diff --git a/.gitignore b/.gitignore
index 491f19f94ad20f3f9e7c4d6e0729a9c6fabfc3e7..0b32f91f21a82f38540d5e890279fb4e5a9c0278 100644
--- a/.gitignore
+++ b/.gitignore
@@ -19,6 +19,7 @@
*.h5
*.o
*.a
+*.png
logs/
results/
results_old/
diff --git a/matlab/create_gif.m b/matlab/create_gif.m
index 826ea6def012776a647ec57e97ccd545e6f2ed0b..f2445a7f9af68af4b4ce9442aa16ade29d80869a 100644
--- a/matlab/create_gif.m
+++ b/matlab/create_gif.m
@@ -13,7 +13,7 @@ else
% Setup figure frame
fig = figure('Color','white','Position', [100, 100, 400, 400]);
pcolor(X,Y,FIELD(:,:,1)); % to set up
- colormap jet
+ colormap gray
axis tight manual % this ensures that getframe() returns a consistent size
if INTERP
shading interp;
diff --git a/matlab/create_gif_3D.m b/matlab/create_gif_3D.m
index 188349dba19c3e7c75e625a5af0d940fa2a3ddc2..646080fc0920fddb4f0d48db3d81fa92ccb8cf2d 100644
--- a/matlab/create_gif_3D.m
+++ b/matlab/create_gif_3D.m
@@ -10,7 +10,6 @@ fig = figure('Color','white','Position', [100, 100, 400, 400]);
scale_z = max(abs(plt(Z(:,:,1))));
plot3(plt(X)/scale_x,plt(Y)/scale_y,plt(Z)/scale_z,'.k','MarkerSize',MARKERSIZE);
view(VIEW);
- colormap jet
axis tight manual % this ensures that getframe() returns a consistent size
in = 1;
nbytes = fprintf(2,'frame %d/%d',in,numel(FRAMES));
diff --git a/matlab/default_plots_options.m b/matlab/default_plots_options.m
index ed53cc039f90ba647c6f2c417f7ad72e716e7578..56e500d37e083493255aef09c715982e40ac57ea 100644
--- a/matlab/default_plots_options.m
+++ b/matlab/default_plots_options.m
@@ -6,4 +6,5 @@ set(0,'defaultAxesFontSize',16)
set(0, 'DefaultLineLineWidth', 2.0);
line_colors = [[0, 0.4470, 0.7410];[0.8500, 0.3250, 0.0980];[0.9290, 0.6940, 0.1250];...
[0.4940, 0.1840, 0.5560];[0.4660, 0.6740, 0.1880];[0.3010, 0.7450, 0.9330];[0.6350, 0.0780, 0.1840]];
-line_styles = {'-','-.','--',':'};
\ No newline at end of file
+line_styles = {'-','-.','--',':'};
+marker_styles = {'^','v','o','s'};
\ No newline at end of file
diff --git a/matlab/save_figure.m b/matlab/save_figure.m
index e71ee646951dc1664ee43b5f009d07f451298b36..c5a9c72c39868cd1b4f840b20075f971e1c77c58 100644
--- a/matlab/save_figure.m
+++ b/matlab/save_figure.m
@@ -1,5 +1,8 @@
%% Auxiliary script to save figure using a dir (FIGDIR), name (FIGNAME)
% and parameters
-FIGNAME = [BASIC.RESDIR, FIGNAME,FMT];
-saveas(fig,FIGNAME);
-disp(['Figure saved @ : ',FIGNAME])
\ No newline at end of file
+if ~exist([BASIC.RESDIR,'/fig'], 'dir')
+ mkdir([BASIC.RESDIR,'/fig'])
+end
+saveas(fig,[BASIC.RESDIR,'/fig/', FIGNAME,'.fig']);
+saveas(fig,[BASIC.RESDIR, FIGNAME,'.png']);
+disp(['Figure saved @ : ',[BASIC.RESDIR, FIGNAME,'.png']])
\ No newline at end of file
diff --git a/wk/analysis_2D.m b/wk/analysis_2D.m
index 1ffdb66d1705c94f5184869cc8f5dcfb5d9f0693..6c739bb4c5052b3fdae5a3523f85c80217f0bf98 100644
--- a/wk/analysis_2D.m
+++ b/wk/analysis_2D.m
@@ -1,4 +1,5 @@
%% Load results
+% JOBNUM = 0; load_results;
compile_results
%% Retrieving max polynomial degree and sampling info
@@ -165,7 +166,7 @@ save_figure
%%
if 1
%% Show frame in real space
-tf = 100; [~,it] = min(abs(Ts2D-tf)); [~,it5D] = min(abs(Ts5D-tf));
+tf = 1000; [~,it] = min(abs(Ts2D-tf)); [~,it5D] = min(abs(Ts5D-tf));
fig = figure; FIGNAME = ['rz_frame',sprintf('_%.2d',JOBNUM)];
subplot(221); plt = @(x) (((x)));
pclr = pcolor((RR),(ZZ),plt(ne00(:,:,it))); set(pclr, 'edgecolor','none'); colorbar;
diff --git a/wk/fort.90 b/wk/fort.90
index c849db79e720ade275ed7a76d4d88da685d19064..f684ea3ed002a4a38469b7a7a93836c8a4e43276 100644
--- a/wk/fort.90
+++ b/wk/fort.90
@@ -1,7 +1,7 @@
&BASIC
nrun = 100000000
dt = 0.01
- tmax = 200
+ tmax = 300
RESTART = .false.
/
&GRID
@@ -25,9 +25,9 @@
write_phi = .true.
write_non_lin = .true.
write_doubleprecision = .true.
- resfile0 = '../results/ZP/256x128_L_66_Pe_2_Je_1_Pi_2_Ji_1_nB_0.5_nN_1_nu_1e-02_DG_mu_5e-04/outputs'
- rstfile0 = '../results/ZP/256x128_L_66_Pe_2_Je_1_Pi_2_Ji_1_nB_0.5_nN_1_nu_1e-02_DG_mu_5e-04/checkpoint'
- job2load = 1
+ resfile0 = '../results/ZP/256x128_L_66_Pe_2_Je_1_Pi_2_Ji_1_nB_0.4_nN_1_nu_1e-02_DG_mu_5e-04/outputs'
+ rstfile0 = '../results/ZP/256x128_L_66_Pe_2_Je_1_Pi_2_Ji_1_nB_0.4_nN_1_nu_1e-02_DG_mu_5e-04/checkpoint'
+ job2load = 0
/
&MODEL_PAR
! Collisionality
@@ -44,7 +44,7 @@
q_i = 1
eta_n = 1
eta_T = 0
- eta_B = 0.5
+ eta_B = 0.4
lambdaD = 0
kr0KH = 0
A0KH = 0
diff --git a/wk/load_results.m b/wk/load_results.m
index 5fccf08ef6a800454e2452f411f99ca39804dca3..43bdbdeb1d508f8aef6373ca1528731c7b1e45f2 100644
--- a/wk/load_results.m
+++ b/wk/load_results.m
@@ -2,7 +2,8 @@
filename = sprintf([BASIC.RESDIR,'outputs_%.2d.h5'],JOBNUM);
disp(['Loading ',filename])
% Loading from output file
-% CPUTIME = h5readatt(filename,'/data/input','cpu_time');
+CPUTIME = h5readatt(filename,'/data/input','cpu_time');
+DT_SIM = h5readatt(filename,'/data/input','dt');
if strcmp(OUTPUTS.write_moments,'.true.')
[Nipj, Pi, Ji, kr, kz, Ts5D, dt5D] = load_5D_data(filename, 'moments_i');
[Nepj, Pe, Je ] = load_5D_data(filename, 'moments_e');
diff --git a/wk/parameters_ZP.m b/wk/parameters_ZP.m
index 4033fbd2410165c2b4c623a87e30df5dd6af52b9..4339223c3486054826a8097812b3a56a62e59bc3 100644
--- a/wk/parameters_ZP.m
+++ b/wk/parameters_ZP.m
@@ -1,13 +1,12 @@
clear all;
addpath(genpath('../matlab')) % ... add
-default_plots_options
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Set Up parameters
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% PHYSICAL PARAMETERS
NU = 1e-2; % Collision frequency
TAU = 1.0; % e/i temperature ratio
-ETAB = 0.5; % Magnetic gradient
+ETAB = 0.4; % Magnetic gradient
ETAN = 1.0; % Density gradient
ETAT = 0.0; % Temperature gradient
MU = 5e-4; % Hyper diffusivity coefficient
@@ -20,12 +19,12 @@ JMAXE = 1; % Highest '' Laguerre ''
PMAXI = 2; % Highest ion Hermite polynomial degree
JMAXI = 1; % Highest '' Laguerre ''
%% TIME PARAMETERS
-TMAX = 200; % Maximal time unit
+TMAX = 300; % Maximal time unit
DT = 1e-2; % Time step
SPS2D = 2; % Sampling per time unit for 2D arrays
SPS5D = 0.1; % Sampling per time unit for 5D arrays
RESTART = 0; % To restart from last checkpoint
-JOB2LOAD= 01;
+JOB2LOAD= 0;
%% OPTIONS
SIMID = 'ZP'; % Name of the simulation
CO = -2; % Collision operator (0 : L.Bernstein, -1 : Full Coulomb, -2 : Dougherty)