<html xmlns:v="urn:schemas-microsoft-com:vml" xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:w="urn:schemas-microsoft-com:office:word" xmlns:m="http://schemas.microsoft.com/office/2004/12/omml" xmlns="http://www.w3.org/TR/REC-html40"> <head> <meta http-equiv="Content-Type" content="text/html; charset=utf-8"> <meta name="Generator" content="Microsoft Word 15 (filtered medium)"> <style></style> </head> <body lang="EN-GB" link="blue" vlink="purple"> <div class="WordSection1"> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US">Hi David,<o:p></o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US"><o:p> </o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US">Thank you so much for your reply! After replacing my ImageParametrizedRegularVolume with an ImageRegionalizedVolume (+ distance maps) & making my SPECTHead a daughter of my voxelised phantom. I am getting a crash, which I’ve narrowed down to GateCrystalSD::FindSystem(G4String&) – voxPhantom cannot be found.<o:p></o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US"><o:p> </o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US">I am at a loss here, do you perhaps have further input?<o:p></o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US"><o:p> </o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US">Thanks once more!<o:p></o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US">Francisco<o:p></o:p></span></p> <p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;mso-fareast-language:EN-US"><o:p> </o:p></span></p> <p class="MsoNormal"><b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif">From:</span></b><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri",sans-serif"> David Sarrut [mailto:David.Sarrut@creatis.insa-lyon.fr] <br> <b>Sent:</b> 25 August 2016 09:37<br> <b>To:</b> Francisco Pinto <francisco.pinto@surgiceye.com><br> <b>Cc:</b> gate-users@lists.opengatecollaboration.org; Philipp Matthies <Philipp.Matthies@surgiceye.com><br> <b>Subject:</b> Re: [Gate-users] Detector inside voxelized phantom<o:p></o:p></span></p> <p class="MsoNormal"><o:p> </o:p></p> <div> <p class="MsoNormal">Hello, <o:p></o:p></p> <div> <p class="MsoNormal"><o:p> </o:p></p> </div> <div> <p class="MsoNormal">in short : this is a known limitation, you cannot do that. <o:p></o:p></p> </div> <div> <p class="MsoNormal"><o:p> </o:p></p> </div> <div> <p class="MsoNormal">Indeed volumes cannot be overlapped (it is a G4 requirement). So if you insert a volume A (detector) within the bounds of a volume B (voxel), A must be child of B, and in this case the part of B within the A volume is not seen. <o:p></o:p></p> </div> <div> <p class="MsoNormal"><o:p> </o:p></p> </div> <div> <p class="MsoNormal">Possible workarounds : reduce the size of B so that A is outside or create A as voxels part of B. <o:p></o:p></p> </div> <div> <p class="MsoNormal"><o:p> </o:p></p> </div> <div> <p class="MsoNormal">I think that some groups (Brest) are currently working on an implementation of hybrid volumes that could allow such situation. I think it is not yet finished. <o:p></o:p></p> </div> <div> <p class="MsoNormal"><o:p> </o:p></p> </div> <div> <p class="MsoNormal">David<o:p></o:p></p> </div> <div> <p class="MsoNormal"><o:p> </o:p></p> </div> </div> <div> <p class="MsoNormal"><o:p> </o:p></p> <div> <p class="MsoNormal">On Wed, Aug 24, 2016 at 9:15 PM, Francisco Pinto <<a href="mailto:francisco.pinto@surgiceye.com" target="_blank">francisco.pinto@surgiceye.com</a>> wrote:<o:p></o:p></p> <blockquote style="border:none;border-left:solid #CCCCCC 1.0pt;padding:0cm 0cm 0cm 6.0pt;margin-left:4.8pt;margin-top:5.0pt;margin-right:0cm;margin-bottom:5.0pt"> <div> <div> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">Dear fellow Gate users,<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">I would be thankful to get some assistance with a current issue I'm facing. I am currently trying (and failing) to simulate the following scenario:<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">- A voxelized phantom defined via a CT dataset in Analyze format.<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">- A source placed inside the phantom.<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">- A simple detector aiming towards the source.<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">The problem I'm facing occurs when I place the detector inside the bounds of the voxelized phantom: When outside the bounds, the detector registers hits as expected. As soon as I move it inside the bounds, however, no hits are registered.<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">Is this a known limitation or am I doing something wrong? I'm using the latest develop Gate on Ubuntu 16.04, CPU-only single core simulation.<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">You may find all the relevant short scripts including the CT dataset here (17MB tgz):</span><a href="https://drive.google.com/open?id=0BzM9gTEQ3DYyYWFOcVRibklGdVk" target="_blank"><span style="font-family:"Calibri",sans-serif"> https://drive.google.com/open?id=0BzM9gTEQ3DYyYWFOcVRibklGdVk</span></a><span style="font-family:"Calibri",sans-serif;color:black"><o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">Use runSim.sh to run the simulation (you may need to change the Gate binary's name in the script).<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">If anyone has any tips or pointers, they would be very much appreciated.<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">Cheers and thanks in advance,<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">Francisco<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p> <div> <div> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">Francisco Pinto<o:p></o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p> <p style="background:white"><span style="font-family:"Calibri",sans-serif;color:black">Principal Software Engineer<br> SurgicEye GmbH<br> Tel: +49 89 54 99 89 0 - 21<o:p></o:p></span></p> </div> </div> </div> </div> <p class="MsoNormal"><br> _______________________________________________<br> Gate-users mailing list<br> <a href="mailto:Gate-users@lists.opengatecollaboration.org">Gate-users@lists.opengatecollaboration.org</a><br> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a><o:p></o:p></p> </blockquote> </div> <p class="MsoNormal"><br> <br clear="all"> <o:p></o:p></p> <div> <p class="MsoNormal"><o:p> </o:p></p> </div> <p class="MsoNormal">-- <o:p></o:p></p> <div> <div> <div> <div> <div> <div> <p class="MsoNormal">David Sarrut, Phd<br> Directeur de recherche CNRS<br> CREATIS, UMR CNRS 5220, Inserm U1206<o:p></o:p></p> <div> <p class="MsoNormal">Centre de lutte contre le cancer Léon Bérard<br> 28 rue Laënnec, 69373 Lyon cedex 08<br> Tel : 04 78 78 51 51 / 06 74 72 05 42<br> <a href="http://www.creatis.insa-lyon.fr/~dsarrut" target="_blank">http://www.creatis.insa-lyon.fr/~dsarrut</a><br> _________________________________<o:p></o:p></p> </div> <div> <p class="MsoNormal"> "2 + 2 = 5, for extremely large values of 2"<br> _________________________________<o:p></o:p></p> </div> </div> </div> </div> </div> </div> </div> </div> </div> </body> </html>