<div dir="ltr"><div>Hello, please read the Users Guide first if you haven't done so, yet: <a href="http://wiki.opengatecollaboration.org/index.php/Users_Guide_V7.2" target="_blank">http://wiki.opengatecollaboration.org/index.php/Users_Guide_V7.2</a> Especially this part should be helpful for you: <a href="http://wiki.opengatecollaboration.org/index.php/Users_Guide_V7.2:Voxelized_Source_and_Phantom" target="_blank">http://wiki.opengatecollaboration.org/index.php/Users_Guide_V7.2:Voxelized_Source_and_Phantom</a> If you encounter any errors, we need more information, for starters: 1. Which version of Gate are you running? 2. On which distro/release of Linux (or which version of MacOSX)? 3. How exactly do you run Gate, which command did you enter on the command line? 4. Could you send *all* output from Gate, not just the last few lines? 5. Are you trying to run one of the example macros? - if yes, which one? - if no: could you send your macro to this mailing list? - if no: could you try an example script, does it give the same crash? Thanks, Philipp </div>Credits: e-mail partly c/p'ed from David Boersma</div><div class="gmail_extra"> <div class="gmail_quote">2016-10-19 23:41 GMT+02:00 khadidja Ouabri <<a href="mailto:khadidjaphysique@live.fr" target="_blank">khadidjaphysique@live.fr</a>>: <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"> <div> <div dir="ltr"> <div id="m_-7650309514158029459x_divtagdefaultwrapper" style="font-size:12pt;color:#000000;font-family:Calibri,Arial,Helvetica,sans-serif"> Bonjour , SVP pouvez vous m'aider,?? ,,comment ou avec quoi je peux ouvrir un fichier .mhd merci d'avance cordialement </div> <hr style="display:inline-block;width:98%"> <div id="m_-7650309514158029459x_divRplyFwdMsg" dir="ltr">De : Gate-users <<a href="mailto:gate-users-bounces@lists.opengatecollaboration.org" target="_blank">gate-users-bounces@lists.opengatecollaboration.org</a>> de la part de <a href="mailto:gate-users-request@lists.opengatecollaboration.org" target="_blank">gate-users-request@lists.opengatecollaboration.org</a> <<a href="mailto:gate-users-request@lists.opengatecollaboration.org" target="_blank">gate-users-request@lists.opengatecollaboration.org</a>> Envoyé : mercredi 19 octobre 2016 17:49:56 À : <a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a> Objet : Gate-users Digest, Vol 125, Issue 15 <div> </div> </div> </div> <div class="m_-7650309514158029459PlainText">Send Gate-users mailing list submissions to <a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a> To subscribe or unsubscribe via the World Wide Web, visit <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank"> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> or, via email, send a message with subject or body 'help' to <a href="mailto:gate-users-request@lists.opengatecollaboration.org" target="_blank">gate-users-request@lists.opengatecollaboration.org</a> You can reach the person managing the list at <a href="mailto:gate-users-owner@lists.opengatecollaboration.org" target="_blank">gate-users-owner@lists.opengatecollaboration.org</a> When replying, please edit your Subject line so it is more specific than "Re: Contents of Gate-users digest..." Today's Topics: 1. error reading particle type (tony youness) 2. Re: error reading particle type (REUZE SYLVAIN) 3. Difference between simulated and experimental LOR in inveon (Santos, Roque) ---------------------------------------------------------------------- Message: 1 Date: Wed, 19 Oct 2016 13:54:20 +0000 From: tony youness <<a href="mailto:tony_youness@live.com" target="_blank">tony_youness@live.com</a>> To: "<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>" <<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>> Subject: [Gate-users] error reading particle type Message-ID: <<a href="mailto:VI1PR0701MB23024A681B3DA795551B22C698D20@VI1PR0701MB2302.eurprd07.prod.outlook.com" target="_blank">VI1PR0701MB23024A681B3DA795551B22C698D20@VI1PR0701MB2302.eurprd07.prod.outlook.com</a>> Content-Type: text/plain; charset="utf-8" Dear GATE users, I'm running gate for external radiotherapy applications for high energy photon beams. I recently tried to create a new IAEAphsp file after the jaws of a simulated Linac in order to reduce computation time. When I try to run a new simulation with the created phase space file, I get the following error multiple times at the end of each simulation: ERROR: read_particle: Failed to read particle type ERROR: read_particle: Failed to read particle type ERROR: read_particle: Failed to read particle type ... As i understand that a photon ID is represented by the number 1. When I tried to read the IAEAphsp file, which contains ID, energy, position and direction of each particle, i recognized that some particles have the ID -1. In the header file the -1 and 1 are considered as a photon as I realized. I can't find why I'm getting the negative sign and I'm not sure if the error is related to the sign, has anyone encountered this problem before? I would really appreciate any help or advise, Best Regards, Tony ------------------------------ Message: 2 Date: Wed, 19 Oct 2016 14:11:07 +0000 From: REUZE SYLVAIN <<a href="mailto:SYLVAIN.REUZE@gustaveroussy.fr" target="_blank">SYLVAIN.REUZE@gustaveroussy.fr</a>> To: tony youness <<a href="mailto:tony_youness@live.com" target="_blank">tony_youness@live.com</a>>, "<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>" <<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>> Subject: Re: [Gate-users] error reading particle type Message-ID: <<a href="mailto:B3429882877FFB44A20845EC89FF2991F69327FE@SRV-MBX-01.intra.igr.fr" target="_blank">B3429882877FFB44A20845EC89FF2991F69327FE@SRV-MBX-01.intra.igr.fr</a>> Content-Type: text/plain; charset="utf-8" Hello Tony, I had the same problem with phase spaces coming from IAEA due to these negative IDs, among other things. You can use ROOT format instead of IAEAphsp, which is more compatible with Gate. Best regards, Sylvain Reuzé PhD candidate, Medical Physics, Université Paris-Saclay INSERM U1030 "Molecular Radiotherapy" GUSTAVE ROUSSY Radiotherapy – Medical Physics Department Tél. : (+0033) 1 42 11 51 54 <a href="http://www.gustaveroussy.fr" target="_blank">www.gustaveroussy.fr</a> -----Message d'origine----- De : Gate-users [<a href="mailto:gate-users-bounces@lists.opengatecollaboration.org" target="_blank">mailto:gate-users-bounces@lists.opengatecollaboration.org</a>] De la part de tony youness Envoyé : mercredi 19 octobre 2016 15:54 À : <a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a> Objet : [Gate-users] error reading particle type Dear GATE users, I'm running gate for external radiotherapy applications for high energy photon beams. I recently tried to create a new IAEAphsp file after the jaws of a simulated Linac in order to reduce computation time. When I try to run a new simulation with the created phase space file, I get the following error multiple times at the end of each simulation: ERROR: read_particle: Failed to read particle type ERROR: read_particle: Failed to read particle type ERROR: read_particle: Failed to read particle type ... As i understand that a photon ID is represented by the number 1. When I tried to read the IAEAphsp file, which contains ID, energy, position and direction of each particle, i recognized that some particles have the ID -1. In the header file the -1 and 1 are considered as a photon as I realized. I can't find why I'm getting the negative sign and I'm not sure if the error is related to the sign, has anyone encountered this problem before? I would really appreciate any help or advise, Best Regards, Tony _______________________________________________ Gate-users mailing list <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> ------------------------------ Message: 3 Date: Wed, 19 Oct 2016 17:49:54 +0000 From: "Santos, Roque" <<a href="mailto:rsantost@vols.utk.edu" target="_blank">rsantost@vols.utk.edu</a>> To: "<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>" <<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>> Cc: "Ruggles, Arthur E" <<a href="mailto:aruggles@utk.edu" target="_blank">aruggles@utk.edu</a>> Subject: [Gate-users] Difference between simulated and experimental LOR in inveon Message-ID: <<a href="mailto:DM2PR0201MB09901CFD979A4AD67A63CF2FF0D20@DM2PR0201MB0990.namprd02.prod.outlook.com" target="_blank">DM2PR0201MB09901CFD979A4AD67A63CF2FF0D20@DM2PR0201MB0990.namprd02.prod.outlook.com</a>> Content-Type: text/plain; charset="iso-8859-1" Hello all. I am validating a GATE model of Siemens Inveon. In order to do this, I am placing a 12.7 mm cube source of Na22 (7uCi at September 2016) at different position along the z axis (depth of the Bore) of the real machine. At these positions I'm taking a 10 second scan and I am using the IAW (inveon software) to create the histogram and the image of the scan. This software creates log files that have the number of singles and the number of LOR (under the name of events). I am comparing this number of events with the number of LOR generated in GATE. For the simulation I'm using Jen Gregor's Inveon model. I changed the coincidence policy to killAll and the energy widow to 425-625 keV. The last change was done because this is the energy window that we use in our group work. The rest of the model is the same as it is distributed by Dr. Gregor. A brief description of the digitizer features: dead time: depth of response=1, crystal resolution min=0.15 crystal resolution max=0.35, Quantum Efficiency=0.85, Energy reference= 511 keV, dead time= 7000000. ps, coincidence window=3.438 ns. I am using the standard model for the Photoelectric, Compton and Rayleigh scattering. The standard model is also used for the electron ionization and Bremsstrahlung processes. For the positron annihilation I'm using the eMultipleScattering model and the Radioactive decay is on. I modeled the source as a point source centered in the cube, and I'm using my own positron distribution (however the results do not change too much when I used the default one). The results that I got showed that the simulation produces more LOR than the experimental. I'm attaching pictures of this situation [cid:2f2de02f-72db-46ae-8002-aae003bb2e17][cid:b909bae3-f62d-41fb-adbe-b395655a0dc7] The first one is the LOR and the second one is the efficiency. Both shows a difference of almost twice. The model that I'm using is a validated model. I looked for other references with the same problem, but so far I just could find one. Does anybody have an idea of how can I get the same LOR experimental and simulated? or Why is this happening? Any idea will be explored. Thank you very much for your help. Greetings, Roque Santos University of Tennessee, Knoxville Departement of Nuclear Engineering -------------- next part -------------- An HTML attachment was scrubbed... URL: <<a href="http://lists.opengatecollaboration.org/mailman/private/gate-users/attachments/20161019/441ea502/attachment.html" target="_blank">http://lists.opengatecollaboration.org/mailman/private/gate-users/attachments/20161019/441ea502/attachment.html</a>> -------------- next part -------------- A non-text attachment was scrubbed... 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