matRad_rc

load BOXPHANTOM.mat


pln.radiationMode   = 'protons';    
pln.machine         = 'generic_MCsquare';
pln.numOfFractions  = 1;


pln.propStf.bixelWidth              = 5; 
pln.propStf.longitudinalSpotSpacing = 3;
pln.propStf.gantryAngles            = 0; 
pln.propStf.couchAngles             = 0; 
pln.propStf.numOfBeams              = numel(pln.propStf.gantryAngles);
pln.propStf.isoCenter               = ones(pln.propStf.numOfBeams,1) * matRad_getIsoCenter(cst,ct,0);

pln.propDoseCalc.doseGrid.resolution.x = 3;
pln.propDoseCalc.doseGrid.resolution.y = 3; 
pln.propDoseCalc.doseGrid.resolution.z = 3; 
pln.propDoseCalc.airOffsetCorrection = true;

modelName                   = 'none';
quantityOpt                 = 'physicalDose';  
pln.bioParam                = matRad_bioModel(pln.radiationMode,quantityOpt,modelName);
pln.propOpt.optimizer       = 'IPOPT';
                                      
                                                                           
pln.propOpt.runDAO          = false;  
pln.propOpt.runSequencing   = false;  
pln.multScen = matRad_multScen(ct,'nomScen');  
pln.propStf.useRangeShifter = false;  
pln.propDoseCalc.calcLET = true;
pln.propDoseCalc.externalCalculation = true;

stf = matRad_generateSingleBixelStf(ct,cst,pln); 


pln.propDoseCalc.engine = 'MCsquare';
pln.propDoseCalc.numHistoriesPerBeamlet = 1e6;
dij = matRad_calcDoseInfluence(ct, cst,stf, pln);
resultGUI = matRad_calcCubes(ones(dij.totalNumOfBixels,1),dij); 


%% Monte Carlo dose calculation
pln.propDoseCalc.engine = 'MCsquare';
%pln.propDoseCalc.engine = 'TOPAS';
pln.propDoseCalc.numHistoriesDirect = 1e6;
resultGUI_MC = matRad_calcDoseDirect(ct,stf,pln,cst,resultGUI.w);