diff --git a/matlab/load/quick_gene_load.m b/matlab/load/quick_gene_load.m
index 6d2dfa7652705810e0d94cb24c7910a60b5c902c..015406b7e6d8c1a9e9fba748f88544ae924a915b 100644
--- a/matlab/load/quick_gene_load.m
+++ b/matlab/load/quick_gene_load.m
@@ -15,7 +15,7 @@
% title('gyroLES results for H&P fig. 2c')
%% Plot linear results
-path = '/home/ahoffman/gene/linear_zpinch_results/';
+% path = '/home/ahoffman/gene/linear_zpinch_results/';
% fname ='tmp.txt';
% fname ='GENE_LIN_Kn_1.8_KT_0.45_nuSG_0.047_32x16.txt';
% fname ='GENE_LIN_Kn_1.5_KT_0.325_nuSG_0.047_32x16.txt';
@@ -29,7 +29,7 @@ path = '/home/ahoffman/gene/linear_zpinch_results/';
% fname ='GENE_LIN_Kn_1.8_KT_0.4_nuLDDK_0.0047_64x32.txt';
% fname ='GENE_LIN_Kn_1.8_KT_0.45_nu_0_32x16.txt';
% fname ='GENE_LIN_Kn_1.8_KT_0.45_nuSG_0.0235_64x32.txt';
-fname ='GENE_LIN_Kn_1.9_KT_0.475_nuSG_0.047_64x32.txt';
+% fname ='GENE_LIN_Kn_1.9_KT_0.475_nuSG_0.047_64x32.txt';
% fname ='GENE_LIN_Kn_1.9_KT_0.475_nuSG_0.235_64x32.txt';
% fname ='GENE_LIN_Kn_1.7_KT_0.425_nuSG_0.235_64x32.txt';
% fname ='GENE_LIN_Kn_1.8_KT_0.45_nuSGDK_0.047_32x16.txt';
@@ -40,6 +40,8 @@ fname ='GENE_LIN_Kn_1.9_KT_0.475_nuSG_0.047_64x32.txt';
% fname ='GENE_LIN_Kn_2.0_KT_0.5_nuSGDK_0.0235_32x16.txt';
% fname ='GENE_LIN_Kn_1.6_KT_0.4_nu_0_32x16.txt';
% fname ='GENE_LIN_Kn_2.5_KT_0.625_nu_0_32x16.txt';
+path = '/home/ahoffman/gene/linear_CBC_results/';
+fname = 'CBC_100_ky_1e-1_to_1e1.txt';
data_ = load([path,fname]);
figure
diff --git a/matlab/plot/plot_ballooning.m b/matlab/plot/plot_ballooning.m
index 49d5924876e609537fa9cce8f2d068734d9540f1..435573a688a5d16f2b99149aeba7ced167d3724a 100644
--- a/matlab/plot/plot_ballooning.m
+++ b/matlab/plot/plot_ballooning.m
@@ -1,17 +1,27 @@
function [FIG] = plot_ballooning(data,options)
FIG.fig = figure; iplot = 1;
- [~,it] = min(abs(data.Ts3D - options.time_2_plot));
+ [~,it0] = min(abs(data.Ts3D - options.time_2_plot(1)));
+ [~,it1] = min(abs(data.Ts3D - options.time_2_plot(end)));
[~,ikyarray] = min(abs(data.ky - options.kymodes));
- phi_real=(real(data.PHI(:,:,:,it)));
- phi_imag=(imag(data.PHI(:,:,:,it)));
+ phi_real=mean(real(data.PHI(:,:,:,it0:it1)),4);
+ phi_imag=mean(imag(data.PHI(:,:,:,it0:it1)),4);
% Apply baollooning tranform
for iky=ikyarray
dims = size(phi_real);
- phib_real = zeros( dims(2)*dims(3) ,1);
+
+ if options.sheared
+ idx = -Nkx:1:Nkx;
+ ikxlim = dims(2);
+ else
+ idx = 0;
+ ikxlim = 1;
+ end
+
+ phib_real = zeros( ikxlim*dims(3) ,1);
phib_imag= phib_real;
b_angle = phib_real;
-
- for ikx =1: dims(2)
+
+ for ikx =1:ikxlim
start_ = (ikx -1)*dims(3) +1;
end_ = ikx*dims(3);
phib_real(start_:end_) = phi_real(iky,ikx,:);
@@ -20,8 +30,7 @@ function [FIG] = plot_ballooning(data,options)
% Define ballooning angle
Nkx = numel(data.kx)-1; coordz = data.z;
- idx = -Nkx:1:Nkx;
- for ikx =1: dims(2)
+ for ikx =1: ikxlim
for iz=1:dims(3)
ii = dims(3)*(ikx -1) + iz;
b_angle(ii) =coordz(iz) + 2*pi*idx(ikx);
@@ -47,8 +56,8 @@ function [FIG] = plot_ballooning(data,options)
legend('real','imag','norm')
xlabel('$\chi / \pi$')
ylabel('$\phi_B (\chi)$');
- title(['ky=',sprintf('%1.1f',data.ky(iky)),...
- ',t=',sprintf('%1.1f',data.Ts3D(it))]);
+ title(['$k_y=',sprintf('%1.1f',data.ky(iky)),...
+ ',t_{avg}\in [',sprintf('%1.1f',data.Ts3D(it0)),',',sprintf('%1.1f',data.Ts3D(it1)),']$']);
iplot = iplot + 1;
end
end
diff --git a/matlab/plot/save_figure.m b/matlab/plot/save_figure.m
index 1aa1dd64952fd181fced9e760a7ddfc761a139d5..d1ce56e2c59f6dfa9b6df4e6d62fac4d4dafd2b3 100644
--- a/matlab/plot/save_figure.m
+++ b/matlab/plot/save_figure.m
@@ -1,10 +1,10 @@
%% Auxiliary script to save figure using a dir (FIGDIR), name (FIGNAME)
% and parameters
function save_figure(data,FIGURE)
-if ~exist([data.localdir,'/fig'], 'dir')
- mkdir([data.localdir,'/fig'])
+if ~exist([data.FIGDIR,'/fig'], 'dir')
+ mkdir([data.FIGDIR,'/fig'])
end
-saveas(FIGURE.fig,[data.localdir,'/fig/', FIGURE.FIGNAME,'.fig']);
-saveas(FIGURE.fig,[data.localdir, FIGURE.FIGNAME,'.png']);
-disp(['Figure saved @ : ',[data.localdir, FIGURE.FIGNAME,'.png']])
+saveas(FIGURE.fig,[data.FIGDIR,'/fig/', FIGURE.FIGNAME,'.fig']);
+saveas(FIGURE.fig,[data.FIGDIR, FIGURE.FIGNAME,'.png']);
+disp(['Figure saved @ : ',[data.FIGDIR, FIGURE.FIGNAME,'.png']])
end
\ No newline at end of file
diff --git a/matlab/setup.m b/matlab/setup.m
index 5233fad4be26fae7a2537e84e84f66cc3c755764..41d31c2112651cc91b02239a586e584f91504fd2 100644
--- a/matlab/setup.m
+++ b/matlab/setup.m
@@ -25,7 +25,7 @@ MODEL.KIN_E = KIN_E;
if KIN_E; MODEL.KIN_E = '.true.'; else; MODEL.KIN_E = '.false.';end;
MODEL.mu_x = MU_X;
MODEL.mu_y = MU_Y;
-MODEL.mu_z = 0;
+MODEL.mu_z = MU_Z;
MODEL.mu_p = MU_P;
MODEL.mu_j = MU_J;
MODEL.nu = NU; % hyper diffusive coefficient nu for HW
diff --git a/wk/analysis_3D.m b/wk/analysis_HeLaZ.m
similarity index 85%
rename from wk/analysis_3D.m
rename to wk/analysis_HeLaZ.m
index e9ab6b1776f0368871a18153f1704c897b397ae6..1d0382518b1aac8bd7a56a7129af36367271a619 100644
--- a/wk/analysis_3D.m
+++ b/wk/analysis_HeLaZ.m
@@ -10,16 +10,16 @@ system(['mkdir -p ',MISCDIR]);
CMD = ['rsync ', LOCALDIR,'outputs* ',MISCDIR]; disp(CMD);
system(CMD);
% Load outputs from jobnummin up to jobnummax
-JOBNUMMIN = 00; JOBNUMMAX = 08;
+JOBNUMMIN = 00; JOBNUMMAX = 20;
data = compile_results(MISCDIR,JOBNUMMIN,JOBNUMMAX); %Compile the results from first output found to JOBNUMMAX if existing
-
+data.FIGDIR = LOCALDIR;
%% PLOTS %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
default_plots_options
disp('Plots')
FMT = '.fig';
-if 1
+if 0
%% Space time diagramm (fig 11 Ivanov 2020)
options.TAVG_0 = 0.8*data.Ts3D(end);
options.TAVG_1 = data.Ts3D(end); % Averaging times duration
@@ -40,7 +40,7 @@ end
if 0
%% MOVIES %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Options
-options.INTERP = 0;
+options.INTERP = 1;
options.POLARPLOT = 0;
options.NAME = '\phi';
% options.NAME = 'N_i^{00}';
@@ -48,12 +48,12 @@ options.NAME = '\phi';
% options.NAME = 'n_i^{NZ}';
% options.NAME = '\Gamma_x';
% options.NAME = 'n_i';
-options.PLAN = 'xy';
+options.PLAN = 'yz';
% options.NAME = 'f_e';
% options.PLAN = 'sx';
-options.COMP = 9;
+options.COMP = 'avg';
% options.TIME = dat.Ts5D;
-options.TIME = 920:1:1250;
+options.TIME = 700:1:960;
data.EPS = 0.1;
data.a = data.EPS * 2000;
create_film(data,options,'.gif')
@@ -62,35 +62,33 @@ end
if 0
%% 2D snapshots
% Options
-options.INTERP = 1;
+options.INTERP = 0;
options.POLARPLOT = 0;
options.AXISEQUAL = 1;
-% options.NAME = '\phi';
+options.NAME = '\phi';
% options.NAME = 'n_i';
-options.NAME = 'N_i^{00}';
+% options.NAME = 'N_i^{00}';
% options.NAME = 'T_i';
% options.NAME = '\Gamma_x';
% options.NAME = 'k^2n_e';
-options.PLAN = 'xy';
+options.PLAN = 'yz';
% options.NAME = 'f_i';
% options.PLAN = 'sx';
-options.COMP = 'avg';
-options.TIME = [900 923 927 990];
+options.COMP = 1;
+options.TIME =[800 900 950];
data.a = data.EPS * 2e3;
fig = photomaton(data,options);
save_figure(data,fig)
end
-if 0
-%% 3D plot on the geometry
-options.INTERP = 1;
-options.NAME = 'n_i';
-options.PLANES = [1:2:12];
-options.TIME = [60];
-options.PLT_MTOPO = 1;
-data.rho_o_R = 2e-3; % Sound larmor radius over Machine size ratio
-fig = show_geometry(data,options);
-save_figure(data,fig)
+if 1
+%% Ballooning plot
+options.time_2_plot = [800 900];
+options.kymodes = [0.5];
+options.normalized = 1;
+options.sheared = 0;
+options.field = 'phi';
+fig = plot_ballooning(data,options);
end
if 0
@@ -99,9 +97,9 @@ if 0
% options.XPERP = linspace( 0,6,64);
options.SPAR = gene_data.vp';
options.XPERP = gene_data.mu';
-options.iz = 13;
-options.T = 20;
-options.PLT_FCT = 'pcolor';
+options.iz = 'avg';
+options.T = 1000;
+options.PLT_FCT = 'contour';
options.ONED = 0;
options.non_adiab = 1;
options.SPECIE = 'i';
@@ -164,12 +162,12 @@ if 0
%% Mode evolution
options.NORMALIZED = 1;
options.K2PLOT = 1;
-options.TIME = 2:20;
+options.TIME = [0.5 1]*data.Ts3D(end);
options.NMA = 1;
options.NMODES = 15;
options.iz = 9;
fig = mode_growth_meter(data,options);
-save_figure(data,fig)
+save_figure(gbms_dat,fig)
end
if 0
@@ -202,3 +200,15 @@ options.kzky = 1;
[lg, fig] = compute_3D_zpinch_growth_rate(data,trange,options);
save_figure(data,fig)
end
+
+if 0
+%% 3D plot on the geometry
+options.INTERP = 1;
+options.NAME = 'n_i';
+options.PLANES = [1:2:12];
+options.TIME = [60];
+options.PLT_MTOPO = 1;
+data.rho_o_R = 2e-3; % Sound larmor radius over Machine size ratio
+fig = show_geometry(data,options);
+save_figure(data,fig)
+end
\ No newline at end of file
diff --git a/wk/analysis_gbms.m b/wk/analysis_gbms.m
new file mode 100644
index 0000000000000000000000000000000000000000..f3a35be5dd2010050b51271abc41a00e9b589989
--- /dev/null
+++ b/wk/analysis_gbms.m
@@ -0,0 +1,81 @@
+% cd /home/ahoffman/Documents/gbms/scan_test
+% addpath(genpath('/home/ahoffman/Documents/gbms/matlab_scripts'));
+% res = gbms_get_scandir('/home/ahoffman/Documents/gbms/scan_test/scan_test/');
+% figure; plot(res.paramscan,res.growth_rate)
+
+%%
+resdir = '/home/ahoffman/Documents/gbms/benchmark_HeLaZ/shearless_linear_cyclone/';
+% resdir = '/home/ahoffman/Documents/gbms/benchmark_HeLaZ/linear_cyclone/';
+% resdir = '/home/ahoffman/molix/';
+outfile = [resdir,'field.dat.h5'];
+
+gbms_dat.Ts3D = h5read(outfile,'/data/var2d/time');
+gbms_dat.Nt = unique(numel(gbms_dat.Ts3D));
+gbms_dat.kx = unique(h5read(outfile,'/data/var2d/phi/coordkx'));
+gbms_dat.ky = unique(h5read(outfile,'/data/var2d/phi/coordky'));
+gbms_dat.z = unique(h5read(outfile,'/data/var2d/phi/coordz'));
+gbms_dat.Nx = numel(gbms_dat.kx); gbms_dat.Nkx = numel(gbms_dat.kx);
+gbms_dat.Ny = numel(gbms_dat.ky); gbms_dat.Nky = numel(gbms_dat.ky);
+gbms_dat.Nz = numel(gbms_dat.z);
+
+dky = min(gbms_dat.ky(gbms_dat.ky>0)); Ly = 2*pi/dky;
+gbms_dat.y = linspace(-Ly/2,Ly/2,gbms_dat.Ny+1); gbms_dat.y = gbms_dat.y(1:end-1);
+gbms_dat.x = 0;
+gbms_dat.PHI = zeros(gbms_dat.Ny,gbms_dat.Nx,gbms_dat.Nz,gbms_dat.Nt);
+gbms_dat.param_title = 'GBMS';
+for it = 1:gbms_dat.Nt
+
+ tmp = h5read(outfile,['/data/var2d/phi/',sprintf('%.6d',it-1)]);
+ gbms_dat.PHI(:,:,:,it) = permute(tmp.real + 1i * tmp.imaginary,[2 1 3]);
+
+end
+
+gbms_dat.localdir = resdir;
+
+%%
+if 0
+%% MOVIES %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+% Options
+options.INTERP = 1;
+options.POLARPLOT = 0;
+options.NAME = '\phi';
+options.PLAN = 'yz';
+options.COMP = 1;
+options.TIME = 0:200;
+gbms_dat.EPS = 0.1
+gbms_dat.a = gbms_dat.EPS * 2000;
+create_film(gbms_dat,options,'.gif')
+end
+
+if 0
+%% 2D snapshots
+% Options
+options.INTERP = 0;
+options.POLARPLOT = 0;
+options.AXISEQUAL = 1;
+options.NAME = '\phi';
+options.PLAN = 'yz';
+options.COMP = 1;
+options.TIME = 100;
+gbms_dat.EPS = 1e-3;
+gbms_dat.a = gbms_dat.EPS * 2000;
+fig = photomaton(gbms_dat,options);
+save_figure(gbms_dat,fig)
+end
+
+if 0
+%% linear growth rate for 3D fluxtube
+trange = [10 200];
+nplots = 1;
+lg = compute_fluxtube_growth_rate(gbms_dat,trange,nplots);
+end
+
+if 1
+%% Ballooning plot
+options.time_2_plot = data.Ts3D(end);
+options.kymodes = [0.5];
+options.normalized = 1;
+options.sheared = 0;
+options.field = 'phi';
+fig = plot_ballooning(gbms_dat,options);
+end
\ No newline at end of file
diff --git a/wk/gene_analysis_3D.m b/wk/analysis_gene.m
similarity index 84%
rename from wk/gene_analysis_3D.m
rename to wk/analysis_gene.m
index 31652e6e02748c7eeb11b462fed77d82d5620c3d..0fe05469c77ecd4444c4c8922bc0ddaa687fc4d8 100644
--- a/wk/gene_analysis_3D.m
+++ b/wk/analysis_gene.m
@@ -1,7 +1,8 @@
% folder = '/misc/gene_results/shearless_cyclone/miller_output_1.0/';
% folder = '/misc/gene_results/shearless_cyclone/miller_output_0.8/';
-% folder = '/misc/gene_results/shearless_cyclone/s_alpha_output_1.0/';
-folder = '/misc/gene_results/shearless_cyclone/linear_s_alpha_CBC_100/';
+folder = '/misc/gene_results/shearless_cyclone/s_alpha_output_1.2/';
+% folder = '/misc/gene_results/shearless_cyclone/linear_s_alpha_CBC_100/';
+% folder = '/misc/gene_results/shearless_cyclone/allmodes_CBC_100/';
% folder = '/misc/gene_results/shearless_cyclone/s_alpha_output_0.5/';
% folder = '/misc/gene_results/shearless_cyclone/LD_s_alpha_output_1.0/';
% folder = '/misc/gene_results/shearless_cyclone/LD_s_alpha_output_0.8/';
@@ -16,8 +17,9 @@ options.TAVG_1 = gene_data.Ts3D(end); % Averaging times duration
options.NMVA = 1; % Moving average for time traces
options.ST_FIELD = '\phi'; % chose your field to plot in spacetime diag (e.g \phi,v_x,G_x, Q_x)
options.INTERP = 1;
+gene_data.FIGDIR = folder;;
fig = plot_radial_transport_and_spacetime(gene_data,options);
-% save_figure(data,fig)
+save_figure(gene_data,fig)
end
if 0
@@ -34,8 +36,8 @@ options.NAME = '\phi';
options.PLAN = 'kxky';
% options.NAME ='f_e';
% options.PLAN = 'sx';
-options.COMP = 'avg';
-options.TIME = [0 500];
+options.COMP = 9;
+options.TIME = [0 50 100 200 300];
gene_data.a = data.EPS * 2000;
fig = photomaton(gene_data,options);
save_figure(gene_data,fig)
@@ -55,7 +57,7 @@ options.PLAN = 'xy';
% options.NAME = 'f_e';
% options.PLAN = 'sx';
options.COMP = 'avg';
-options.TIME = 000:700;
+options.TIME = 000:300;
gene_data.a = data.EPS * 2000;
create_film(gene_data,options,'.gif')
end
@@ -88,11 +90,11 @@ end
if 0
%% Show f_i(vpar,mu)
-options.times = 200:600;
+options.times = 200:300;
options.specie = 'i';
-options.PLT_FCT = 'pcolor';
+options.PLT_FCT = 'contour';
options.folder = folder;
-options.iz = 1;
+options.iz = 9;
options.FIELD = '<f_>';
options.ONED = 0;
% options.FIELD = 'Q_es';
@@ -101,12 +103,12 @@ end
if 0
%% Mode evolution
-options.NORMALIZED = 1;
+options.NORMALIZED = 0;
options.K2PLOT = 1;
-options.TIME = 50:150;
+options.TIME = 100:200;
options.NMA = 1;
-options.NMODES = 5;
+options.NMODES = 15;
options.iz = 9;
fig = mode_growth_meter(gene_data,options);
-save_figure(data,fig)
-end
\ No newline at end of file
+save_figure(gene_data,fig)
+end
diff --git a/wk/analysis_header_2DZP.m b/wk/header_2DZP_results.m
similarity index 99%
rename from wk/analysis_header_2DZP.m
rename to wk/header_2DZP_results.m
index cd4f356ac323fb751a737043e92399b2fcbc9e41..9007b24197b022fb10e398ae757b68b4cce65a58 100644
--- a/wk/analysis_header_2DZP.m
+++ b/wk/header_2DZP_results.m
@@ -168,4 +168,4 @@ outfile ='';
% MISCDIR = ['/misc/HeLaZ_outputs/',outfile(46:end-8),'/'];
% end
-analysis_3D
\ No newline at end of file
+analysis_HeLaZ
\ No newline at end of file
diff --git a/wk/analysis_header.m b/wk/header_3D_results.m
similarity index 89%
rename from wk/analysis_header.m
rename to wk/header_3D_results.m
index 3ff76bdcb862c14adbc219320007d520a20714a2..113d91144a967916ca693fcd1b9683d5cbaee6b2 100644
--- a/wk/analysis_header.m
+++ b/wk/header_3D_results.m
@@ -7,11 +7,11 @@ outfile ='';
outfile ='';
% outfile ='shearless_cyclone/128x128x16xdmax_6_L_120_CBC_1.0';
% outfile ='shearless_cyclone/128x128x16xdmax_L_120_CBC_1.0';
-outfile ='shearless_cyclone/linear_CBC_120';
+outfile ='shearless_cyclone/180x180x20x4x2_L_120_CBC_0.8_to_1.0';
% outfile ='quick_run/CLOS_1_64x64_5x3_L_120_kN_2.0_kT_0.5_nu_1e-01_SGGK';
% outfile ='pedestal/64x64x16x2x1_L_300_LnT_20_nu_0.1';
% outfile ='quick_run/32x32x16_5x3_L_300_q0_2.5_e_0.18_kN_20_kT_20_nu_1e-01_DGGK';
% outfile ='shearless_cyclone/128x128x16x8x4_L_120_CTC_1.0/';
% outfile ='shearless_cyclone/180x180x20x4x2_L_120_CBC_0.8_to_1.0/';
% outfile ='pedestal/128x128x16x4x2_L_120_LnT_40_nuDG_0.1';
-run analysis_3D
+run analysis_HeLaZ
diff --git a/wk/quick_run.m b/wk/quick_run.m
index f5a8c35d3367a5850a2ab1112a06574d467f67cd..8d437c867bd14636a22241ce8e5604aa2b1e381d 100644
--- a/wk/quick_run.m
+++ b/wk/quick_run.m
@@ -13,7 +13,7 @@ EXECNAME = 'helaz3';
CLUSTER.TIME = '99:00:00'; % allocation time hh:mm:ss
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% PHYSICAL PARAMETERS
-NU = 0.0; % Collision frequency
+NU = 0.2; % Collision frequency
TAU = 1.0; % e/i temperature ratio
K_N = 2.22; % Density gradient drive
K_T = 6.96; % Temperature '''
@@ -21,15 +21,15 @@ K_E = 0.0; % Electrostat '''
SIGMA_E = 0.0233380; % mass ratio sqrt(m_a/m_i) (correct = 0.0233380)
KIN_E = 0; % 1: kinetic electrons, 2: adiabatic electrons
%% GRID PARAMETERS
-PMAXE = 4; % Hermite basis size of electrons
-JMAXE = 2; % Laguerre "
-PMAXI = 4; % " ions
-JMAXI = 2; % "
+PMAXE = 8; % Hermite basis size of electrons
+JMAXE = 4; % Laguerre "
+PMAXI = 8; % " ions
+JMAXI = 4; % "
NX = 1; % real space x-gridpoints
-NY = 24; % '' y-gridpoints
+NY = 64; % '' y-gridpoints
LX = 100; % Size of the squared frequency domain
-LY = 100; % Size of the squared frequency domain
-NZ = 32; % number of perpendicular planes (parallel grid)
+LY = 60; % Size of the squared frequency domain
+NZ = 16; % number of perpendicular planes (parallel grid)
NPOL = 1;
SG = 0; % Staggered z grids option
%% GEOMETRY
@@ -39,8 +39,8 @@ Q0 = 1.4; % safety factor
SHEAR = 0.0; % magnetic shear (Not implemented yet)
EPS = 0.18; % inverse aspect ratio
%% TIME PARMETERS
-TMAX = 10; % Maximal time unit
-DT = 2e-2; % Time step
+TMAX = 30; % Maximal time unit
+DT = 2*5e-3; % Time step
SPS0D = 1; % Sampling per time unit for 2D arrays
SPS2D = 0; % Sampling per time unit for 2D arrays
SPS3D = 1; % Sampling per time unit for 2D arrays
@@ -48,12 +48,12 @@ SPS5D = 1; % Sampling per time unit for 5D arrays
SPSCP = 0; % Sampling per time unit for checkpoints
JOB2LOAD= -1;
%% OPTIONS
-SIMID = 'quick_run'; % Name of the simulation
+SIMID = 'dbg'; % Name of the simulation
LINEARITY = 'linear'; % activate non-linearity (is cancelled if KXEQ0 = 1)
% Collision operator
% (LB:L.Bernstein, DG:Dougherty, SG:Sugama, LR: Lorentz, LD: Landau)
CO = 'DG';
-GKCO = 1; % gyrokinetic operator
+GKCO = 0; % gyrokinetic operator
ABCO = 1; % interspecies collisions
INIT_ZF = 0; ZF_AMP = 0.0;
CLOS = 1; % Closure model (0: =0 truncation, 1: gyrofluid closure (p+2j<=Pmax))s
@@ -89,10 +89,10 @@ setup
system(['rm fort*.90']);
% Run linear simulation
if RUN
- system(['cd ../results/',SIMID,'/',PARAMS,'/; time mpirun -np 4 ',HELAZDIR,'bin/',EXECNAME,' 1 4 1 0; cd ../../../wk'])
+% system(['cd ../results/',SIMID,'/',PARAMS,'/; time mpirun -np 4 ',HELAZDIR,'bin/',EXECNAME,' 1 4 1 0; cd ../../../wk'])
% system(['cd ../results/',SIMID,'/',PARAMS,'/; mpirun -np 1 ',HELAZDIR,'bin/',EXECNAME,' 1 1 1 0; cd ../../../wk'])
% system(['cd ../results/',SIMID,'/',PARAMS,'/; mpirun -np 4 ',HELAZDIR,'bin/',EXECNAME,' 1 2 2 0; cd ../../../wk'])
-% system(['cd ../results/',SIMID,'/',PARAMS,'/; mpirun -np 6 ',HELAZDIR,'bin/',EXECNAME,' 1 3 2 0; cd ../../../wk'])
+ system(['cd ../results/',SIMID,'/',PARAMS,'/; mpirun -np 6 ',HELAZDIR,'bin/',EXECNAME,' 1 6 1 0; cd ../../../wk'])
end
%% Load results
@@ -111,16 +111,17 @@ nplots = 1;
lg = compute_fluxtube_growth_rate(data,trange,nplots);
end
-if 0
+if 1
%% Ballooning plot
options.time_2_plot = data.Ts3D(end);
-options.kymodes = [0.4 0.5 0.6];
+options.kymodes = [0.5];
options.normalized = 1;
+options.sheared = 0;
options.field = 'phi';
fig = plot_ballooning(data,options);
end
-if 1
+if 0
%% Hermite-Laguerre spectrum
% options.TIME = 'avg';
options.P2J = 1;
@@ -133,8 +134,8 @@ options.JOBNUM = 0;
options.TIME = [0 50];
options.specie = 'i';
options.compz = 'avg';
-% fig = show_moments_spectrum(data,options);
-fig = show_napjz(data,options);
+fig = show_moments_spectrum(data,options);
+% fig = show_napjz(data,options);
save_figure(data,fig)
end
@@ -148,3 +149,15 @@ options.kzky = 0;
[lg, fig] = compute_3D_zpinch_growth_rate(data,trange,options);
save_figure(data,fig)
end
+
+if 1
+%% Mode evolution
+options.NORMALIZED = 1;
+options.K2PLOT = 1;
+options.TIME = [0.8 1]*data.Ts3D(end);
+options.NMA = 1;
+options.NMODES = 5;
+options.iz = 9;
+fig = mode_growth_meter(data,options);
+save_figure(gbms_dat,fig)
+end