Made changes to plotting functionality.

Dipolar Gas Simulator/+Plotter/makeMovie.m

@@ -1,31 +1,39 @@
-set(0,'defaulttextInterpreter','latex')
+function makeMovie(run_index) 
-set(groot, 'defaultAxesTickLabelInterpreter','latex'); set(groot, 'defaultLegendInterpreter','latex');
+    set(0,'defaulttextInterpreter','latex')
+    set(groot, 'defaultAxesTickLabelInterpreter','latex'); set(groot, 'defaultLegendInterpreter','latex');
     
-RunIdx = 1;
+    folder_path = './Data';
 
-FileDir = dir(sprintf('./Data/Run_%03i/TimeEvolution/*.mat',RunIdx));
+    FileDir = dir(sprintf(horzcat(folder_path, '/Run_%03i/*.mat'),run_index));
-NumFiles = numel(FileDir);
+    NumFiles = numel(FileDir);
-QuenchSettings = load(sprintf('./Data/Run_%03i/QuenchSettings',RunIdx),'Quench','Params','Transf','VDk','V');
-Transf = QuenchSettings.Transf; Params = QuenchSettings.Params;
-x = Transf.x; y = Transf.y; z = Transf.z;
-dx = x(2)-x(1); dy = y(2)-y(1); dz = z(2)-z(1);
     
-mkdir(sprintf('./Data/Run_%03i/Figures',RunIdx))
+    Data   = load(sprintf(horzcat(folder_path, '/Run_%03i/psi_%i.mat'),run_index,1),'Params','Transf');
-outputVideo = VideoWriter(fullfile('./Data/Movie.avi'));
-outputVideo.FrameRate = 10;
-open(outputVideo)
     
-figure(1);
+    Params = Data.Params;
-x0 = 800;
+    Transf = Data.Transf; 
-y0 = 200;
-width = 800;
-height = 600;
-set(gcf,'position',[x0,y0,width,height])
     
-EVecTemp = [];
+    x = Transf.x; y = Transf.y; z = Transf.z;
+    dx = x(2)-x(1); dy = y(2)-y(1); dz = z(2)-z(1);
     
-for ii = 2:(NumFiles-1)
+    mkdir(sprintf(horzcat(folder_path, '/Run_%03i/Figures'),run_index))
-    load(sprintf('./Data/Run_%03i/TimeEvolution/psi_%i.mat',RunIdx,ii),'psi','muchem','T','Observ','t_idx');
+    outputVideo = VideoWriter(fullfile(horzcat(folder_path, '/Movie.avi')));
+    outputVideo.FrameRate = 10;
+    open(outputVideo)
+    
+    figure(1);
+    x0 = 800;
+    y0 = 200;
+    width = 800;
+    height = 600;
+    set(gcf,'position',[x0,y0,width,height])
+    
+    for ii = 1:(NumFiles-1)
+        Data   = load(sprintf(horzcat(folder_path, '/Run_%03i/psi_%i.mat'),run_index,ii),'psi','muchem','T','Observ');
+        
+        psi    = Data.psi;
+        muchem = Data.muchem;
+        T      = Data.T;
+        Observ = Data.Observ;
 
         %Plotting
         subplot(2,3,1)
@@ -65,13 +73,13 @@ for ii = 2:(NumFiles-1)
         sgtitle(sprintf('$\\mu =%.3f \\hbar\\omega_0$,  $T=%.1f$nK, $t=%.1f$ms',muchem,T,tVal))
     
         drawnow
-    saveas(gcf,sprintf('./Data/Run_%03i/Figures/Image_%i.jpg',RunIdx,ii))
+        saveas(gcf,sprintf(horzcat(folder_path, '/Run_%03i/Figures/Image_%i.jpg'),run_index,ii))
-    img = imread(sprintf('./Data/Run_%03i/Figures/Image_%i.jpg',RunIdx,ii));
+        img = imread(sprintf(horzcat(folder_path, '/Run_%03i/Figures/Image_%i.jpg'),run_index,ii));
         writeVideo(outputVideo,img)
-%     hold off;
         clf
-end
+    end
     
-close(outputVideo)
+    close(outputVideo)
-close(figure(1))
+    close(figure(1))
-delete(sprintf('./Data/Run_%03i/Figures/*.jpg',RunIdx)) % deleting images after movie is made
+    delete(sprintf(horzcat(folder_path, '/Run_%03i/Figures/*.jpg'),run_index)) % deleting images after movie is made
+end

Dipolar Gas Simulator/+Plotter/plotLive.m

@@ -1,4 +1,4 @@
-function LPlot = LivePlot(psi,Params,Transf,Observ)
+function plotLive(psi,Params,Transf,Observ)
     set(0,'defaulttextInterpreter','latex')
     set(groot, 'defaultAxesTickLabelInterpreter','latex'); set(groot, 'defaultLegendInterpreter','latex');
     
@@ -6,8 +6,6 @@ function LPlot = LivePlot(psi,Params,Transf,Observ)
     x = Transf.x*Params.l0*1e6; 
     y = Transf.y*Params.l0*1e6; 
     z = Transf.z*Params.l0*1e6; 
-    %percentcomplete = linspace(0,1,Params.cut_off/200);
-    
     dx = x(2)-x(1); dy = y(2)-y(1); dz = z(2)-z(1);
 
     %Plotting    
@@ -43,5 +41,4 @@ function LPlot = LivePlot(psi,Params,Transf,Observ)
     subplot(2,3,6)
     plot(Observ.mucVec,'-b')
     ylabel('$\mu$'); xlabel('steps');
-%     xlim([0,1]); ylim([0,8]);
+end
-%     xlim([0,1]); ylim([0,8]);

Dipolar Gas Simulator/+Plotter/visualizeGSWavefunction.m

@@ -0,0 +1,53 @@
+function visualizeGSWavefunction(run_index)
+    set(0,'defaulttextInterpreter','latex')
+    set(groot, 'defaultAxesTickLabelInterpreter','latex'); set(groot, 'defaultLegendInterpreter','latex');
+    
+    folder_path = './Data';
+
+    Data   = load(sprintf(horzcat(folder_path, '/Run_%03i/psi_gs.mat'),run_index),'psi','Params','Transf','Observ');
+    
+    psi    = Data.psi;
+    Params = Data.Params;
+    Transf = Data.Transf; 
+    Observ = Data.Observ; 
+    
+    format long
+    x = Transf.x*Params.l0*1e6; 
+    y = Transf.y*Params.l0*1e6; 
+    z = Transf.z*Params.l0*1e6; 
+    dx = x(2)-x(1); dy = y(2)-y(1); dz = z(2)-z(1);
+
+    %Plotting    
+
+    subplot(2,3,1)
+    n = abs(psi).^2;
+    nxz = squeeze(trapz(n*dy,2));
+    nyz = squeeze(trapz(n*dx,1));
+    nxy = squeeze(trapz(n*dz,3));
+    
+    plotxz = pcolor(x,z,nxz');
+    set(plotxz, 'EdgeColor', 'none');
+    xlabel('$x$ [$\mu$m]'); ylabel('$z$ [$\mu$m]');
+       
+    subplot(2,3,2)
+    plotyz = pcolor(y,z,nyz');
+    set(plotyz, 'EdgeColor', 'none');
+    xlabel('$y$ [$\mu$m]'); ylabel('$z$ [$\mu$m]');
+
+    subplot(2,3,3)
+    plotxy = pcolor(x,y,nxy');
+    set(plotxy, 'EdgeColor', 'none');
+    xlabel('$x$ [$\mu$m]'); ylabel('$y$ [$\mu$m]');
+
+    subplot(2,3,4)
+    plot(-log10(Observ.residual),'-b')
+    ylabel('$-\mathrm{log}_{10}(r)$'); xlabel('steps');
+
+    subplot(2,3,5)
+    plot(Observ.EVec,'-b')
+    ylabel('$E$'); xlabel('steps');
+
+    subplot(2,3,6)
+    plot(Observ.mucVec,'-b')
+    ylabel('$\mu$'); xlabel('steps');
+end

Dipolar Gas Simulator/+Scripts/run_locally.m

@@ -11,20 +11,20 @@ OptionsStruct.DipolarPolarAngle       = pi/2;
 OptionsStruct.DipolarAzimuthAngle     = 0;
 OptionsStruct.ScatteringLength        = 86;
 
-OptionsStruct.TrapFrequencies         = [125, 125, 250];
+OptionsStruct.TrapFrequencies         = [50, 10, 150];
 OptionsStruct.TrapDepth               = 5;
 OptionsStruct.BoxSize                 = 15;
 OptionsStruct.TrapPotentialType       = 'Harmonic';
 
-OptionsStruct.NumberOfGridPoints      = [64, 64, 48];
+OptionsStruct.NumberOfGridPoints      = [64, 32, 64];
-OptionsStruct.Dimensions              = [40, 40, 20];
+OptionsStruct.Dimensions              = [20, 40, 80];
 OptionsStruct.CutoffType              = 'Cylindrical';
 OptionsStruct.SimulationMode          = 'ImaginaryTimeEvolution'; % 'ImaginaryTimeEvolution' | 'RealTimeEvolution'
 OptionsStruct.TimeStepSize            = 50E-6;                    % in s
 OptionsStruct.NumberOfTimeSteps       = 100;                      % in s
 OptionsStruct.EnergyTolerance         = 5E-10;
 
-OptionsStruct.JobNumber               = 6;
+OptionsStruct.JobNumber               = 1;
 OptionsStruct.SaveData                = true;
 OptionsStruct.SaveDirectory           = './Data';
 options                               = Helper.convertstruct2cell(OptionsStruct);

Dipolar Gas Simulator/+Scripts/run_on_cluster.m

@@ -16,7 +16,7 @@ OptionsStruct.TrapDepth               = 5;
 OptionsStruct.BoxSize                 = 15;
 OptionsStruct.TrapPotentialType       = 'Harmonic';
 
-OptionsStruct.NumberOfGridPoints      = [256, 512, 256];
+OptionsStruct.NumberOfGridPoints      = [128, 256, 128];
 OptionsStruct.Dimensions              = [50, 120, 150];
 OptionsStruct.CutoffType              = 'Cylindrical';
 OptionsStruct.SimulationMode          = 'ImaginaryTimeEvolution'; % 'ImaginaryTimeEvolution' | 'RealTimeEvolution'