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gyacomo/wk/analysis_gene.m
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analysis_gene.m
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% 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_1.2/';
% folder = '/misc/gene_results/shearless_cyclone/rm_corrections_HF/';
% folder = '/misc/gene_results/shearless_cyclone/linear_s_alpha_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/';
% folder = '/misc/gene_results/HP_fig_2a_mu_1e-2/';
% folder = '/misc/gene_results/HP_fig_2b_mu_5e-2/';
% folder = '/misc/gene_results/HP_fig_2c_mu_5e-2/';
% folder = '/misc/gene_results/LD_zpinch_1.6/';
folder = '/misc/gene_results/ZP_HP_kn_1.6_nuv_3.2/';
% folder = '/misc/gene_results/ZP_HP_kn_2.5/';
gene_data = load_gene_data(folder);
gene_data = invert_kxky_to_kykx_gene_results(gene_data);
if 1
%% Space time diagramm (fig 11 Ivanov 2020)
options.TAVG_0 = 0.6*gene_data.Ts3D(end);
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(gene_data,fig)
end
if 0
%% statistical transport averaging
options.T = [100 500];
fig = statistical_transport_averaging(gene_data,options);
end
if 0
%% 2D snapshots
% Options
options.INTERP = 1;
options.POLARPLOT = 0;
options.AXISEQUAL = 1;
% options.NAME = 'Q_x';
options.NAME = '\phi';
% options.NAME = 'n_i';
% options.NAME = '\Gamma_x';
% options.NAME = 'k^2n_e';
options.PLAN = 'xy';
% options.NAME ='f_e';
% options.PLAN = 'sx';
options.COMP = 'avg';
options.TIME = [600];
gene_data.a = data.EPS * 2000;
fig = photomaton(gene_data,options);
save_figure(gene_data,fig,'.png')
end
if 0
%% MOVIES %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Options
options.INTERP = 1;
options.POLARPLOT = 0;
options.NAME = '\phi';
% options.NAME = 'v_y';
% options.NAME = 'n_i^{NZ}';
% options.NAME = '\Gamma_x';
% options.NAME = 'n_i';
options.PLAN = 'xy';
% options.NAME = 'f_e';
% options.PLAN = 'sx';
options.COMP = 'avg';
options.TIME = gene_data.Ts3D;
gene_data.a = data.EPS * 2000;
create_film(gene_data,options,'.gif')
end
if 0
%% Geometry
names = {'$g^{xx}$','$g^{xy}$','$g^{xz}$','$g^{yy}$','$g^{yz}$','$g^{zz}$',...
'$B_0$','$\partial_x B_0$','$\partial_y B_0$','$\partial_z B_0$',...
'$J$','$R$','$\phi$','$Z$','$\partial_R x$','$\partial_Z x$'};
figure;
subplot(311)
for i = 1:6
plot(gene_data.z, gene_data.geo_arrays(:,i),'DisplayName',names{i}); hold on;
end
xlim([min(gene_data.z),max(gene_data.z)]); legend('show'); title('GENE geometry');
subplot(312)
for i = 7:10
plot(gene_data.z, gene_data.geo_arrays(:,i),'DisplayName',names{i}); hold on;
end
xlim([min(gene_data.z),max(gene_data.z)]); legend('show');
subplot(313)
for i = 11:16
plot(gene_data.z, gene_data.geo_arrays(:,i),'DisplayName',names{i}); hold on;
end
xlim([min(gene_data.z),max(gene_data.z)]); legend('show');
end
if 0
%% Show f_i(vpar,mu)
options.times = 200:300;
options.specie = 'i';
options.PLT_FCT = 'contour';
options.folder = folder;
options.iz = 1;
options.FIELD = '<f_>';
options.ONED = 0;
% options.FIELD = 'Q_es';
plot_fa_gene(options);
end
if 0
%% Time averaged spectrum
options.TIME = 300:600;
options.NORM =1;
options.NAME = '\phi';
% options.NAME = 'n_i';
% options.NAME ='\Gamma_x';
options.PLAN = 'kxky';
options.COMPZ = 'avg';
options.OK = 0;
options.COMPXY = 'avg';
options.COMPT = 'avg';
options.PLOT = 'semilogy';
fig = spectrum_1D(data,options);
% save_figure(data,fig)
end
if 0
%% Mode evolution
options.NORMALIZED = 0;
options.K2PLOT = 1;
options.TIME = 100:700;
options.NMA = 1;
options.NMODES = 15;
options.iz = 'avg';
fig = mode_growth_meter(gene_data,options);
save_figure(gene_data,fig)
end
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