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Dear Sarah,
<div class=""><br class="">
</div>
<div class="">there has been very recently a thread in the Gate user list on exactly this question, search for <i style="color: rgba(0, 0, 0, 0.85); font-family: "Helvetica Neue";" class="">Running Gate on a Cluster (Mijat Paunovic)
</i><span style="color: rgba(0, 0, 0, 0.85); font-family: "Helvetica Neue"; font-style: normal;" class="">(14 and 15 February 2022)</span><i style="color: rgba(0, 0, 0, 0.85); font-family: "Helvetica Neue";" class="">. </i><font face="Helvetica Neue" class=""><span style="caret-color: rgba(0, 0, 0, 0.85); color: rgba(0, 0, 0, 0.85);" class="">Basically</span><span style="color: rgba(0, 0, 0, 0.85);" class="">,
if your simulation setup is not time dependent (e.g. no rotating geometry), then the basic idea is to simply run a simulation multiple times and combine the output.</span></font></div>
<div class=""><font face="Helvetica Neue" class=""><span style="color: rgba(0, 0, 0, 0.85);" class=""><br class="">
</span></font></div>
<div class=""><font face="Helvetica Neue" class=""><span style="color: rgba(0, 0, 0, 0.85);" class="">It depends a bit on whether you have multiple CPU cores available on your machine (</span><span style="caret-color: rgba(0, 0, 0, 0.85); color: rgba(0, 0, 0, 0.85);" class="">which</span><span style="color: rgba(0, 0, 0, 0.85);" class=""> is
usually the case these days), allowing you to execute </span><span style="caret-color: rgba(0, 0, 0, 0.85); color: rgba(0, 0, 0, 0.85);" class="">runs in parallel,
</span><span style="color: rgba(0, 0, 0, 0.85);" class="">or whether you only have access to one CPU </span><span style="caret-color: rgba(0, 0, 0, 0.85); color: rgba(0, 0, 0, 0.85);" class="">core, in</span><span style="color: rgba(0, 0, 0, 0.85);" class=""> </span><span style="caret-color: rgba(0, 0, 0, 0.85); color: rgba(0, 0, 0, 0.85);" class="">which</span><span style="color: rgba(0, 0, 0, 0.85);" class=""> case
you then repeat your simulation with this core </span><span style="caret-color: rgba(0, 0, 0, 0.85); color: rgba(0, 0, 0, 0.85);" class="">multiple</span><span style="color: rgba(0, 0, 0, 0.85);" class=""> times.</span></font></div>
<div class=""><font face="Helvetica Neue" class=""><span style="color: rgba(0, 0, 0, 0.85);" class=""><br class="">
</span></font></div>
<div class=""><font face="Helvetica Neue" class=""><span style="color: rgba(0, 0, 0, 0.85);" class="">Best regards,</span></font></div>
<div class=""><font face="Helvetica Neue" class=""><span style="color: rgba(0, 0, 0, 0.85);" class="">David </span></font></div>
<div class=""><font face="Helvetica Neue" class=""><span style="color: rgba(0, 0, 0, 0.85);" class=""> </span></font></div>
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<div><br class="">
<blockquote type="cite" class="">
<div class="">On 7 Mar2022, at 14:47, Sarah Blind <<a href="mailto:sarah.blind@univ-lorraine.fr" class="">sarah.blind@univ-lorraine.fr</a>> wrote:</div>
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<div class="">
<div class="">
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<div class="">Dear Dimitris Thanasas, </div>
<div class=""><br data-mce-bogus="1" class="">
</div>
<div class="">I come back to you about launching GATE with more than 10^9 primaries.</div>
<div class="">I have tried to set an activity to my source and to run the simulation for a certain time as you suggested.</div>
<div class="">It allowed me to launch my simulation with 10^10 photons, but not more.</div>
<div class=""><br data-mce-bogus="1" class="">
</div>
<div class="">Now I want to split my simulation, but I don't now how exactly and I can't find any information about it, would you give me some advices ?</div>
<div class=""><br data-mce-bogus="1" class="">
</div>
<div class="">Thank you very much for your help,</div>
<div class="">Regards,</div>
<div class="">Sarah Blind</div>
<div class=""><br class="">
</div>
<div class=""><span id="zwchr" data-marker="__DIVIDER__" class="">----- Le 25 Fév 22, à 7:59, Dimitrios Thanasas <<a href="mailto:dthanas@uoa.gr" class="">dthanas@uoa.gr</a>> a écrit :<br class="">
</span></div>
<div data-marker="__QUOTED_TEXT__" class="">
<blockquote style="border-left-width: 2px; border-left-style: solid; border-left-color: rgb(16, 16, 255); margin-left: 5px; padding-left: 5px; font-weight: normal; font-style: normal; text-decoration: none; font-family: Helvetica, Arial, sans-serif; font-size: 12pt;" class="">
Dear Sarah,<br class="">
<br class="">
You could try to give an activity to your source, (e.g. 1 GBq - without<br class="">
half life) and then to run the simulation for a certain time (e.g. 10s). I<br class="">
think that this wiil work (you may need a statactor to know exactly the<br class="">
number of the emitted particles).<br class="">
If you try to split the simulation, you may need to change the engine seed<br class="">
in order not to have the same results in each simulation.<br class="">
<br class="">
Regards,<br class="">
Dimitris<br class="">
<br class="">
> Dear Gate users,<br class="">
><br class="">
> I have the following model : 1 cell inside of which there are 12 clusters<br class="">
> of 8000 nanoparticles each.<br class="">
> My source is composed of a gamma beam of 5 keV.<br class="">
> My simulation works fine up to 10^9 photons send. But with 10^10 primaries<br class="">
> nothing happens anymore (there is no error message).<br class="">
> Does someone have an idea what the problem might be ?<br class="">
><br class="">
> Thank you very much for your help,<br class="">
> Regards,<br class="">
> Sarah Blind<br class="">
><br class="">
> world.mac<br class="">
><br class="">
><br class="">
><br class="">
><br class="">
> /gate/world/geometry/setXLength 30 um<br class="">
> /gate/world/geometry/setYLength 30 um<br class="">
> /gate/world/geometry/setZLength 30 um<br class="">
> /gate/world/setMaterial Air<br class="">
><br class="">
> /gate/world/daughters/name cell<br class="">
> /gate/world/daughters/insert sphere<br class="">
> /gate/cell/geometry/setRmin 0.0 mm<br class="">
> /gate/cell/geometry/setRmax 10 um<br class="">
> /gate/cell/placement/setTranslation 0 0 0 um<br class="">
> /gate/cell/setMaterial G4_WATER<br class="">
> /gate/cell/vis/setVisible 1<br class="">
> /gate/cell/vis/setColor blue<br class="">
> /gate/cell/vis/forceSolid false<br class="">
><br class="">
> /gate/cell/daughters/name cluster<br class="">
> /gate/cell/daughters/insert sphere<br class="">
> /gate/cluster/geometry/setRmin 0.0 mm<br class="">
> /gate/cluster/geometry/setRmax 500 nm<br class="">
> /gate/cluster/placement/setTranslation 0 0 0 um<br class="">
> /gate/cluster/setMaterial G4_WATER<br class="">
> /gate/cluster/vis/setVisible 1<br class="">
> /gate/cluster/vis/setColor yellow<br class="">
> /gate/cluster/vis/forceSolid false<br class="">
><br class="">
> /gate/cluster/daughters/name NP<br class="">
> /gate/cluster/daughters/insert sphere<br class="">
> /gate/NP/geometry/setRmin 0 mm<br class="">
> /gate/NP/geometry/setRmax 2 nm<br class="">
> /gate/NP/placement/setTranslation 0 0 0 mm<br class="">
> /gate/NP/setMaterial Bismuth<br class="">
> /gate/NP/vis/setVisible 1<br class="">
> /gate/NP/vis/setColor red<br class="">
> /gate/NP/vis/forceSolid true<br class="">
><br class="">
><br class="">
> /gate/NP/repeaters/insert cubicArray<br class="">
> /gate/NP/cubicArray/setRepeatNumberX 20<br class="">
> /gate/NP/cubicArray/setRepeatNumberY 20<br class="">
> /gate/NP/cubicArray/setRepeatNumberZ 20<br class="">
> /gate/NP/cubicArray/setRepeatVector 5 5 5 nm<br class="">
><br class="">
> /gate/cluster/repeaters/insert cubicArray<br class="">
> /gate/cluster/cubicArray/setRepeatNumberX 3<br class="">
> /gate/cluster/cubicArray/setRepeatNumberY 2<br class="">
> /gate/cluster/cubicArray/setRepeatNumberZ 2<br class="">
> /gate/cluster/cubicArray/setRepeatVector 5 5 5 um<br class="">
><br class="">
><br class="">
><br class="">
><br class="">
> physics.mac<br class="">
><br class="">
> BQ_BEGIN<br class="">
><br class="">
><br class="">
> /gate/physics/addPhysicsList QGSP_BERT_EMV<br class="">
><br class="">
> /gate/physics/Gamma/SetCutInRegion world 50 nm<br class="">
> /gate/physics/Electron/SetCutInRegion world 50 nm<br class="">
><br class="">
> /gate/physics/Gamma/SetCutInRegion cell 20 nm<br class="">
> /gate/physics/Electron/SetCutInRegion cell 20 nm<br class="">
><br class="">
> /gate/physics/Gamma/SetCutInRegion cluster 5 nm<br class="">
> /gate/physics/Electron/SetCutInRegion cluster 5 nm<br class="">
><br class="">
> /gate/physics/Gamma/SetCutInRegion NP 0.5 nm<br class="">
> /gate/physics/Electron/SetCutInRegion NP 0.5 nm<br class="">
><br class="">
> /gate/random/setEngineName MersenneTwister<br class="">
><br class="">
> /gate/physics/addAtomDeexcitation<br class="">
><br class="">
> /gate/physics/addProcess PhotoElectric gamma<br class="">
> /gate/physics/processes/PhotoElectric/setModel LivermoreModel<br class="">
> /gate/physics/processes/PhotoElectric/setAugerElectron true<br class="">
> /gate/physics/processes/PhotoElectric/setDeltaRayCut 10 eV<br class="">
> /gate/physics/processes/PhotoElectric/setXRayCut 10 eV<br class="">
> /gate/physics/processes/PhotoElectric/setStepFunction e- 0.2 0.1 nm<br class="">
><br class="">
> /gate/physics/addProcess Compton gamma<br class="">
> /gate/physics/processes/Compton/setModel LivermoreModel<br class="">
> /gate/physics/processes/Compton/setStepFunction e- 0.2 0.1 nm<br class="">
><br class="">
> /gate/physics/addProcess RayleighScattering<br class="">
> /gate/physics/processes/RayleighScattering/setModel LivermoreModel<br class="">
><br class="">
> /gate/physics/addProcess GammaConversion<br class="">
> /gate/physics/processes/GammaConversion/setModel LivermoreModel<br class="">
><br class="">
> /gate/physics/addProcess ElectronIonisation<br class="">
> /gate/physics/processes/ElectronIonisation/setModel LivermoreModel e-<br class="">
> /gate/physics/processes/ElectronIonisation/setModel PenelopeModel e+<br class="">
> /gate/physics/processes/ElectronIonisation/setStepFunction e- 0.2 0.1 nm<br class="">
><br class="">
> /gate/physics/addProcess Bremsstrahlung e-<br class="">
> /gate/physics/addProcess Bremsstrahlung e+<br class="">
> /gate/physics/processes/Bremsstrahlung/setModel LivermoreModel e-<br class="">
> /gate/physics/processes/Bremsstrahlung/setModel PenelopeModel e+<br class="">
><br class="">
> /gate/physics/addProcess eMultipleScattering e-<br class="">
> /gate/physics/addProcess eMultipleScattering e+<br class="">
> /gate/physics/processes/eMultipleScattering/setModel UrbanModel e-<br class="">
> /gate/physics/processes/eMultipleScattering/setModel UrbanModel e+<br class="">
><br class="">
> /gate/physics/SetMinKineticEnergyInRegion world 1 eV<br class="">
> /gate/physics/SetMinKineticEnergyInRegion cell 1 eV<br class="">
> /gate/physics/ActivateSpecialCuts gamma<br class="">
><br class="">
> BQ_END<br class="">
><br class="">
><br class="">
> source.mac<br class="">
><br class="">
> BQ_BEGIN<br class="">
><br class="">
><br class="">
> /gate/source/addSource mybeam gps<br class="">
> /gate/source/mybeam/gps/particle gamma<br class="">
> /gate/source/mybeam/gps/pos/type Beam<br class="">
> /gate/source/mybeam/gps/ene/mono 5 keV<br class="">
> /gate/source/mybeam/gps/ene/type Gauss<br class="">
> /gate/source/mybeam/gps/ene/sigma 1.0 keV<br class="">
> /gate/source/mybeam/gps/direction 0 0 -1<br class="">
><br class="">
> /gate/source/mybeam/gps/position 0 0 15 um<br class="">
> /gate/source/mybeam/gps/pos/type Volume<br class="">
> /gate/source/mybeam/gps/pos/shape Cylinder<br class="">
> /gate/source/mybeam/gps/pos/inner_radius 0 mm<br class="">
> /gate/source/mybeam/gps/pos/radius 10 um<br class="">
> /gate/source/mybeam/gps/pos/halfz 0.01 um<br class="">
> /gate/source/mybeam/gps/ang/type beam2d<br class="">
><br class="">
><br class="">
><br class="">
><br class="">
><br class="">
> BQ_END<br class="">
><br class="">
><br class="">
><br class="">
> _______________________________________________<br class="">
> Gate-users mailing list<br class="">
> <a href="mailto:Gate-users@lists.opengatecollaboration.org" class="">Gate-users@lists.opengatecollaboration.org</a><br class="">
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</blockquote>
</div>
<div class=""><br class="">
</div>
<div data-marker="__SIG_POST__" class="">-- <br class="">
</div>
<div class="">Sarah Blind<br class="">
Ingénieure de recherche - CNRS<br class="">
Centre de Recherche en Automatique de Nancy (CRAN) <br class="">
Département Biologie, Signaux et Systèmes en Cancérologie et Neurosciences (BioSiS)<br class="">
Site de la faculté de médecine <br class="">
9, Avenue de la Forêt de Haye <br class="">
54505 Vandoeuvre les Nancy <br class="">
Tél : 03.72.74.61.13</div>
</div>
</div>
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</blockquote>
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