[Gate-users] Gate-users Digest, Vol 125, Issue 15
Philipp Matthies
philipp.matthies at gmail.com
Thu Oct 20 11:08:32 CEST 2016
Hello,
please read the Users Guide first if you haven't done so, yet: http://wiki.
opengatecollaboration.org/index.php/Users_Guide_V7.2
Especially this part should be helpful for you: http://wiki.
opengatecollaboration.org/index.php/Users_Guide_V7.2:
Voxelized_Source_and_Phantom
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
Credits: e-mail partly c/p'ed from David Boersma
2016-10-19 23:41 GMT+02:00 khadidja Ouabri <khadidjaphysique at live.fr>:
> Bonjour ,
>
> SVP pouvez vous m'aider,?? ,,comment ou avec quoi je peux ouvrir un
> fichier .mhd
>
> merci d'avance
>
> cordialement
> ------------------------------
> *De :* Gate-users <gate-users-bounces at lists.opengatecollaboration.org> de
> la part de gate-users-request at lists.opengatecollaboration.org <
> gate-users-request at lists.opengatecollaboration.org>
> *Envoyé :* mercredi 19 octobre 2016 17:49:56
> *À :* gate-users at lists.opengatecollaboration.org
> *Objet :* Gate-users Digest, Vol 125, Issue 15
>
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> 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 <tony_youness at live.com>
> To: "gate-users at lists.opengatecollaboration.org"
> <gate-users at lists.opengatecollaboration.org>
> Subject: [Gate-users] error reading particle type
> Message-ID:
> <VI1PR0701MB23024A681B3DA795551B22C698D20 at VI1PR0701MB2302.
> eurprd07.prod.outlook.com>
>
> 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 <SYLVAIN.REUZE at gustaveroussy.fr>
> To: tony youness <tony_youness at live.com>,
> "gate-users at lists.opengatecollaboration.org"
> <gate-users at lists.opengatecollaboration.org>
> Subject: Re: [Gate-users] error reading particle type
> Message-ID:
> <B3429882877FFB44A20845EC89FF2991F69327FE at SRV-MBX-01.intra.igr.fr>
> 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
> www.gustaveroussy.fr
>
>
>
>
>
> -----Message d'origine-----
> De : Gate-users [mailto:gate-users-bounces at lists.opengatecollaboration.org
> <gate-users-bounces at lists.opengatecollaboration.org>] De la part de tony
> youness
> Envoyé : mercredi 19 octobre 2016 15:54
> À : gate-users at lists.opengatecollaboration.org
> 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
> Gate-users at lists.opengatecollaboration.org
> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
>
> ------------------------------
>
> Message: 3
> Date: Wed, 19 Oct 2016 17:49:54 +0000
> From: "Santos, Roque" <rsantost at vols.utk.edu>
> To: "gate-users at lists.opengatecollaboration.org"
> <gate-users at lists.opengatecollaboration.org>
> Cc: "Ruggles, Arthur E" <aruggles at utk.edu>
> Subject: [Gate-users] Difference between simulated and experimental
> LOR in inveon
> Message-ID:
> <DM2PR0201MB09901CFD979A4AD67A63CF2FF0D20 at DM2PR0201MB0990.
> namprd02.prod.outlook.com>
>
> 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
>
>
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>
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