VMTK <--> MATLAB

[Haim Ezer]

Dear Luca, everybody,

I am trying to transfer data, back and forth from VMTK to MATLAB and back.

I am currently doing it using the .dat file format.

The problem is that when I read  back the data, in VMTK, I am unable to show the centerline.

My pipe is:

vmtkcenterlinegeometry -ifile "C:/.../centerlines.vtp" -smoothing 1 -outputsmoothed 1 --pipe vmtksurfacewriter -i @vmtkcenterlinegeometry.o -ofile "C:/.../centerlines_geometry.dat" -celldata 1 -mode ascii  

And when I try to read this:

vmtksurfacereader -ifile "C:/Users/Hezer/Dropbox/The_origin/DATA/Aneurisk DATA/Models/C0001_models/C0001/morphology/centerlines_geometry.dat" --pipe vmtksurfaceviewer -array Curvature -scalarrange 0 .7

it gets stuck with reading Tecplot surface file.

I am unable to read and write vtp files in matlab.

I tried to transfer the data from python to MATLAB, using wormhole:

https://code.google.com/p/python-matlab-wormholes/

but it seems that the python data is merely a memory reference, and not a python variable.

any help will be appreciated.

Thanks

Haim

[Luca Antiga]

Hello Haim,

 indeed dat is just for exporting points and related data in tabular format, but roundtripping is not really doable unless you merge the information written by Matlab with an existing file directly in VTK. I think this could be the best way to go.

If you show me the kind of information that matlab writes in the dat file I can send you a snippet for merging it back on centerlines.

Best,

Luca

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[Elena Faggiano]

Hello Haim,

you can try to read/write (or only write if the import in matlab of your .dat do the trick) the .vtk ascii file format. It is not so difficult to read .vtk in Matlab and to write it again, you just have to learn how vtk format works (you can also find some Matlab submissions with codes to do that). 

Best,

Elena

[Haim Ezer]

Hello, Luca, Elena,

Thank you for your reply.

I am attaching the DAT file.

All MATLAB does, is cut some parts of the centerlines, and I would like to present them, in VMTK.

I kind of figured out, by myself, what Elena wrote (It took me a few weeks) and currently working on the MATLAB code for this.

Kind regards

Haim