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<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>Thanks Jothy, now I can shift the ROI, but I&#8217;m still trying to
figure out the mathematical relationship between the 2 coordinate systems.&nbsp; <o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>I thought that it was just the differences in origin (Top/Left
vs. bottom/left) but that doesn&#8217;t seem to be correct.&nbsp; By just eyeballing it, Z
coordinates seem to differ as well.&nbsp; Maybe reversed?<o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p>&nbsp;</o:p></span></p>

<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; -- Scott<o:p></o:p></span></p>

<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p>&nbsp;</o:p></span></p>

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<p class=MsoNormal><b><span style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'>From:</span></b><span
style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'> Jothy
[mailto:jothybasu@gmail.com] <br>
<b>Sent:</b> Monday, May 24, 2010 4:20 PM<br>
<b>To:</b> Scott Johnson<br>
<b>Cc:</b> VTK<br>
<b>Subject:</b> Re: [vtkusers] Segment Import from itksnap<o:p></o:p></span></p>

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<p class=MsoNormal><o:p>&nbsp;</o:p></p>

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<p class=MsoNormal style='margin-bottom:12.0pt'>Will vtkTransformPolyDataFilter
help? Of course, you should know the vector to shift.<br>
<br>
Jothy<o:p></o:p></p>

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<p class=MsoNormal>On Mon, May 24, 2010 at 10:00 PM, Scott Johnson &lt;<a
href="mailto:Scott.Johnson@neuwave.com">Scott.Johnson@neuwave.com</a>&gt;
wrote:<o:p></o:p></p>

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<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>It seems that my image origin is fine,
but the exported segmentation origin is not.&nbsp; If the image origin was
incorrect I would have expected a different result in Paraview.</span><o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>&nbsp;</span><o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>I&#8217;m just looking for something to shift
the PolyData.&nbsp; The issue is by how much?&nbsp; Right now I&#8217;m looking at
shifting the vtkActor for the PolyData.</span><o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>&nbsp;</span><o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>Thanks</span><o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>&nbsp;</span><o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-- Scott</span><o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span
style='font-size:11.0pt;color:#1F497D'>&nbsp;</span><o:p></o:p></p>

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<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><b><span
style='font-size:10.0pt'>From:</span></b><span style='font-size:10.0pt'> Jothy
[mailto:<a href="mailto:jothybasu@gmail.com" target="_blank">jothybasu@gmail.com</a>]
<br>
<b>Sent:</b> Monday, May 24, 2010 3:56 PM<br>
<b>To:</b> Scott Johnson<br>
<b>Cc:</b> VTK<br>
<b>Subject:</b> Re: [vtkusers] Segment Import from itksnap</span><o:p></o:p></p>

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<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;<o:p></o:p></p>

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<p class=MsoNormal style='mso-margin-top-alt:auto;margin-bottom:12.0pt'>I think
you should set the appropriate ImageOrigin.<br>
<br>
Jothy<o:p></o:p></p>

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<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>On
Mon, May 24, 2010 at 9:52 PM, Scott Johnson &lt;<a
href="mailto:Scott.Johnson@neuwave.com" target="_blank">Scott.Johnson@neuwave.com</a>&gt;
wrote:<o:p></o:p></p>

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<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>Hi
Folks,<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>I
segmented a volume in itksnap, exported it to a VTK Mesh, and attempted to
import it into my VTK application using vtkPolyDataReader.&nbsp; The shape
seems to import correctly, but it is located outside my image volume.&nbsp; (To
the left and down.)<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>I&#8217;ve
tried converting the vtp file to an XML file and imported using vtkXMLPolyDataReader,
with the same result.&nbsp; It&#8217;s also the same if I import to Paraview.<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>Is
this the difference between the ITK and VTK coordinate systems?&nbsp; If so, is
this only a translation issue?&nbsp; What is the mathematical relationship
between the ITK and VTK coordinate systems?<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>Thanks<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-- Scott<o:p></o:p></p>

<p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>&nbsp;<o:p></o:p></p>

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