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List: insight-users
Subject: Re: [Insight-users] [ITK Community] Fwd: Problem with .Tiff and surgace extraction in ITK
From: Matt McCormick <matt.mccormick () kitware ! com>
Date: 2014-02-26 21:32:24
Message-ID: CALzTN-T0LXDSMVExBBfZVyM0PoEA12GTb8Dv1bc7xYZ-Zs-VHw () mail ! gmail ! com
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Hi Jaume,
This example that uses the BinaryMask3DMeshSource [1] may help.
A binary input can be smoothed before surface extraction as shown here [2].
A mesh can be written to a file as shown here [3].
To transfer the image in memory to VTK, use the ImageToVTKImageFilter from
VtkGlue module [4].
Hope this helps,
Matt
[1]
http://itk.org/gitweb?p=ITK.git;a=blob;f=Examples/Filtering/SurfaceExtraction.cxx;h=ffb4ab6095e94f6b4ee67fb1d1a15bb00c0a4a44;hb=HEAD
[2]
http://itk.org/ITKExamples/src/Filtering/AntiAlias/SmoothBinaryImageBeforeSurfaceExtraction/Documentation.html
[3]
http://itk.org/ITKExamples/src/Filtering/FastMarching/ComputeGeodesicDistanceOnMesh/Documentation.html?highlight=meshfilewriter
[4] http://itk.org/Wiki/ITK/Examples/IO/ImageToVTKImageFilter
On Tue, Feb 25, 2014 at 8:59 AM, Jaume Sastre Tomās <
jaumesastretomas@gmail.com> wrote:
> Dear Luis and others developers of ITK,
>
> I have a 3D .tiff file that contains 550 slices and I am trying to extract
> an isosurface using Meshes and ITK.
>
>
> I've tried with BinaryMask3DMeshSource but I'm obtaining Nodes = 0 and
> Cells = 0.
>
>
> How is the best way to do it?
>
>
> Read in ITK and convert to VTK? How?
>
>
> I am not able to save the mesh to a file, how can I do it?
>
>
> Thanks a lot for your help.
>
>
> Regards
>
>
> Jaume
>
>
> PS: I can add the my code in case you need
>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
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> http://www.itk.org/mailman/listinfo/insight-users
>
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>
>
[Attachment #5 (text/html)]
<div dir="ltr">Hi Jaume,<div><br></div><div>This example that uses the \
BinaryMask3DMeshSource [1] may help.</div><div><br></div><div>A binary input can be \
smoothed before surface extraction as shown here [2].</div><div><br> </div><div>A \
mesh can be written to a file as shown here [3].</div><div><br></div><div>To transfer \
the image in memory to VTK, use the ImageToVTKImageFilter from VtkGlue module \
[4].</div><div><br></div><div>Hope this helps,</div> \
<div>Matt</div><div><br></div><div>[1] <a \
href="http://itk.org/gitweb?p=ITK.git;a=blob;f=Examples/Filtering/SurfaceExtraction.cx \
x;h=ffb4ab6095e94f6b4ee67fb1d1a15bb00c0a4a44;hb=HEAD">http://itk.org/gitweb?p=ITK.git; \
a=blob;f=Examples/Filtering/SurfaceExtraction.cxx;h=ffb4ab6095e94f6b4ee67fb1d1a15bb00c0a4a44;hb=HEAD</a></div>
<div><br></div><div>[2] <a \
href="http://itk.org/ITKExamples/src/Filtering/AntiAlias/SmoothBinaryImageBeforeSurfac \
eExtraction/Documentation.html">http://itk.org/ITKExamples/src/Filtering/AntiAlias/SmoothBinaryImageBeforeSurfaceExtraction/Documentation.html</a></div>
<div><br></div><div>[3] <a \
href="http://itk.org/ITKExamples/src/Filtering/FastMarching/ComputeGeodesicDistanceOnM \
esh/Documentation.html?highlight=meshfilewriter">http://itk.org/ITKExamples/src/Filter \
ing/FastMarching/ComputeGeodesicDistanceOnMesh/Documentation.html?highlight=meshfilewriter</a></div>
<div><br></div><div>[4] <a \
href="http://itk.org/Wiki/ITK/Examples/IO/ImageToVTKImageFilter">http://itk.org/Wiki/ITK/Examples/IO/ImageToVTKImageFilter</a></div></div><div \
class="gmail_extra"><br><br><div class="gmail_quote"> On Tue, Feb 25, 2014 at 8:59 \
AM, Jaume Sastre Tomās <span dir="ltr"><<a \
href="mailto:jaumesastretomas@gmail.com" \
target="_blank">jaumesastretomas@gmail.com</a>></span> wrote:<br><blockquote \
class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc \
solid;padding-left:1ex"> <div dir="ltr"><div class="gmail_quote"><div dir="ltr">Dear \
Luis and others developers of ITK,<br><div><br></div><div>I have a 3D .tiff file that \
contains 550 slices and I am trying to extract an isosurface using Meshes and \
ITK.</div>
<div><br></div><div><br></div>
<div>I've tried with BinaryMask3DMeshSource but I'm obtaining Nodes = 0 and \
Cells = 0.</div><div><br></div><div><br></div><div>How is the best way to do it? \
</div><div><br></div><div><br></div><div>Read in ITK and convert to VTK? How?</div>
<div><br></div><div><br></div><div>I am not able to save the mesh to a file, how can \
I do it?</div><div><br></div><div><br></div><div>Thanks a lot for your \
help.</div><div><br></div><div><br></div><div>Regards</div><span><font \
color="#888888"><span class="HOEnZb"><font color="#888888"><div>
<br>
</div><div><br></div><div>Jaume</div></font></span><div><br></div><div><br></div><div>PS: \
I can add the my code in case you need</div></font></span></div> </div><br></div>
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<br>
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Kitware offers ITK Training Courses, for more information visit:<br>
<a href="http://www.kitware.com/products/protraining.php" \
target="_blank">http://www.kitware.com/products/protraining.php</a><br> <br>
Please keep messages on-topic and check the ITK FAQ at:<br>
<a href="http://www.itk.org/Wiki/ITK_FAQ" \
target="_blank">http://www.itk.org/Wiki/ITK_FAQ</a><br> <br>
Follow this link to subscribe/unsubscribe:<br>
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<br>_______________________________________________<br> Community mailing list<br>
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<br></blockquote></div><br></div>
_____________________________________
Powered by www.kitware.com
Visit other Kitware open-source projects at
http://www.kitware.com/opensource/opensource.html
Kitware offers ITK Training Courses, for more information visit:
http://www.kitware.com/products/protraining.php
Please keep messages on-topic and check the ITK FAQ at:
http://www.itk.org/Wiki/ITK_FAQ
Follow this link to subscribe/unsubscribe:
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