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I get this output. But i need to use the tensor to get the eigenvalues and eigenvectors. <div>So i modified the example to get those values and:</div><div>- i used almost all the code from the example </div><div>- it built with no errors. </div><div>- i get the tensor image from the output of the filter. </div><div>when obtaining the components of the tensor all of them are 0.000000 and when computing the eigenvalues and eigenvectors using the methods from DiffusionTensor3D.ComputeEigenAnalysis i get that all the eigenvalues are 0.0000000 </div><div>- the only thing i get is that the eigenvectors(0,0) is 1.0000000000000 and eigenvectors(0,1) and eigenvectors(0,2) for example are 0.0000000000000</div><div><br></div><div>i checked all the examples you posted me below (thanks, by the way).</div><div><br><div>
<p align="center"><font color="#000000"><img height="2" src="http://graphics.hotmail.com/greypixel.gif" width="100%" vspace="9"></font></p></div><br><br><br><br><hr id="stopSpelling">Date: Mon, 21 Feb 2011 14:06:49 +0530<br>Subject: Re: [Insight-users] DiffusionTensor3DReconstructionFilter<br>From: karthik.krishnan@kitware.com<br>To: albagarin1986@hotmail.com<br>CC: vincent-magnotta@uiowa.edu; insight-users@itk.org<br><br><div class="ecxgmail_quote">On Mon, Feb 21, 2011 at 2:01 PM, alba garin <span dir="ltr"><<a href="mailto:albagarin1986@hotmail.com">albagarin1986@hotmail.com</a>></span> wrote:<br><blockquote class="ecxgmail_quote" style="padding-left:1ex">
<div>
<br><div>Hello,</div><div><br></div><div>I tried to use the code of the example of gtract and it happened the same, it takes correctly the gradients but when applying the filter, DiffusionTensor3DReconstructionImageFilter, it did not create the tensor correctly. I checked that because i read the positions of the tensor and everything i get is 0.00000 and it happened the same after computing the eigenvalues and eigenvectors of the tensor. </div>
<div>I already have taken a look in the software guide, examples of itk, and every single example that appears on the internet. </div></div></blockquote><div><br>Alba: <br><br>To restate, did you look at this specific example, I post below. The class is tested you know at itkDiffusionTensor3DReconstructionImageFilterTest :<br>
<br><br><br>Also take a look at the examples and tests I placed in the repository: <br>
<br> Examples/Filtering/DiffusionTensor3DReconstructionImageFilter.cxx<br><div id="ecx:1xg"><br><br>As the example mentions:<br><br>// The easiest way to get started is to try out the filter on a sample dataset.<br>// <br>
// Acquiring sample datasets:<br>
// 1. Get the DWI datasets from <br> <a href="http://public.kitware.com/pub/itk/Data/DTI/RawData/dwi.nhdr" target="_blank">http://public.kitware.com/pub/itk/Data/DTI/RawData/dwi.nhdr</a><br>
<a href="http://public.kitware.com/pub/itk/Data/DTI/RawData/dwi.img.gz" target="_blank">http://public.kitware.com/pub/itk/Data/DTI/RawData/dwi.img.gz</a><br>
// These datasets contain a reference T1 image and 30 diffusion weighted<br>// images. See the nrrd header for details such as B value etc..<br>//<br>// 2. Run the example with the following args<br>// dwi.nhdr 80 Tensors.mhd FractionalAnisotropy.mhd RelativeAnisotropy.mhd 1<br>
// <br>// 3. You should find 30 gradient images, 1 reference image, the FA and RA images<br>// in your working directory, which you can fire up in your favourite volume<br>// browser.<br></div><br>The reconstructed images shoudl match what's uploaded at :<br>
<a href="http://public.kitware.com/pub/itk/Data/DTI/Reconstructed/" target="_blank">http://public.kitware.com/pub/itk/Data/DTI/Reconstructed/</a><br><br><br>Are you saying that if you run this example on this data, you do not get the output uploaded above ?<br>
<br><br><br></div><blockquote class="ecxgmail_quote" style="padding-left:1ex"><div><div>thanks for your help,</div><div><br><div class="ecxhm">
<p align="center"><font color="#000000"><img src="https://mail.google.com/a/kitware.com/?ui=2&view=js&name=main,tlist&ver=P15uPipZD3o.en.&am=!TucS1utU_i76BfdhIfd2IITAZQsDEhTQifcYRzv0ZdLsE-hQjRSh8ffFIQ&fri" vspace="9" width="100%" height="2"></font></p>
</div></div><div class="ecxhm"><br><br><br><br><hr>From: <a href="mailto:albagarin1986@hotmail.com">albagarin1986@hotmail.com</a><br>To: <a href="mailto:vincent-magnotta@uiowa.edu">vincent-magnotta@uiowa.edu</a>; <a href="mailto:insight-users@itk.org">insight-users@itk.org</a><br>
Date: Thu, 17 Feb 2011 08:16:27 +0000</div><div><div></div><div class="h5"><br>Subject: Re: [Insight-users] DiffusionTensor3DReconstructionFilter<br><br>
<font face="Tahoma" size="2">Thanks, i am taking a look to it at the moment.</font><div><font face="Tahoma" size="2"><br></font><div><font face="Tahoma" size="2"><br></font><div>
<p style="font-family:Tahoma;font-size:10pt" align="center"><font color="#000000"><img src="https://mail.google.com/a/kitware.com/?ui=2&view=js&name=main,tlist&ver=P15uPipZD3o.en.&am=!TucS1utU_i76BfdhIfd2IITAZQsDEhTQifcYRzv0ZdLsE-hQjRSh8ffFIQ&fri" vspace="9" width="100%" height="2"></font></p>
</div><br><br><br><br><div style="font-family:Tahoma;font-size:10pt"></div><hr style="font-family:Tahoma;font-size:10pt"><font face="Tahoma" size="2">From: <a href="mailto:vincent-magnotta@uiowa.edu">vincent-magnotta@uiowa.edu</a></font><br>
<font face="Tahoma" size="2">To: <a href="mailto:albagarin1986@hotmail.com">albagarin1986@hotmail.com</a>; <a href="mailto:insight-users@itk.org">insight-users@itk.org</a></font><br><font face="Tahoma" size="2">Subject: Re: [Insight-users] DiffusionTensor3DReconstructionFilter</font><br>
<font face="Tahoma" size="2">Date: Wed, 16 Feb 2011 18:27:25 +0000</font><br><br>
<div style="font-family:Tahoma;font-size:10pt">
<div>
<div>Here is a link to a program that we write that uses the filter. We use NRRD files as input to this program.</div>
<div><br>
</div>
<div><a href="http://www.nitrc.org/plugins/scmsvn/viewcvs.php/GTRACT/Cmdline/gtractTensor.cxx?root=vmagnotta&view=markup" target="_blank">http://www.nitrc.org/plugins/scmsvn/viewcvs.php/GTRACT/Cmdline/gtractTensor.cxx?root=vmagnotta&view=markup</a></div>
<div><br>
</div>
<div>Vince</div>
<div><br>
</div>
<div>
<div>
<div>-- </div>
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<span style="font-weight:bold">From: </span>alba garin <<a href="mailto:albagarin1986@hotmail.com">albagarin1986@hotmail.com</a>><br>
<span style="font-weight:bold">Date: </span>Wed, 16 Feb 2011 08:15:47 +0000<br>
<span style="font-weight:bold">To: </span><<a href="mailto:insight-users@itk.org">insight-users@itk.org</a>><br>
<span style="font-weight:bold">Subject: </span>[Insight-users] DiffusionTensor3DReconstructionFilter<br>
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<div>Hi everyone,
<div><br>
</div>
<div>im getting mad trying to use the DiffusionTensor3DReconstructionFilter with a nrrd diffusion file. I store properly the gradients and after using the filter I get a image with pixels of DiffusionTensor3D. the problem is that this image has as voxels only
zeros...</div>
<div>anyone can help me, please?</div>
<div><br>
</div>
<div>Thanks,</div>
<div>Alba<br>
<div> </div>
</div>
</div>
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