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</o:shapelayout></xml><![endif]--></head><body lang=EN-US link=blue vlink=purple><div class=WordSection1><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>Hi Simon, <o:p></o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>Thank your for the prompt update.<o:p></o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>Now it works perfectly!<o:p></o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>Best,<o:p></o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>YangKyun<o:p></o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'><o:p> </o:p></span></p><p class=MsoNormal><b><span style='font-size:11.0pt;font-family:"Calibri","sans-serif"'>From:</span></b><span style='font-size:11.0pt;font-family:"Calibri","sans-serif"'> simon.rit@gmail.com [mailto:simon.rit@gmail.com] <b>On Behalf Of </b>Simon Rit<br><b>Sent:</b> Tuesday, September 09, 2014 8:41 AM<br><b>To:</b> Rune Slot Thing<br><b>Cc:</b> Yang Kyun Park; rtk-users@public.kitware.com<br><b>Subject:</b> Re: [Rtk-users] Short scan reconstruction problem - real projection images from Elekta XVI<o:p></o:p></span></p><p class=MsoNormal><o:p> </o:p></p><div><p class=MsoNormal>Thank you Rune, this was very helpful. The pattern is that several projections have the same gantry angle on one side of the gantry angle gap. Something that happens with Elekta Synergy... I think that the bug has been fixed:<br><a href="https://github.com/SimonRit/RTK/commit/c5b1647eee34ca6fb76d067ff2f5c67f7477495f">https://github.com/SimonRit/RTK/commit/c5b1647eee34ca6fb76d067ff2f5c67f7477495f</a><o:p></o:p></p></div><div><p class=MsoNormal><o:p> </o:p></p><div><p class=MsoNormal>On Tue, Sep 9, 2014 at 12:04 PM, Rune Slot Thing <<a href="mailto:Rune.Slot.Thing@rsyd.dk" target="_blank">Rune.Slot.Thing@rsyd.dk</a>> wrote:<o:p></o:p></p><blockquote style='border:none;border-left:solid #CCCCCC 1.0pt;padding:0in 0in 0in 6.0pt;margin-left:4.8pt;margin-right:0in'><div><div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>Hi all,</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'> </span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>We have experienced the same problem as YangKyun in our institution. Find attached a screendump of a short scan, and the ElektaGeometry file. We are reconstructing on CPU using RTK 1.0.0, and have encountered the strange behavior a couple of times without being able to find any patterns. Our images are 512x512 pixels of 0.8 mm pitch, and acquired in a 200 degree scan with the S20 filter on an Elekta XVI machine.</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'> </span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>Hope this helps in tracking down the problem.</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'> </span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'> </span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'>Best regards,</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D'> </span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:10.0pt;font-family:"Arial","sans-serif";color:#1F497D'>Rune Slot Thing</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:10.0pt;font-family:"Arial","sans-serif";color:#1F497D'>PhD Student</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:10.0pt;font-family:"Arial","sans-serif";color:#1F497D'>Institute of Clinical Research, University of Southern Denmark</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span style='font-size:10.0pt;font-family:"Arial","sans-serif";color:#1F497D'>Laboratory of Radiation Physics, Odense University Hospital</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA style='font-size:10.0pt;font-family:"Arial","sans-serif";color:#1F497D'><a href="mailto:rune.slot.thing@rsyd.dk" target="_blank">rune.slot.thing@rsyd.dk</a></span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA style='color:#1F497D'> </span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA style='color:#1F497D'> </span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><b><span lang=DA style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'>Fra:</span></b><span lang=DA style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'> Rtk-users [mailto:<a href="mailto:rtk-users-bounces@public.kitware.com" target="_blank">rtk-users-bounces@public.kitware.com</a>] <b>På vegne af </b>Simon Rit<br><b>Sendt:</b> 9. september 2014 07:24<br><b>Til:</b> Yang Kyun Park<br><b>Cc:</b> <a href="mailto:rtk-users@public.kitware.com" target="_blank">rtk-users@public.kitware.com</a><br><b>Emne:</b> Re: [Rtk-users] Short scan reconstruction problem - real projection images from Elekta XVI</span><span lang=DA><o:p></o:p></span></p><div><div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA> <o:p></o:p></span></p><div><div><div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA>Hi,<o:p></o:p></span></p></div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA>Everything looks correct in what you did. What version of RTK did you use?<br>It looks like a bug in the angular weighting of the projections coming from the discretization of the integral on the gantry angle. Could you send us a copy of ElektaGeometry.xml and tell us what was the dimension of the projections? We will look into it.<br>Thanks for the report,<br>Simon<o:p></o:p></span></p></div></div><div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA> <o:p></o:p></span></p><div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA>On Tue, Sep 9, 2014 at 5:22 AM, Yang Kyun Park <<a href="mailto:theday79@gmail.com" target="_blank">theday79@gmail.com</a>> wrote:<o:p></o:p></span></p><div><div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>Hi all,<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>I’ve been using RTK for a year and I appreciate for all the efforts being made by the developers.<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>Even though I haven’t had any problem with full scan images (360 degree scan), I found that rtkfdk doesn’t work well with my short scan images obtained from our Elekta XVI system.<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>I’ve used a command line such as:<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>--geometry ElektaGeometry.xml --path his_file_dir --regexp ".*.his" --output rtkfdk_short_scan.mha --spacing 0.5,0.5,0.5 --dimension 512,200,512 --origin -127.9,29.5,-127.9 --hardware cuda<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>The reconstructed image looked very weird, like a distorted 3D volume with very noisy patterns<span style='color:#1F497D'> (as attached).</span><span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>Note that I didn’t change anything in the rtkfdk code and I believe that the software is automatically recognize the short scan when it is loading the geometry file(xml). (Please correct me if I was wrong.)<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>Thank you for your help in advance.<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'>YangKyun<span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'> <span lang=DA><o:p></o:p></span></p></div></div><p class=MsoNormal style='mso-margin-top-alt:auto;margin-bottom:12.0pt'><span lang=DA><br>_______________________________________________<br>Rtk-users mailing list<br><a href="mailto:Rtk-users@public.kitware.com" target="_blank">Rtk-users@public.kitware.com</a><br><a href="http://public.kitware.com/mailman/listinfo/rtk-users" target="_blank">http://public.kitware.com/mailman/listinfo/rtk-users</a><o:p></o:p></span></p></div><p class=MsoNormal style='mso-margin-top-alt:auto;mso-margin-bottom-alt:auto'><span lang=DA> <o:p></o:p></span></p></div></div></div></div></div></blockquote></div><p class=MsoNormal><o:p> </o:p></p></div></div></body></html>