[Gate-users] Gate-users Digest, Vol 82, Issue 6

mariam zoubair zoubair-mariam at hotmail.fr
Wed Mar 6 16:49:29 CET 2013




Hi Marco

Thank you for your help 
 
 
 
 
 
 
 
 






 



> From: gate-users-request at lists.opengatecollaboration.org
> Subject: Gate-users Digest, Vol 82, Issue 6
> To: gate-users at lists.opengatecollaboration.org
> Date: Tue, 5 Mar 2013 17:52:03 +0100
> 
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> Today's Topics:
> 
>    1. Re: problem with voxelez the phantom and the source
>       (Marc Chamberland)
> 
> 
> ----------------------------------------------------------------------
> 
> Message: 1
> Date: Tue, 5 Mar 2013 16:54:42 +0000
> From: Marc Chamberland <MarcChamberland at cmail.carleton.ca>
> To: mariam zoubair <zoubair-mariam at hotmail.fr>
> Cc: "<gate-users at lists.opengatecollaboration.org>"
> 	<gate-users at lists.opengatecollaboration.org>
> Subject: Re: [Gate-users] problem with voxelez the phantom and the
> 	source
> Message-ID: <1E5471BF-305F-4E07-8A15-DB43432C2612 at cmail.carleton.ca>
> Content-Type: text/plain; charset="iso-8859-1"
> 
> Hi,
> 
> Gate is already telling you that a few things are wrong.
> 
> Here, it says that you used the wrong name for the physics processes (assuming you are running Gate v6.2)
> 
> >  <!> *** WARNING *** <!>  Unknown process: PositronAnnihilationStd
> >  <!> *** WARNING *** <!>  Unknown process: MultipleScattering
> >  <!> *** WARNING *** <!>  Unknown process: MultipleScattering
> 
> For positron annihilation, you should use:
> 
> /gate/physics/addProcess PositronAnnihilation  e+
> 
> For multiple scattering, you should use:
> 
> /gate/physics/addProcess eMultipleScattering e-
> /gate/physics/addProcess eMultipleScattering e+
> 
> Please refer to the user guide: http://wiki.opengatecollaboration.org/index.php/Users_Guide_V6.2:Setting_up_the_physics#Positron_and_electron_annihilation
> 
> 
> Also, Gate is complaining that it cannot open some of your header file:
> 
> > '!ror: Could not open header file 'm001-IM00120.i33
> 
> In fact, it seems like it's trying to open your image file (.i33) instead of the header file (.h33). You'll want to have a close look at this and make sure you're supplying the correct files and the correct paths. I seem to remember Gate having trouble with relative paths to these files (I think), so you might want to investigate.
> 
> Marc
> 
> 
> 
> __________________________
> 
> Marc Chamberland, MSc
> PhD candidate
> Department of Physics
> Carleton University
> Ottawa (ON)
> 
> On 2013-03-05, at 11:34 AM, mariam zoubair <zoubair-mariam at hotmail.fr>
>  wrote:
> 
> > 
> > Dear Gate users 
> > 
> > I try to follow all the steps to run CT scanner, I have an image of 512 x 512 pixels. I'm voxelez the phantom and the source (position = -256, -256, 0) but I have not seen any interaction and I have this message.
> > 
> > 
> > Can you help me
> > 
> > Thank you 
> > 
> > 
> > /tracking/storeTrajectory 1
> > Attributes available for modeling and filtering with
> >   "/vis/modeling/trajectories/create/drawByAttribute" and
> >   "/vis/filtering/trajectories/create/attributeFilter" commands:
> > G4Trajectory:
> >   Charge (Ch): unit: e+ (G4double)
> >   Track ID (ID): G4int
> >   Initial kinetic energy (IKE): G4BestUnit (G4double)
> >   Initial momentum magnitude (IMag): G4BestUnit (G4double)
> >   Initial momentum (IMom): G4BestUnit (G4ThreeVector)
> >   No. of points (NTP): G4int
> >  
> >  
> >    PDG Encoding (PDG): G4int
> >   Parent ID (PID): G4int
> >   Particle Name (PN): G4String
> > G4TrajectoryPoint:
> >   Position (Pos): G4BestUnit (G4ThreeVector)
> > WARNING: Trajectory storing has been requested.  This action may be
> >   reversed with "/tracking/storeTrajectory 0".
> > WARNING: The vis manager will keep up to 100 events.
> >   This may use a lot of memory.
> >   It may be changed with, e.g., "/vis/scene/endOfEventAction accumulate 10".
> >  CREATED THE COMMAND /gate/systems/cylindricalPET/addAnewRsector
> >  Call VoxelParameterized::InsertReader
> >  Range Translator
> >         Range   0 : imageValue in [    0.000e+00 , 1.500e+03 ]  ---> material Air, visibility 1, coulour (0.000e+00,1.000e+00,0.000e+00,2.000e-01)
> >         Range   1 : imageValue in [    1.501e+03 , 2.250e+03 ]  ---> material Water, visibility 1, coulour (1.000e+00,0.000e+00,0.000e+00,2.000e-01)
> >         Range   2 : imageValue in [    2.251e+03 , 2.750e+03 ]  ---> material Air, visibility 1, coulour (0.000e+00,1.000e+00,0.000e+00,2.000e-01)
> >         Range   3 : imageValue in [    2.751e+03 , 3.848e+03 ]  ---> material RibBone, visibility 1, coulour (0.000e+00,0.000e+00,1.000e+00,2.000e-01)
> > ', assuming default BIGENDIAN'LITTLEENDIAN
> >  
> > 'nrecognised type name 'unsigned integer
> >  Header read from       'CT-IM00120_uint16.h33'
> > 'Data file name         'm001-IM00120.i33
> >  Nb of planes:           1
> >  Nb of pixels per plane: 512 512
> >  Pixel size:             4.590e-01 4.590e-01
> >  Slice thickness:        2.179e+00
> >  Matrix size:            2.350e+02 2.350e+02
> >  Data type:              
> >  Data byte order:        BIGENDIAN
> >  
> >  
> > '!ror: Could not open header file 'm001-IM00120.i33
> >  <!> *** WARNING *** <!>  Unknown process: PositronAnnihilationStd
> >  <!> *** WARNING *** <!>  Unknown process: MultipleScattering
> >  <!> *** WARNING *** <!>  Unknown process: MultipleScattering
> >  
> > List of Enabled processes:
> >  
> >  
> >    ===  Process: PhotoElectric  ===
> > Particle: gamma
> >     * Model(s):
> >        - StandardModel
> >  
> >    ===  Process: Compton  ===
> > Particle: gamma
> >     * Model(s):
> >        - StandardModel
> >  
> >    ===  Process: Bremsstrahlung  ===
> > Particle: e+
> >     * Model(s):
> >        - StandardModel
> > Particle: e-
> >     * Model(s):
> >        - StandardModel
> >  
> >    ===  Process: ElectronIonisation  ===
> > Particle: e+
> >     * Model(s):
> >        - StandardModel
> > Particle: e-
> >     * Model(s):
> >        - StandardModel
> >  
> > List of initialized processes:
> >  
> > [Core-0] Initialization of geometry
> > G4PhysicalVolumeModel::Validate(): A volume of the same name and
> >   copy number ("world_phys", copy 0) still exists and is being used.
> >   But it is not the same volume you originally specified
> >   in /vis/scene/add/.
> > [Core-0] Initialization of physics
> > [Core-0] Initialization of actors
> > GATE object:        'systems/cylindricalPET'
> >  
> >  Components:    
> >  
> > GATE object:        'systems/cylindricalPET/base'
> > Attached to volume: cylindricalPET
> > Nb of children:       1
> >  
> >         GATE object:        'systems/cylindricalPET/rsector'
> >         Attached to volume: head
> >         Nb of children:       1
> >  
> >                 GATE object:        'systems/cylindricalPET/module'
> >                 Attached to volume: ---
> >                 Nb of children:       1
> >  
> >                         GATE object:        'systems/cylindricalPET/submodule'
> >  GATE object:        'systems/cylindricalPET/submodule'
> >                         Attached to volume: block
> >                         Nb of children:       1
> >  
> >                                 GATE object:        'systems/cylindricalPET/crystal'
> >                                 Attached to volume: crystal
> >                                 Nb of children:       4
> >  
> >                                         GATE object:        'systems/cylindricalPET/layer0'
> >                                         Attached to volume: LYSO
> >                                         Nb of children:       0
> >  
> >                                         GATE object:        'systems/cylindricalPET/layer1'
> >                                         Attached to volume: LSO
> >                                         Nb of children:       0
> >  
> >                                         GATE object:        'systems/cylindricalPET/layer2'
> >                                         Attached to volume: ---
> >                                         Nb of children:       0
> >  
> >                                         GATE object:        'systems/cylindricalPET/layer3'
> >                                         Attached to volume: ---
> >                                         Nb of children:       0
> > geometrical design type: 1
> > ring diameter: -1.750e+01 cm 
> > rsector axial pitch: 0.000e+00 fm 
> > rsector azimuthal pitch: -4.500e+01 degree
> > rsector tangential size: 2.000e+00 cm 
> > rsector axial size: 2.530e+01 cm 
> > module axial size: 2.530e+01 cm 
> > module tangential size: 2.000e+00 cm 
> >  module axial pitch: 0.000e+00 fm 
> > module tangential pitch: 0.000e+00 fm 
> > submodule axial size: 1.900e+00 cm 
> > submodule tangential size: 2.000e+00 cm 
> > submodule axial pitch: 1.950e+00 cm 
> > submodule tangential pitch: 0.000e+00 fm 
> > crystal radial size: 2.200e+00 mm 
> > crystal axial size: 2.200e+00 mm 
> > crystal tangential size: 2.000e+00 cm 
> > crystal axial pitch: 2.400e+00 mm 
> > crystal tangential pitch: 0.000e+00 fm 
> > layer0 radial size: 2.200e+00 mm 
> > in layer0 interaction length: 1.100e+00 mm 
> > layer1 radial size: 2.200e+00 mm 
> > in layer1 interaction length: 1.100e+00 mm 
> > Axial nb of rsectors: 1
> > Azimuthal nb of rsectors: 8
> > Axial nb of modules: 1
> > Tangential nb of modules: 1
> > Axial nb of submodules: 13
> > Tangential nb of submodules: 1
> > Axial nb of crystals: 8
> > Tangential nb of crystals: 1
> > Radial nb of layers: 2
> >  Range Translator
> >         Range   0 : imageValue in [    0.000e+00 , 1.500e+03 ]  ---> activity (Bq) 0.000e+00
> >         Range   1 : imageValue in [    1.501e+03 , 2.250e+03 ]  ---> activity (Bq) 1.000e+01
> >         Range   2 : imageValue in [    2.251e+03 , 2.750e+03 ]  ---> activity (Bq) 2.000e+01
> >         Range   3 : imageValue in [    2.751e+03 , 3.848e+03 ]  ---> activity (Bq) 3.000e+01
> > GateSourceVoxelImageReader::ReadFile : fileName: CT-IM00120_uint16.h33
> >  
> > ', assuming default BIGENDIAN'LITTLEENDIAN
> >  
> > 'nrecognised type name 'unsigned integer
> >  Header read from       'CT-IM00120_uint16.h33'
> > 'Data file name         'm001-IM00120.i33
> >  Nb of planes:           1
> >  Nb of pixels per plane: 512 512
> >  Pixel size:             4.590e-01 4.590e-01
> >  Slice thickness:        2.179e+00
> >  Matrix size:            2.350e+02 2.350e+02
> >  Data type:              
> >  Data byte order:        BIGENDIAN
> >  
> >  
> > '!ror: Could not open header file 'm001-IM00120.i33
> >  **** Error: Volume does not exist **** 
> >  Ignoring confine condition
> > Source ---------------> voxel_brain
> >   ID                  : 0
> >   type                : backtoback
> >   startTime (s)       : 0.000e+00
> >   time (s)            : 0.000e+00
> >   forcedUnstable      : 0
> >   verboseLevel        : 0
> > ----------------------- 
> >   Voxel reader ---------->   number of voxels       : 0
> >   total activity (Bq)    : 0.000e+00
> >   position  (mm)         : 0.000e+00 0.000e+00 0.000e+00
> >   voxel size  (mm)    : 1.000e+00 1.000e+00 1.000e+00
> > Source --------------> voxel_brain
> >   ID                 : 0
> >   type               : backtoback
> >   activity (Bq)      : 0.000e+00
> >   startTime (s)      : 0.000e+00
> >   time (s)           : 0.000e+00
> >   forcedUnstable     : 0
> >   forcedHalfLife (s) : -6.931e-01
> >   verboseLevel       : 0
> >   relative to vol    : World
> > ---------------------- 
> >  
> >     GPS info ----------------> 
> >     particle                 : gamma
> >     SourcePosType            : Point
> >     Shape                    : NULL
> >     halfx,halfy,halfz  (mm)  : 0.000e+00 0.000e+00 0.000e+00
> >     Radius             (mm)  : 0.000e+00
> >     CentreCoords       (mm)  : 0.000e+00 0.000e+00 0.000e+00
> >     EnergyDisType            : Mono
> >     AngleDisType            : iso
> >     MinTheta, MaxTheta (deg) : 0.000e+00 1.800e+02
> >     MinPhi, MaxPhi     (deg) : 0.000e+00 3.600e+02
> >     -------------------------- 
> >  
> > GateSourceMgr::ListSources: List of the sources in the source manager
> > Source ---------------> voxel_brain
> >   ID                  : 0
> >   type                : backtoback
> >   startTime (s)       : 0.000e+00
> >   time (s)            : 0.000e+00
> >   forcedUnstable      : 0
> >  
> >  verboseLevel        : 0
> > ----------------------- 
> > ***** COMMAND NOT FOUND </gate/output/root/setRootdelayFlag 1> *****
> >  
> > ***** Batch is interrupted!! *****
> > [Acquisition-0]                                      
> > [Acquisition-0] ============= Source initialization =============
> > [Acquisition-0]                                      
> > [Acquisition-0] ============= Acquisition starts! =============
> > [Acquisition-0] Simulation start time = 0 sec
> > [Acquisition-0] Simulation end time   = 2.5 sec
> > [Acquisition-0] Simulation will have  = 1 run(s)
> > [Acquisition-0] 
> > [Acquisition-0] Slice 0 from 0 to 2.5 s [slice=2.5 s], final stop at 2.5 s.
> >  
> > PhotoElectric:   for  gamma    SubType= 12
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >        PhotoElectric :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> >  
> > Compton:   for  gamma    SubType= 13
> >       Lambda tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins, spline: 1
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >        Klein-Nishina :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> >  
> > Bremsstrahlung:   for  e-    SubType= 3
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       LPM flag: 1 for E > 1.000e+00 GeV
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >              eBremSB :  Emin= 0.000e+00 eV    Emax= 1.000e+00 GeV   AngularGenUrban
> >             eBremLPM :  Emin= 1.000e+00 GeV   Emax= 1.000e+01 TeV   AngularGenUrban
> >  
> > ElectronIonisation:   for  e-    SubType= 2
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       finalRange(mm)= 1.000e+00, dRoverRange= 2.000e-01, integral: 1, fluct: 1, linLossLimit= 1.000e-02
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >         MollerBhabha :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> >  
> > Bremsstrahlung:   for  e+    SubType= 3
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       LPM flag: 1 for E > 1.000e+00 GeV
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >              eBremSB :  Emin= 0.000e+00 eV    Emax= 1.000e+00 GeV   AngularGenUrban
> >             eBremLPM :  Emin= 1.000e+00 GeV   Emax= 1.000e+01 TeV   AngularGenUrban
> >  
> > ElectronIonisation:   for  e+    SubType= 2
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       finalRange(mm)= 1.000e+00, dRoverRange= 2.000e-01, integral: 1, fluct: 1, linLossLimit= 1.000e-02
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >         MollerBhabha :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> > 1 event has been kept for refreshing and/or reviewing.
> >      User simulation time (sec)   := 4.900e-01
> >      Real simulation time (sec)   := 2.860e+00
> >      System simulation time (sec) := 6.000e-02
> > [Core-0] End of macro hrrt.mac
> > GateOutputMgr deleting...
> > Graphics systems deleted.
> > Visualization Manager deleting...
> > WARNING - Attempt to delete the physical volume store while geometry closed !
> > WARNING - Attempt to delete the logical volume store while geometry closed !
> > WARNING - Attempt to delete the solid store while geometry closed !
> > WARNING - Attempt to delete the region store while geometry closed !
> >  
> > 
> >  
> >  
> >  
> >  
> >  
> >  
> >  
> >  
> >  
> > 
> > 
> > 
> > 
> > 
> > 
> >  
> > 
> > 
> > 
> > From: zoubair-mariam at hotmail.fr
> > To: gate-users at lists.opengatecollaboration.org
> > Subject: problem with voxelez the phantom and the source
> > Date: Tue, 5 Mar 2013 16:21:43 +0000
> > 
> > Dear Gate users 
> > 
> > I try to follow all the steps to run CT scanner, I have an image of 512 x 512 pixels. I'm voxelez the phantom and the source (position = -256, -256, 0) but I have not seen any interaction and I have this message.
> > 
> > 
> > Can you help me
> > 
> > Thank you 
> > 
> > 
> > 
> > /tracking/storeTrajectory 1
> > Attributes available for modeling and filtering with
> >   "/vis/modeling/trajectories/create/drawByAttribute" and
> >   "/vis/filtering/trajectories/create/attributeFilter" commands:
> > G4Trajectory:
> >   Charge (Ch): unit: e+ (G4double)
> >   Track ID (ID): G4int
> >   Initial kinetic energy (IKE): G4BestUnit (G4double)
> >   Initial momentum magnitude (IMag): G4BestUnit (G4double)
> >   Initial momentum (IMom): G4BestUnit (G4ThreeVector)
> >   No. of points (NTP): G4int
> > 
> >  
> >    PDG Encoding (PDG): G4int
> >   Parent ID (PID): G4int
> >   Particle Name (PN): G4String
> > G4TrajectoryPoint:
> >   Position (Pos): G4BestUnit (G4ThreeVector)
> > WARNING: Trajectory storing has been requested.  This action may be
> >   reversed with "/tracking/storeTrajectory 0".
> > WARNING: The vis manager will keep up to 100 events.
> >   This may use a lot of memory.
> >   It may be changed with, e.g., "/vis/scene/endOfEventAction accumulate 10".
> >  CREATED THE COMMAND /gate/systems/cylindricalPET/addAnewRsector
> >  Call VoxelParameterized::InsertReader
> >  Range Translator
> >         Range   0 : imageValue in [    0.000e+00 , 1.500e+03 ]  ---> material Air, visibility 1, coulour (0.000e+00,1.000e+00,0.000e+00,2.000e-01)
> >         Range   1 : imageValue in [    1.501e+03 , 2.250e+03 ]  ---> material Water, visibility 1, coulour (1.000e+00,0.000e+00,0.000e+00,2.000e-01)
> >         Range   2 : imageValue in [    2.251e+03 , 2.750e+03 ]  ---> material Air, visibility 1, coulour (0.000e+00,1.000e+00,0.000e+00,2.000e-01)
> >         Range   3 : imageValue in [    2.751e+03 , 3.848e+03 ]  ---> material RibBone, visibility 1, coulour (0.000e+00,0.000e+00,1.000e+00,2.000e-01)
> > ', assuming default BIGENDIAN'LITTLEENDIAN
> > 
> > 'nrecognised type name 'unsigned integer
> >  Header read from       'CT-IM00120_uint16.h33'
> > 'Data file name         'm001-IM00120.i33
> >  Nb of planes:           1
> >  Nb of pixels per plane: 512 512
> >  Pixel size:             4.590e-01 4.590e-01
> >  Slice thickness:        2.179e+00
> >  Matrix size:            2.350e+02 2.350e+02
> >  Data type:              
> >  Data byte order:        BIGENDIAN
> > 
> > 
> > '!ror: Could not open header file 'm001-IM00120.i33
> >  <!> *** WARNING *** <!>  Unknown process: PositronAnnihilationStd
> >  <!> *** WARNING *** <!>  Unknown process: MultipleScattering
> >  <!> *** WARNING *** <!>  Unknown process: MultipleScattering
> > 
> >  
> >  
> >  List of Enabled processes:
> > 
> > 
> >    ===  Process: PhotoElectric  ===
> > Particle: gamma
> >     * Model(s):
> >        - StandardModel
> > 
> >    ===  Process: Compton  ===
> > Particle: gamma
> >     * Model(s):
> >        - StandardModel
> > 
> >    ===  Process: Bremsstrahlung  ===
> > Particle: e+
> >     * Model(s):
> >        - StandardModel
> > Particle: e-
> >     * Model(s):
> >        - StandardModel
> > 
> >    ===  Process: ElectronIonisation  ===
> > Particle: e+
> >     * Model(s):
> >        - StandardModel
> > Particle: e-
> >     * Model(s):
> >        - StandardModel
> > 
> > List of initialized processes:
> > 
> > [Core-0] Initialization of geometry
> > G4PhysicalVolumeModel::Validate(): A volume of the same name and
> >   copy number ("world_phys", copy 0) still exists and is being used.
> >   But it is not the same volume you originally specified
> >   in /vis/scene/add/.
> > [Core-0] Initialization of physics
> > [Core-0] Initialization of actors
> > 
> > GATE object:        'systems/cylindricalPET'
> >  
> >  Components:    
> > 
> > GATE object:        'systems/cylindricalPET/base'
> > Attached to volume: cylindricalPET
> > Nb of children:       1
> > 
> >         GATE object:        'systems/cylindricalPET/rsector'
> >         Attached to volume: head
> >         Nb of children:       1
> > 
> >                 GATE object:        'systems/cylindricalPET/module'
> >                 Attached to volume: ---
> >                 Nb of children:       1
> > 
> >                         GATE object:        'systems/cylindricalPET/submodule'
> >                         Attached to volume: block
> >                         Nb of children:       1
> > 
> >                                 GATE object:        'systems/cylindricalPET/crystal'
> >                                 Attached to volume: crystal
> >                                 Nb of children:       4
> > 
> >                                         GATE object:        'systems/cylindricalPET/layer0'
> >                                         Attached to volume: LYSO
> >                                         Nb of children:       0
> > 
> >                                         GATE object:        'systems/cylindricalPET/layer1'
> >                                         Attached to volume: LSO
> >                                         Nb of children:       0
> > 
> >                                         GATE object:        'systems/cylindricalPET/layer2'
> >                                         Attached to volume: ---
> >                                         Nb of children:       0
> > 
> >                                         GATE object:        'systems/cylindricalPET/layer3'
> >                                         Attached to volume: ---
> >                                         Nb of children:       0
> > geometrical design type: 1
> > ring diameter: -1.750e+01 cm 
> > rsector axial pitch: 0.000e+00 fm 
> > rsector azimuthal pitch: -4.500e+01 degree
> > rsector tangential size: 2.000e+00 cm 
> > rsector axial size: 2.530e+01 cm 
> > module axial size: 2.530e+01 cm 
> > module tangential size: 2.000e+00 cm 
> >  module axial pitch: 0.000e+00 fm 
> > module tangential pitch: 0.000e+00 fm 
> > submodule axial size: 1.900e+00 cm 
> > submodule tangential size: 2.000e+00 cm 
> > submodule axial pitch: 1.950e+00 cm 
> > submodule tangential pitch: 0.000e+00 fm 
> > crystal radial size: 2.200e+00 mm 
> > crystal axial size: 2.200e+00 mm 
> > crystal tangential size: 2.000e+00 cm 
> > crystal axial pitch: 2.400e+00 mm 
> > crystal tangential pitch: 0.000e+00 fm 
> > layer0 radial size: 2.200e+00 mm 
> > in layer0 interaction length: 1.100e+00 mm 
> > layer1 radial size: 2.200e+00 mm 
> > in layer1 interaction length: 1.100e+00 mm 
> > Axial nb of rsectors: 1
> > Azimuthal nb of rsectors: 8
> > Axial nb of modules: 1
> > Tangential nb of modules: 1
> > Axial nb of submodules: 13
> > Tangential nb of submodules: 1
> > Axial nb of crystals: 8
> > Tangential nb of crystals: 1
> > Radial nb of layers: 2
> >  Range Translator
> >         Range   0 : imageValue in [    0.000e+00 , 1.500e+03 ]  ---> activity (Bq) 0.000e+00
> >         Range   1 : imageValue in [    1.501e+03 , 2.250e+03 ]  ---> activity (Bq) 1.000e+01
> >         Range   2 : imageValue in [    2.251e+03 , 2.750e+03 ]  ---> activity (Bq) 2.000e+01
> >         Range   3 : imageValue in [    2.751e+03 , 3.848e+03 ]  ---> activity (Bq) 3.000e+01
> > GateSourceVoxelImageReader::ReadFile : fileName: CT-IM00120_uint16.h33
> > ', assuming default BIGENDIAN'LITTLEENDIAN
> > 
> > 'nrecognised type name 'unsigned integer
> >  Header read from       'CT-IM00120_uint16.h33'
> > 'Data file name         'm001-IM00120.i33
> >  Nb of planes:           1
> >  Nb of pixels per plane: 512 512
> >  Pixel size:             4.590e-01 4.590e-01
> >  Slice thickness:        2.179e+00
> >  Matrix size:            2.350e+02 2.350e+02
> >  Data type:              
> >  Data byte order:        BIGENDIAN
> > 
> > 
> > '!ror: Could not open header file 'm001-IM00120.i33
> >  **** Error: Volume does not exist **** 
> >  Ignoring confine condition
> > Source ---------------> voxel_brain
> >   ID                  : 0
> >   type                : backtoback
> >   startTime (s)       : 0.000e+00
> >   time (s)            : 0.000e+00
> >   forcedUnstable      : 0
> >   verboseLevel        : 0
> > ----------------------- 
> >   Voxel reader ---------->   number of voxels       : 0
> >   total activity (Bq)    : 0.000e+00
> >   position  (mm)         : 0.000e+00 0.000e+00 0.000e+00
> >   voxel size  (mm)    : 1.000e+00 1.000e+00 1.000e+00
> > Source --------------> voxel_brain
> >   ID                 : 0
> >   type               : backtoback
> >   activity (Bq)      : 0.000e+00
> >   startTime (s)      : 0.000e+00
> >   time (s)           : 0.000e+00
> >   forcedUnstable     : 0
> >   forcedHalfLife (s) : -6.931e-01
> >   verboseLevel       : 0
> >   relative to vol    : World
> > ---------------------- 
> > 
> >     GPS info ----------------> 
> >     particle                 : gamma
> >     SourcePosType            : Point
> >     Shape                    : NULL
> >     halfx,halfy,halfz  (mm)  : 0.000e+00 0.000e+00 0.000e+00
> >     Radius             (mm)  : 0.000e+00
> >     CentreCoords       (mm)  : 0.000e+00 0.000e+00 0.000e+00
> >     EnergyDisType            : Mono
> >     AngleDisType            : iso
> >     MinTheta, MaxTheta (deg) : 0.000e+00 1.800e+02
> >     MinPhi, MaxPhi     (deg) : 0.000e+00 3.600e+02
> >     -------------------------- 
> > 
> > GateSourceMgr::ListSources: List of the sources in the source manager
> > Source ---------------> voxel_brain
> >   ID                  : 0
> >   type                : backtoback
> >   startTime (s)       : 0.000e+00
> >   time (s)            : 0.000e+00
> >   forcedUnstable      : 0
> > 
> >  verboseLevel        : 0
> > ----------------------- 
> > ***** COMMAND NOT FOUND </gate/output/root/setRootdelayFlag 1> *****
> > 
> > ***** Batch is interrupted!! *****
> > [Acquisition-0]                                      
> > [Acquisition-0] ============= Source initialization =============
> > [Acquisition-0]                                      
> > [Acquisition-0] ============= Acquisition starts! =============
> > [Acquisition-0] Simulation start time = 0 sec
> > [Acquisition-0] Simulation end time   = 2.5 sec
> > [Acquisition-0] Simulation will have  = 1 run(s)
> > [Acquisition-0] 
> > [Acquisition-0] Slice 0 from 0 to 2.5 s [slice=2.5 s], final stop at 2.5 s.
> > 
> > PhotoElectric:   for  gamma    SubType= 12
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >        PhotoElectric :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> > 
> > Compton:   for  gamma    SubType= 13
> >       Lambda tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins, spline: 1
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >        Klein-Nishina :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> > 
> > Bremsstrahlung:   for  e-    SubType= 3
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       LPM flag: 1 for E > 1.000e+00 GeV
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >              eBremSB :  Emin= 0.000e+00 eV    Emax= 1.000e+00 GeV   AngularGenUrban
> >             eBremLPM :  Emin= 1.000e+00 GeV   Emax= 1.000e+01 TeV   AngularGenUrban
> > 
> > ElectronIonisation:   for  e-    SubType= 2
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       finalRange(mm)= 1.000e+00, dRoverRange= 2.000e-01, integral: 1, fluct: 1, linLossLimit= 1.000e-02
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >         MollerBhabha :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> > 
> > Bremsstrahlung:   for  e+    SubType= 3
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       LPM flag: 1 for E > 1.000e+00 GeV
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >              eBremSB :  Emin= 0.000e+00 eV    Emax= 1.000e+00 GeV   AngularGenUrban
> >             eBremLPM :  Emin= 1.000e+00 GeV   Emax= 1.000e+01 TeV   AngularGenUrban
> > 
> > ElectronIonisation:   for  e+    SubType= 2
> >       dE/dx and range tables from 1.000e+02 eV  to 1.000e+01 TeV in 77 bins
> >       Lambda tables from threshold to 1.000e+01 TeV in 77 bins, spline: 1
> >       finalRange(mm)= 1.000e+00, dRoverRange= 2.000e-01, integral: 1, fluct: 1, linLossLimit= 1.000e-02
> >       ===== EM models for the G4Region  DefaultRegionForTheWorld ======
> >         MollerBhabha :  Emin= 0.000e+00 eV    Emax= 1.000e+01 TeV
> > 1 event has been kept for refreshing and/or reviewing.
> >      User simulation time (sec)   := 4.900e-01
> >      Real simulation time (sec)   := 2.860e+00
> >      System simulation time (sec) := 6.000e-02
> > [Core-0] End of macro hrrt.mac
> > GateOutputMgr deleting...
> > Graphics systems deleted.
> > Visualization Manager deleting...
> > WARNING - Attempt to delete the physical volume store while geometry closed !
> > WARNING - Attempt to delete the logical volume store while geometry closed !
> > WARNING - Attempt to delete the solid store while geometry closed !
> > WARNING - Attempt to delete the region store while geometry closed !
> > 
> > 
> >  
> > 
> > _______________________________________________
> > Gate-users mailing list
> > Gate-users at lists.opengatecollaboration.org
> > http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
> 
> 
> 
> 
> ------------------------------
> 
> _______________________________________________
> Gate-users mailing list
> Gate-users at lists.opengatecollaboration.org
> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
> 
> End of Gate-users Digest, Vol 82, Issue 6
> *****************************************
 		 	   		  
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