benchmark_HeLaZ_molix.m
ea846d5c10f7shear_version

benchmark_HeLaZ_molix.m
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			addpath(genpath('../matlab')) % ... add
			default_plots_options

			%% KINETIC ELECTRON TEST
			% Run HeLaZ
			cd ..
			system('make');
			cd wk
			SIMDIR = '../results/benchmarks/shearless_molix_Kin_e/';
			system(['cd ',SIMDIR,';',' ./../../../bin/helaz3 0; cd ../../../wk'])

			% Run molix
			% cd ../../molix
			% system('make');
			% system('./bin/molix > out.txt');
			% cd ../HeLaZ/wk
			% Compare the results with molix at a given time
			time_2_plot = 5.0;
			[Y_,X_]=molix_plot_phi([SIMDIR,'molix_phi.h5'],time_2_plot);
			filename = [SIMDIR,'/outputs_00.h5'];
			[ PHI, Ts3D, dt3D] = load_3D_data(filename, 'phi');
			[Pe, Je, Pi, Ji, kx, ky, z] = load_grid_data(filename);

			plot_phi_ballooning; hold on
			plot(X_/pi,real(Y_),'ob');
			plot(X_/pi,imag(Y_),'or');
			plot(X_/pi,abs(Y_) ,'ok');

			%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
			%% ADIABATIC ELECTRON TEST
			% Run HeLaZ
			cd ..
			system('make');
			cd wk
			SIMDIR = '../results/benchmarks/shearless_molix_Adiab_e/';
			system(['cd ',SIMDIR,';',' ./../../../bin/helaz3; cd ../../../wk'])
			% Run molix
			% cd ../../molix
			% system('make');
			% system('./bin/molix > out.txt');
			% cd ../HeLaZ/wk
			% Compare the results with molix at a given time
			time_2_plot = 5.0;
			[Y_,X_]=molix_plot_phi([SIMDIR,'molix_phi.h5'],time_2_plot);
			[ PHI, Ts3D, dt3D] = load_3D_data([SIMDIR,'outputs_00.h5'], 'phi');
			[Pe, Je, Pi, Ji, kx, ky, z] = load_grid_data([SIMDIR,'outputs_00.h5']);

			plot_phi_ballooning; hold on
			plot(X_/pi,real(Y_),'ob');
			plot(X_/pi,imag(Y_),'or');
			plot(X_/pi,abs(Y_) ,'ok');