<div dir="auto">Hi James, <div dir="auto">The probeam and truebeam .xim format should be the same. </div><div dir="auto"> Sometimes the last projection is empty, which could cause problems like what you see.</div><div dir="auto">Moving, deleting, or just renaming, the last projection should solve that problem. </div><div dir="auto">Let me know if this works for you. </div><div dir="auto"><br></div><div dir="auto">Best regards</div><div dir="auto">Andreas</div><div dir="auto"><br></div><br><br><div class="gmail_quote" dir="auto"><div dir="ltr">On Wed, 8 Aug 2018, 07:31 Korte James, <<a href="mailto:James.Korte@petermac.org">James.Korte@petermac.org</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
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<p class="MsoNormal">Hi,<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">I’m having some issues reconstructing CBCT data from a Varian TrueBeam system.<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">Just wondering if I am doing something really stupid? Does RTK support imaging data off a TrueBeam system?<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">I found a good masters thesis where they modified RTK and pre-processed TrueBeam data, but wanted to get some feedback before investing time into a custom solution (<a href="https://open.library.ubc.ca/cIRcle/collections/ubctheses/24/items/1.0167188" target="_blank" rel="noreferrer">https://open.library.ubc.ca/cIRcle/collections/ubctheses/24/items/1.0167188</a>)<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">I’ve just been using the RTK command line interface. First creating a geometry file using “rtkvarianprobeamgeometry.exe” as the Scan.xml file from our TrueBeam data has a very similar structure to the Scan.xml from the RTK probeam example:<u></u><u></u></p>
<p class="MsoNormal">rtkvarianprobeamgeometry.exe -v -x Scan.xml -o geometry.xml -p Acquisitions\763250797\ -r Proj.*.xim<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">I then try to reconstruct using the FDK algorithm using the following command:<u></u><u></u></p>
<p class="MsoNormal">rtkfdk.exe -v -g geometry.xml -o slices.mha -p Acquisitions\763250797\ -r Proj.*.xim<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">And I get the following error:<u></u><u></u></p>
<p class="MsoNormal">Regular expression matches 893 file(s)...<u></u><u></u></p>
<p class="MsoNormal">Reading...<u></u><u></u></p>
<p class="MsoNormal">ExceptionObject caught with reader->Update() in file c:\path-to-rtk-src\rtk<u></u><u></u></p>
<p class="MsoNormal">\applications\rtkfdk\rtkfdk.cxx line 63<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">itk::InvalidRequestedRegionError (00000000002FDFF8)<u></u><u></u></p>
<p class="MsoNormal">Location: "void __cdecl itk::ImageFileReader<class itk::Image<unsigned int,3>,cl<u></u><u></u></p>
<p class="MsoNormal">ass itk::DefaultConvertPixelTraits<unsigned int> >::EnlargeOutputRequestedRegion<u></u><u></u></p>
<p class="MsoNormal">(class itk::DataObject *)"<u></u><u></u></p>
<p class="MsoNormal">File: c:\path-to-itk-src\src\modules\io\imagebase\include\itkimagefilereader.hxx<u></u><u></u></p>
<p class="MsoNormal">Line: 350<u></u><u></u></p>
<p class="MsoNormal">Description: ImageIO returns IO region that does not fully contain the requested<u></u><u></u></p>
<p class="MsoNormal">regionRequested region: ImageRegion (00000000002FDC48)<u></u><u></u></p>
<p class="MsoNormal"> Dimension: 3<u></u><u></u></p>
<p class="MsoNormal"> Index: [0, 0, 0]<u></u><u></u></p>
<p class="MsoNormal"> Size: [1024, 768, 1]<u></u><u></u></p>
<p class="MsoNormal">StreamableRegion region: ImageRegion (00000000002FDBF8)<u></u><u></u></p>
<p class="MsoNormal"> Dimension: 3<u></u><u></u></p>
<p class="MsoNormal"> Index: [0, 0, 0]<u></u><u></u></p>
<p class="MsoNormal"> Size: [0, 0, 1]<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
<p class="MsoNormal">Cheers!<u></u><u></u></p>
<p class="MsoNormal">James Korte<u></u><u></u></p>
<p class="MsoNormal"><u></u> <u></u></p>
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