[Gate-users] benchSPECT run errors

xcao xcao at mail.ihep.ac.cn
Tue Apr 12 14:29:03 CEST 2011


hi, Didier

   I know what the problem is, It is ok. I just found the display is not like the old Gate version(Gate5.0),
so I think it have some problems. I think Gate6.1 have display all gammas, so it is ok!
Thank you very much for your kindly help!

Best wishes!

xuer


2011-04-12 



xcao 



发件人: Didier Benoit 
发送时间: 2011-04-12  20:00:59 
收件人: xcao 
抄送: gate-users 
主题: Re: [Gate-users] benchSPECT run errors 
 
Hi,


If you want to use the visualization you can, it's just slow. In your first e-mail, your visualization was good.


Kind Regards,
Didier


On Apr 12, 2011, at 1:56 PM, xcao wrote:


Hi,Didier

    I know it and I have tested it, it is ok!
    But if I want to use visualization, how can I do with it.

Best Regards
xuer

2011-04-12



xcao



发件人: Didier Benoit
发送时间: 2011-04-12  17:44:42
收件人: xcao
抄送: gate-users
主题: Re: [Gate-users] benchSPECT run errors
Cao,


You have a command:
/vis/disable


Or just you delete the line about the visualization


Kind Regards,
Didier


On Apr 12, 2011, at 11:41 AM, xcao wrote:


Hi,Didier

    Ok,Iknow, thank you!
Do you have any suggestion about visualization?

Best Regards,
  

2011-04-12



xcao



发件人: Didier Benoit
发送时间: 2011-04-12  17:27:12
收件人: xcao
抄送: gate-users
主题: Re: [Gate-users] benchSPECT run errors
Hi Cao,


If you don't want the Bremsstrahlung for the e+ it's not important. It's just a warning in this case.


Kind Regards,
Didier


On Apr 12, 2011, at 10:53 AM, xcao wrote:


hi, Didier

   Thank you for your help, I think you conclusion is right, I check diable the visualization, it can run properly and the results is reasonable.
But  there is a warning of e+:

Particle: e+
    * Model(s):
       - <!> *** Warning *** <!> No model selected!

I don't know if  it will effect the programs.

I checked the run informations with visualization, there is no obvious mistake(also have the ablove warning information)

[G4] 
[G4] *************************************************************
[G4]  Geant4 version Name: geant4-09-03-patch-02    (17-September-2010)
[G4]                       Copyright : Geant4 Collaboration
[G4]                       Reference : NIM A 506 (2003), 250-303
[G4]                             WWW : http://cern.ch/geant4
[G4] *************************************************************
[G4] 
[Core-0] Initialization of geometry
[Core-0] Initialization of physics
[Core-0] Initialization of actors
[Core-0] 
[Core-0] **********************************************************************
[Core-0]  GATE version name: gate_v6.1                                         
[Core-0]                     Copyright : OpenGATE Collaboration                
[Core-0]                     Reference : Phys. Med. Biol. 49 (2004) 4543-4561  
[Core-0]                     Reference : Phys. Med. Biol. 56 (2011) 881-901    
[Core-0]                     WWW : http://www.opengatecollaboration.org/       
[Core-0] **********************************************************************
[Core-0] 
[Core-0] Starting macro benchSPECT.mac
[G4] Got standard cmap
[G4] Window name: viewer-0 (OpenGLStoredX)
[G4] /tracking/storeTrajectory 1
[G4]  GateDetectorConstruction::insertARFSD  entered 
[G4]  created a ARF Sensivitive Detector 
[G4]  created command /gate/systems/SPECThead/arf/setARFStage
[G4]  GetDirectoryName()+ setHeight = /gate/hole/geometry/setHeight
[G4] Translation speed = 0 0 0.04 cm/s
[G4] Translation speed = 0 0 0.04 cm/s
[G4] 
[G4] GATE object:        'systems/SPECThead'
[G4] Components:    
[G4] 
[G4] GATE object:        'systems/SPECThead/base'
[G4] Attached to volume: SPECThead
[G4] Nb of children:       1
[G4]    GATE object:        'systems/SPECThead/crystal'
[G4]    Attached to volume: crystal
[G4]    Nb of children:       1
[G4]            GATE object:        'systems/SPECThead/pixel'
[G4]            Attached to volume: ---
List of Enabled processes:
   ===  Process: RayleighScattering  ===
Particle: gamma
    * Model(s):
       - PenelopeModel
   ===  Process: PhotoElectric  ===
Particle: gamma
    * Model(s):
       - StandardModel
   ===  Process: MultipleScattering  ===
Particle: e-
   ===  Process: ElectronIonisation  ===
Particle: e+
    * Model(s):
       - <!> *** Warning *** <!> No model selected!
Particle: e-
    * Model(s):
       - StandardModel
   ===  Process: Compton  ===
Particle: gamma
    * Model(s):
       - PenelopeModel
   ===  Process: Bremsstrahlung  ===
Particle: e+
    * Model(s):
       - <!> *** Warning *** <!> No model selected!
Particle: e-
    * Model(s):
       - StandardModel
List of initialized processes:
[Core-0] Initialization of geometry
[Core-0] Initialization of physics
[Core-0] Initialization of actors
[G4]            Nb of children:       0
Confirming confinement to volume 'movsource_phys'...
[Acquisition-0]                                      
[Acquisition-0] ============= Source initialization =============
[Acquisition-0]                                      
[Acquisition-0] ============= Acquisition starts! =============
[Acquisition-0] Simulation start time = 0 sec
[Acquisition-0] Simulation end time   = 600 sec
[Acquisition-0] Simulation will have  = 16 run(s)
--------- Ranlux engine status ---------
 Initial seed = 123456789
 randoms[] = 0.366829
0.959976
0.382801
0.71216
0.91131
0.29693
0.806733
0.788568
0.684343
0.334206
0.0928262
0.66146
 carry = 0, index = 11
 luxury = 1 pDiscard = 87
----------------------------------------
[Acquisition-0] 
[Acquisition-0] Slice 0 from 0 to 37.5 s [slice=37.5 s], final stop at 600 s.
[G4] 
[G4] RayleighScattering:   for  gamma    SubType= 11
[G4]       Lambda tables from 100 eV  to 10 TeV in 200 bins, spline: 1
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]          PenRayleigh :     Emin=          0 eV         Emax=   100 GeV
[G4] 
[G4] PhotoElectric:   for  gamma    SubType= 12
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]        PhotoElectric :     Emin=          0 eV         Emax=   10 TeV
[G4] 
[G4] Compton:   for  gamma    SubType= 13
[G4]       Lambda tables from 100 eV  to 10 TeV in 77 bins, spline: 1
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]           PenCompton :     Emin=          0 eV         Emax=   10 TeV
[G4] 
[G4] MultipleScattering:   for e-    SubType= 10
[G4]       Lambda tables from 100 eV  to 10 TeV in 77 bins, spline: 1
[G4]       RangeFactor= 0.2, stepLimitType: 0, latDisplacement: 1, skin= 3, geomFactor= 2.5
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]           UrbanMsc90 :     Emin=          0 eV         Emax=   10 TeV
[G4] 
[G4] ElectronIonisation:   for  e-    SubType= 2
[G4]       dE/dx and range tables from 100 eV  to 10 TeV in 77 bins
[G4]       Lambda tables from threshold to 10 TeV in 77 bins, spline: 1
[G4]       finalRange(mm)= 1, dRoverRange= 0.2, integral: 1, fluct: 1, linLossLimit= 0.01
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]         MollerBhabha :     Emin=          0 eV         Emax=   10 TeV
[G4] 
[G4] Bremsstrahlung:   for  e-    SubType= 3
[G4]       dE/dx and range tables from 100 eV  to 10 TeV in 77 bins
[G4]       Lambda tables from threshold to 10 TeV in 77 bins, spline: 1
[G4]       LPM flag: 1 for E > 1 GeV
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]                eBrem :     Emin=          0 eV         Emax=   1 GeV
[G4]             eBremRel :     Emin=          1 GeV        Emax=   10 TeV
[G4] 
[G4] ElectronIonisation:   for  e+    SubType= 2
[G4]       dE/dx and range tables from 100 eV  to 10 TeV in 77 bins
[G4]       Lambda tables from threshold to 10 TeV in 77 bins, spline: 1
[G4]       finalRange(mm)= 1, dRoverRange= 0.2, integral: 1, fluct: 1, linLossLimit= 0.01
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]         MollerBhabha :     Emin=          0 eV         Emax=   10 TeV
[G4] 
[G4] Bremsstrahlung:   for  e+    SubType= 3
[G4]       dE/dx and range tables from 100 eV  to 10 TeV in 77 bins
[G4]       Lambda tables from threshold to 10 TeV in 77 bins, spline: 1
[G4]       LPM flag: 1 for E > 1 GeV
[G4]       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
[G4]                eBrem :     Emin=          0 eV         Emax=   1 GeV
[G4]             eBremRel :     Emin=          1 GeV        Emax=   10 TeV
[G4]  clearing up the projection data matrices ... done 


But I found when I run Geant4 examples, there are output information about visualization of these:

You have successfully registered the following graphics systems.
Current available graphics systems are:
  ASCIITree (ATree)
  DAWNFILE (DAWNFILE)
  G4HepRep (HepRepXML)
  G4HepRepFile (HepRepFile)
  RayTracer (RayTracer)
  VRML1FILE (VRML1FILE)
  VRML2FILE (VRML2FILE)
  gMocrenFile (gMocrenFile)
  FukuiRenderer (DAWN)
  OpenGLImmediateX (OGLIX)
  OpenGLStoredX (OGLSX)
  RayTracerX (RayTracerX)
Registering model factories...
You have successfully registered the following model factories.
Registered model factories:
  generic
  drawByCharge
  drawByParticleID
  drawByOriginVolume
  drawByAttribute
Registered filter factories:
  chargeFilter
  particleFilter
  originVolumeFilter
  attributeFilter

But Gate programs do not have, does it matter?


2011-04-12



xcao



发件人: Didier Benoit
发送时间: 2011-04-11  18:13:20
收件人: xcao
抄送: gate-users
主题: Re: [Gate-users] benchSPECT run errors
Hi Cao,

Your detector seems good on your screenshot, and it's normal for your gammas. You have to disable the visualization. The visualization is just to check the position of your detector and source.
Do you have some errors when you launch GATE?

Kind Regards,
Didier

On 04/06/2011 05:19 AM, xcao wrote:
hi, gate users!

     I have installed Gate6.1 on Scientific Linux CERN 5.6 (SLC5.6) with geant4.9.3.p02 and root-5.26、clhep-2.0.4.5.
and everything goes well, but when I run benchSPECT for test, it returns unproper results: 
    1. The detector is not constructed completely 
    2. There are so many gammas, and it will not stop.
just like this : 


I run Geant4 examples as test, and it runs ok, no errors return, and the results is correct.
My PATH and LD_LIBRARY_PATH is :
$echo $PATH
/opt/software_simulation/ROOT/root/bin:/opt/software_simulation/Gate/gate_v6.1/bin/Linuxg++:
/opt/software_simulation/Dawn/dawn_3_90b:/opt/software_simulation/ROOT/root/bin:/usr/sue/sbin:
/usr/sue/bin:/usr/kerberos/sbin:/usr/kerberos/bin:/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:
/usr/X11R6/bin:/root/bin:/opt/software_simulation/Geant4/g4work/bin/Linux-g++ 

$echo $LD_LIBRARY_PATH
/opt/software_simulation/Gate/gate_v6.1/tmp/Linux-g++/Gate:/opt/software_simulation/ROOT/root/lib:
/opt/software_simulation/CLHEP/lib:/opt/software_simulation/CLHEP/lib/:
/opt/software_simulation/ROOT/root/lib::/opt/software_simulation/Geant4/geant4.9.3.p02/lib/Linux-g++:
/opt/software_simulation/CLHEP/lib:/opt/software_simulation/lmf/lib

Can anyone give me some helps or any suggestion.
Thank you!


2011-04-06 



xcao 


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-- 
----------------------------------------------------------------
Didier BENOIT, GATE Engineer

Imagerie et Modélisation en Neurobiologie et Cancérologie (IMNC)
IMNC – UMR 8165 CNRS – Université Paris 7 – Université Paris 11
Campus d’Orsay
Bâtiment 440
91405 ORSAY Cedex

Tél : (33) 1 69 15 68 76
E-mail : benoit at imnc.in2p3.fr
http://www.imnc.in2p3.fr
---------------------------------------------------------------- 


----------------------------------------------------------------
Didier BENOIT, GATE Engineer
Imagerie et Modélisation en Neurobiologie et Cancérologie (IMNC)
IMNC – UMR 8165 CNRS – Université Paris 7 – Université Paris 11
Campus d’Orsay
Bâtiment 440
91406 ORSAY Cedex
 
Tél : (33) 1 69 15 68 76
E-mail : benoit at imnc.in2p3.fr
http://www.imnc.in2p3.fr
----------------------------------------------------------------








----------------------------------------------------------------
Didier BENOIT, GATE Engineer
Imagerie et Modélisation en Neurobiologie et Cancérologie (IMNC)
IMNC – UMR 8165 CNRS – Université Paris 7 – Université Paris 11
Campus d’Orsay
Bâtiment 440
91406 ORSAY Cedex
 
Tél : (33) 1 69 15 68 76
E-mail : benoit at imnc.in2p3.fr
http://www.imnc.in2p3.fr
----------------------------------------------------------------








----------------------------------------------------------------
Didier BENOIT, GATE Engineer
Imagerie et Modélisation en Neurobiologie et Cancérologie (IMNC)
IMNC – UMR 8165 CNRS – Université Paris 7 – Université Paris 11
Campus d’Orsay
Bâtiment 440
91406 ORSAY Cedex
 
Tél : (33) 1 69 15 68 76
E-mail : benoit at imnc.in2p3.fr
http://www.imnc.in2p3.fr
----------------------------------------------------------------


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