'd consider it.
If you have a very complex tree and you don't need a lot of accuracy in
extracting centerlines, you can use vmtknetworkextraction.
To run it, please make sure that your input surface has at least one
opening. In case it's close, just open it manually, say at the inlet, using
vmtksurfaceclipper.
Hope this helps
Luca
On Nov 16, 2010, at 11:09 PM, ququ chen wrote:
Hi Luca,
Thanks for your reply.
It's my dicom files' issue. Python crashed because an exception was
thrown from vtk class during reading slices.
Now I read bmp files directly instead of converting bmp to dicom.
I have another question about centerlines. I changed the subject to
make this thread more clear.
Now I have a vessel tree with lot of branches and I need the
centerlines of whole tree. is there a way to get the centerlines without
choosing start and end point?
Thanks,
-cq
_____
From: Luca Antiga [mailto:luca.ant...@gmail.com]
Sent: Sunday, November 14, 2010 10:37 AM
To: ququ
Cc: vmtk-users@lists.sourceforge.net
Subject: Re: [vmtk-users] vmtk - getting started
Hi cq,
the fact that python crashes is not normal, and very likely you won't solve
your problem by using the C++ directly.
You may want to first try out the both possible ways of reading DICOM files
in vmtk:
the first is
vmtkimagereader -f dicom -d directory_with_dicom_files_in_it
and the other is
vmtkimagereader -ifile first_dicom_file_in_your_series.dcm
The first uses vtkvmtkDICOMImageReader, while the second uses the ITK I/O
mechanisms (which rely on GDCM, a dicom library).
In any case, using a class from vmtk in C++ is no different than using a VTK
class from C++, since all vmtk classes are derived from VTK.
For the parameters to set, you can directly refer to how they are used in
vmtkimagereader.py.
In order to bulid against vmtk, just include the VMTKUse.cmake file that is
in the bulid directory (or in the install directory) in your CMakeLists.txt
file to successfully compile against vmtk. If you don't know about CMake or
VTK, please refer to the relative manuals and mailing lists.
Let me know if you need further directions
Luca
On Nov 12, 2010, at 5:48 PM, ququ wrote:
Hi Luca,
Could you please provide some c++ test classes for your c++ code? Now
I try to read some dicom images using vmtkimagereader, python crashes every
time. I want to use c++ code to call vtkvmtkDICOMImageReader directly.
Thanks a lot.
Regards,
-cq
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