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Hi Joel,<br>
<br>
Good to hear it's working now.<br>
The error you get is explained on the wiki in the small paragraph
after the cuda command line :<br>
<br>
Note that the reconstructed volume in this example does not fully
contain the attenuating object, causing hyper-attenuation artifacts
on the borders of the result. To avoid these artifacts, reconstruct
a larger volume (--dimension 256) should be fine. <b>Note that you
will have to resize your motion mask as well, as 3D the motion
mask is expected to have the same size, spacing and origin as the
first 3 dimensions of the 4D output.
</b><br>
<br>
I guess I should take some time to fix that, and allow any motion
mask, but until I do, you can resize your motion mask using the
CLITK tools (<a class="moz-txt-link-freetext" href="http://www.creatis.insa-lyon.fr/rio/vv">http://www.creatis.insa-lyon.fr/rio/vv</a>) or any method
that suits you.<br>
<br>
Cyril<br>
<br>
<br>
<div class="moz-cite-prefix">On 09/29/2015 09:36 PM, Joel Beaudry
wrote:<br>
</div>
<blockquote
cite="mid:CAMyfbWr32bNqjG68MeG6EEDtXN3hYK0ws8oF8mycq-_+DORd4A@mail.gmail.com"
type="cite">
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<div>Hi Cyril, <br>
<br>
</div>
Works like a charm, thanks! I tried it on some
other datasets and it seems to be working. I need
to increase the resolution and play around with
the parameters now.<br>
<br>
</div>
I haven't had time to test it too much, but I do get
an error when attempting to reconstruct with
different dimensions. I'm using Cuda, and haven't
tried it with just cpu reconstruction yet.<br>
<br>
</div>
i.e.) <br>
</div>
--dimension 160 --spacing 2 -> works<br>
</div>
--dimension 512,64,512 --spacing 0.88,2.5,0.88 -->
throws "In AverageOutOfROIImageFilter: information of ROI
image does not match input image"<br>
<br>
</div>
I'll be able to test some other things later and list more
details.<br>
<br>
</div>
Thanks, <br>
</div>
Joel<br>
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<div class="gmail_extra"><br>
<div class="gmail_quote">On Mon, Sep 28, 2015 at 4:48 AM, Cyril
Mory <span dir="ltr"><<a moz-do-not-send="true"
href="mailto:cyril.mory@uclouvain.be" target="_blank">cyril.mory@uclouvain.be</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000"> Hi Joel,<br>
<br>
I have fixed the wiki example (command line parameters AND
data). Can you restart it from scratch and let me know if
you still have problems ? <br>
<br>
Roughly, the problems were the following: <br>
- the "mm_50.mha" motion mask file was not aligned with
the CBCT coordinates<br>
- the regularization parameters (gamma space and gamma
time) were way too high. The regularization with a high
gamma-time caused frames to be identical, while it should
only discourage variations<br>
<br>
I hope it works, now. If it doesn't work for you, please
keep asking<span class="HOEnZb"><font color="#888888"><br>
Cyril</font></span>
<div>
<div class="h5"><br>
<br>
<div>On 09/28/2015 09:52 AM, Cyril Mory wrote:<br>
</div>
<blockquote type="cite"> Hi Joel,<br>
<br>
I have just tried to reproduce the wiki example, and
indeed, there are several mistakes in it. I am
working on correcting them. I'll keep you posted.<br>
<br>
Cyril<br>
<br>
<br>
<div>On 09/26/2015 05:32 AM, Joel Beaudry wrote:<br>
</div>
<blockquote type="cite">
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<div>Hi RTK-users, <br>
<br>
</div>
I'm unable to reproduce the images from the
4DROOSTERReconstruction example. The 5
frames should show some differences
pertaining to patient motion but the ones
that I'm producing are identical, so no
motion is visible. <br>
<br>
Has anyone been able to follow the example
and the provided dataset to create a 4D
image?<br>
<br>
</div>
Thanks, <br>
</div>
Joel<br>
</div>
<br>
<fieldset></fieldset>
<br>
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