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<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
dear gate users;</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
i am trying to simulate internal dosimetry in human organs using DICOM CT images and i am facing difficulties with using the correct sources and how i could located them in specific organ.</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
please have a look on the input file and advise .</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
please note that the input file i used a TPSPencilBeam because as i mention before i didn't know the correct way to locate the source in organ</div>
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</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
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<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<span>#ALIAS<br>
</span>
<div><br>
</div>
<div>#Voxelized geometry<br>
</div>
<div>/control/alias type "complex"<br>
</div>
<div><br>
</div>
<div>## DENSITY TOLERANCE<br>
</div>
<div>/control/alias dt "0.01"<br>
</div>
<div><br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # VISUALISATION <br>
</div>
<div>#/control/execute ../mac/visu.mac<br>
</div>
<div>#/vis/disable<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # MATERIALS<br>
</div>
<div>/gate/geometry/setMaterialDatabase ../data/HFMaterials.db<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div># WORLD<br>
</div>
<div>/gate/world/setMaterial Air<br>
</div>
<div>/gate/world/geometry/setXLength 3 m<br>
</div>
<div>/gate/world/geometry/setYLength 3 m<br>
</div>
<div>/gate/world/geometry/setZLength 3 m<br>
</div>
<div>/gate/world/vis/setVisible 0<br>
</div>
<div><br>
</div>
<div>/control/execute ../data/MAN_phantom.mac<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # PHYSICS<br>
</div>
<div><br>
</div>
<div>/gate/physics/addPhysicsList QBBC_EMZ<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # PARAMETERS<br>
</div>
<div>/control/alias cut "0.1"<br>
</div>
<div>/control/alias step "0.1"<br>
</div>
<div> <br>
</div>
<div> #Cut<br>
</div>
<div>/gate/physics/Gamma/SetCutInRegion patient 0.1 mm<br>
</div>
<div>/gate/physics/Electron/SetCutInRegion patient 0.1 mm<br>
</div>
<div>/gate/physics/Positron/SetCutInRegion patient 0.1 mm<br>
</div>
<div><br>
</div>
<div><br>
</div>
<div> #Tracking cut<br>
</div>
<div>/gate/physics/SetMinRemainingRangeInRegion patient 0.1 mm<br>
</div>
<div>/gate/physics/ActivateSpecialCuts e-<br>
</div>
<div>/gate/physics/ActivateSpecialCuts proton<br>
</div>
<div><br>
</div>
<div> #stepLimiter<br>
</div>
<div>/gate/physics/SetMaxStepSizeInRegion world 100 mm<br>
</div>
<div>/gate/physics/SetMaxStepSizeInRegion patient 0.1 mm<br>
</div>
<div>/gate/physics/ActivateStepLimiter proton<br>
</div>
<div>/gate/physics/ActivateStepLimiter deuteron<br>
</div>
<div>/gate/physics/ActivateStepLimiter triton<br>
</div>
<div>/gate/physics/ActivateStepLimiter alpha<br>
</div>
<div>/gate/physics/ActivateStepLimiter GenericIon<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # OUTPUTS<br>
</div>
<div><br>
</div>
<div>/control/execute ../data/actor.mac<br>
</div>
<div>/gate/actor/addActor DoseActor dose3D<br>
</div>
<div>/gate/actor/dose3D/attachTo patient<br>
</div>
<div>/gate/actor/dose3D/stepHitType random<br>
</div>
<div>/gate/actor/dose3D/setResolution 512 512 8<br>
</div>
<div>/gate/actor/dose3D/enableDose true<br>
</div>
<div>/gate/actor/dose3D/save ../output/output.mhd<br>
</div>
<div>/gate/actor/dose3D/inputDoseByRegions ../data/SYRPhantom.mhd<br>
</div>
<div>/gate/actor/dose3D/outputDoseByRegions ../output/DoseByRegions.txt<br>
</div>
<div>#/gate/actor/dose3D/addRegion 1000: 89, 90, 91<br>
</div>
<div>#/gate/actor/dose3D/addRegion 1001: 92, 93, 94
<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # INITIALISATION<br>
</div>
<div><br>
</div>
<div>/gate/run/initialize<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # SOURCE<br>
</div>
<div><br>
</div>
<div># TPSPencilBeam SOURCE<br>
</div>
<div><br>
</div>
<div>#/gate/source/addSource TPS TPSPencilBeam<br>
</div>
<div>#/gate/source/TPS/setTestFlag false<br>
</div>
<div>#/gate/source/TPS/setFlatGenerationFlag false<br>
</div>
<div>##/gate/source/TPS/setPlan ../data/PlanDescriptionffcenter.txt<br>
</div>
<div>#/gate/source/TPS/setPlan ../data/PlanDescriptionFilspots.txt<br>
</div>
<div>#/gate/source/TPS/setParticleType proton<br>
</div>
<div>#/gate/source/TPS/setSpotIntensityAsNbIons true<br>
</div>
<div>#/gate/source/TPS/setSourceDescriptionFile ../data/SourceDescriptionFile.txt<br>
</div>
<div>#/gate/source/TPS/setBeamConvergence true<br>
</div>
<div>/gate/source/addSource mybeam gps<br>
</div>
<div>/gate/source/mybeam/gps/particle proton<br>
</div>
<div>/gate/source/mybeam/gps/energy 8 MeV<br>
</div>
<div>/gate/source/mybeam/gps/energytype Mono<br>
</div>
<div>/gate/source/mybeam/gps/type Point<br>
</div>
<div>/gate/source/mybeam/gps/direction 0 0 1<br>
</div>
<div>/gate/source/mybeam/gps/pos/centre 0. 0. -0.01 cm<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # SEED<br>
</div>
<div>/gate/random/setEngineSeed 1234567890<br>
</div>
<div>#/gate/random/setEngineName MersenneTwister<br>
</div>
<div>#/gate/random/setEngineSeed auto<br>
</div>
<div><br>
</div>
<div>#================================================================<br>
</div>
<div><br>
</div>
<div> # START BEAMS<br>
</div>
<div>/gate/application/setTotalNumberOfPrimaries 10000<br>
</div>
<div>/gate/application/start<br>
</div>
<span>#/geometry/test/run</span><br>
</div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<span>------------------------------</span></div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<span><span>#HU conversion & Schneider tables<br>
</span>
<div><br>
</div>
<div>/gate/HounsfieldMaterialGenerator/SetMaterialTable ../data/Schneider2000MaterialsTable.txt<br>
</div>
<div>/gate/HounsfieldMaterialGenerator/SetDensityTable ../data/Schneider2000DensitiesTable.txt<br>
</div>
<div>/gate/HounsfieldMaterialGenerator/SetDensityTolerance 0.1 g/cm3<br>
</div>
<div>/gate/HounsfieldMaterialGenerator/SetOutputMaterialDatabaseFilename ../data/HUmaterials-0.1.db<br>
</div>
<div>/gate/HounsfieldMaterialGenerator/SetOutputHUMaterialFilename ../data/HU2mat-0.1.txt<br>
</div>
<div>/gate/HounsfieldMaterialGenerator/Generate<br>
</div>
<div><br>
</div>
<div>#patient virtual container<br>
</div>
<div>/gate/world/daughters/name patient_box<br>
</div>
<div>/gate/world/daughters/insert box<br>
</div>
<div>/gate/patient_box/setMaterial G4_AIR<br>
</div>
<div>/gate/patient_box/geometry/setXLength 50 cm<br>
</div>
<div>/gate/patient_box/geometry/setYLength 50 cm<br>
</div>
<div>/gate/patient_box/geometry/setZLength 50 cm<br>
</div>
<div><br>
</div>
<div><br>
</div>
<div>/gate/patient_box/vis/setColor yellow<br>
</div>
<div><br>
</div>
<div># Patient geometry description<br>
</div>
<div>/gate/patient_box/daughters/name patient<br>
</div>
<div>/gate/patient_box/daughters/insert ImageNestedParametrisedVolume<br>
</div>
<div><br>
</div>
<div>/gate/patient/geometry/TranslateTheImageAtThisIsoCenter 0.0 0.0 0.0 mm<br>
</div>
<div><br>
</div>
<div>/control/alias dg "0"<br>
</div>
<div><br>
</div>
<div>/gate/patient/placement/setTranslation 0.0 0.0 0.0 cm<br>
</div>
<div>/gate/patient_box/placement/setRotationAxis 0 1 0<br>
</div>
<div>/gate/patient_box/placement/setRotationAngle 0 deg<br>
</div>
<div><br>
</div>
<div>/gate/geometry/setMaterialDatabase ../data/HUmaterials-0.1.db<br>
</div>
<div>/gate/patient/geometry/setHUToMaterialFile ../data/HU2mat-0.1.txt<br>
</div>
<div>#/gate/patient/geometry/setImage ../data/phantom.mhd<br>
</div>
<div>/gate/patient/geometry/setImage ../data/SYRPhantom.mhd<br>
</div>
<span>/gate/patient/vis/setColor red</span><br>
</span></div>
<div style="font-family: Calibri, Helvetica, sans-serif; font-size: 12pt; color: rgb(0, 0, 0);">
<span><br>
</span></div>
<div id="Signature"> <font size="2" style="font-size:10pt"> <font color="#666666"><strong>Mohamad Pharaon</strong></font><br>
<font color="#666666"><strong> Nuclear Engineer </strong>
</font><br>
<font color="#666666"><strong> Teacher Assistant at Faculty Of</strong></font><br>
<font color="#666666"><strong> Mechanical And Electrical Engineering </strong></font></font><br>
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